var bibbase_data = {"data":"<img src=\"//bibbase.org/img/ajax-loader.gif\" id=\"spinner\"\n  style=\"display: none;\" alt=\"Loading..\" />\n\n<div id=\"bibbase\">\n\n  <script type=\"text/javascript\">\n    var bibbase = {\n      params: {\"bib\":\"https://raw.githubusercontent.com/chifman/chifman.github.io/main/docs/citations.bib\",\"jsonp\":\"1\",\"host\":\"bibbase.org\",\"ssl\":false},\n      data: [{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Leonard\"],\"firstnames\":[\"Alexander\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"journal\":\"J Theor Biol\",\"month\":\"Dec\",\"pages\":\"111927\",\"title\":\"Identifiability of speciation times under the multispecies coalescent\",\"volume\":\"595\",\"year\":\"2024\",\"bibtex\":\"@article{kubatko2024,\\n\\tauthor = {Kubatko, Laura and Leonard, Alexander and Chifman, Julia},\\n\\tjournal = {J Theor Biol},\\n\\tmonth = {Dec},\\n\\tpages = {111927},\\n\\ttitle = {Identifiability of speciation times under the multispecies coalescent},\\n\\tvolume = {595},\\n\\tyear = {2024}}\\n\\n\\n\",\"author_short\":[\"Kubatko, L.\",\"Leonard, A.\",\"Chifman, J.\"],\"key\":\"kubatko2024\",\"id\":\"kubatko2024\",\"bibbaseid\":\"kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2024\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Berry\"],\"firstnames\":[\"Laurel\",\"K\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Pullikuth\"],\"firstnames\":[\"Ashok\",\"K\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Stearns\"],\"firstnames\":[\"Kristen\",\"L\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Wang\"],\"firstnames\":[\"Yuezhu\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Wagner\"],\"firstnames\":[\"Calvin\",\"J\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chou\"],\"firstnames\":[\"Jeff\",\"W\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Darby\"],\"firstnames\":[\"Janelle\",\"P\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kelly\"],\"firstnames\":[\"Michael\",\"G\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Mall\"],\"firstnames\":[\"Raghvendra\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Leung\"],\"firstnames\":[\"Ming\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]}],\"journal\":\"J Transl Med\",\"month\":\"Nov\",\"number\":\"1\",\"pages\":\"1048\",\"title\":\"A patient stratification signature mirrors the immunogenic potential of high grade serous ovarian cancers\",\"volume\":\"22\",\"year\":\"2024\",\"bibtex\":\"@article{berry2024,\\n\\tauthor = {Berry, Laurel K and Pullikuth, Ashok K and Stearns, Kristen L and Wang, Yuezhu and Wagner, Calvin J and Chou, Jeff W and Darby, Janelle P and Kelly, Michael G and Mall, Raghvendra and Leung, Ming and Chifman, Julia and Miller, Lance D},\\n\\tjournal = {J Transl Med},\\n\\tmonth = {Nov},\\n\\tnumber = {1},\\n\\tpages = {1048},\\n\\ttitle = {A patient stratification signature mirrors the immunogenic potential of high grade serous ovarian cancers},\\n\\tvolume = {22},\\n\\tyear = {2024}}\\n\\n\\n\\n\",\"author_short\":[\"Berry, L. K\",\"Pullikuth, A. K\",\"Stearns, K. L\",\"Wang, Y.\",\"Wagner, C. J\",\"Chou, J. W\",\"Darby, J. P\",\"Kelly, M. G\",\"Mall, R.\",\"Leung, M.\",\"Chifman, J.\",\"Miller, L. D\"],\"key\":\"berry2024\",\"id\":\"berry2024\",\"bibbaseid\":\"berry-pullikuth-stearns-wang-wagner-chou-darby-kelly-etal-apatientstratificationsignaturemirrorstheimmunogenicpotentialofhighgradeserousovariancancers-2024\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:14:30 -0400\",\"doi\":\"https://doi.org/10.1093/bioinformatics/btu530\",\"journal\":\"Bioinformatics\",\"number\":\"23\",\"pages\":\"3317–3324\",\"publisher\":\"Oxford University Press\",\"title\":\"Quartet inference from SNP data under the coalescent model\",\"volume\":\"30\",\"year\":\"2014\",\"bibtex\":\"@article{chifman2014quartet,\\n\\tauthor = {Chifman, Julia and Kubatko, Laura},\\n\\tdate-modified = {2023-05-24 16:14:30 -0400},\\n\\tdoi = {https://doi.org/10.1093/bioinformatics/btu530},\\n\\tjournal = {Bioinformatics},\\n\\tnumber = {23},\\n\\tpages = {3317--3324},\\n\\tpublisher = {Oxford University Press},\\n\\ttitle = {Quartet inference from SNP data under the coalescent model},\\n\\tvolume = {30},\\n\\tyear = {2014}}\\n\\n\",\"author_short\":[\"Chifman, J.\",\"Kubatko, L.\"],\"key\":\"chifman2014quartet\",\"id\":\"chifman2014quartet\",\"bibbaseid\":\"chifman-kubatko-quartetinferencefromsnpdataunderthecoalescentmodel-2014\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"downloads\":0,\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:09:22 -0400\",\"doi\":\"https://doi.org/10.1016/j.jtbi.2015.03.006\",\"journal\":\"Journal of theoretical biology\",\"pages\":\"35–47\",\"publisher\":\"Elsevier\",\"title\":\"Identifiability of the unrooted species tree topology under the coalescent model with time-reversible substitution processes, site-specific rate variation, and invariable sites\",\"volume\":\"374\",\"year\":\"2015\",\"bibtex\":\"@article{chifman2015identifiability,\\n\\tauthor = {Chifman, Julia and Kubatko, Laura},\\n\\tdate-modified = {2023-05-24 16:09:22 -0400},\\n\\tdoi = {https://doi.org/10.1016/j.jtbi.2015.03.006},\\n\\tjournal = {Journal of theoretical biology},\\n\\tpages = {35--47},\\n\\tpublisher = {Elsevier},\\n\\ttitle = {Identifiability of the unrooted species tree topology under the coalescent model with time-reversible substitution processes, site-specific rate variation, and invariable sites},\\n\\tvolume = {374},\\n\\tyear = {2015}}\\n\\n\",\"author_short\":[\"Chifman, J.\",\"Kubatko, L.\"],\"key\":\"chifman2015identifiability\",\"id\":\"chifman2015identifiability\",\"bibbaseid\":\"chifman-kubatko-identifiabilityoftheunrootedspeciestreetopologyunderthecoalescentmodelwithtimereversiblesubstitutionprocessessitespecificratevariationandinvariablesites-2015\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"downloads\":0,\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"J\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kniss\"],\"firstnames\":[\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Neupane\"],\"firstnames\":[\"P\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Williams\"],\"firstnames\":[\"I\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Leung\"],\"firstnames\":[\"B\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Deng\"],\"firstnames\":[\"Z\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Mendes\"],\"firstnames\":[\"P\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Hower\"],\"firstnames\":[\"V\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Torti\"],\"firstnames\":[\"FM\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Akman\"],\"firstnames\":[\"SA\"],\"suffixes\":[]},{\"firstnames\":[],\"propositions\":[],\"lastnames\":[\"others\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:15:27 -0400\",\"doi\":\"https://doi.org/10.1016/j.jtbi.2012.01.024\",\"journal\":\"Journal of Theoretical Biology\",\"pages\":\"91–99\",\"publisher\":\"Academic Press\",\"title\":\"The core control system of intracellular iron homeostasis: a mathematical model\",\"volume\":\"300\",\"year\":\"2012\",\"bibtex\":\"@article{chifman2012core,\\n\\tauthor = {Chifman, J and Kniss, A and Neupane, P and Williams, I and Leung, B and Deng, Z and Mendes, P and Hower, V and Torti, FM and Akman, SA and others},\\n\\tdate-modified = {2023-05-24 16:15:27 -0400},\\n\\tdoi = {https://doi.org/10.1016/j.jtbi.2012.01.024},\\n\\tjournal = {Journal of Theoretical Biology},\\n\\tpages = {91--99},\\n\\tpublisher = {Academic Press},\\n\\ttitle = {The core control system of intracellular iron homeostasis: a mathematical model},\\n\\tvolume = {300},\\n\\tyear = {2012}}\\n\\n\",\"author_short\":[\"Chifman, J\",\"Kniss, A\",\"Neupane, P\",\"Williams, I\",\"Leung, B\",\"Deng, Z\",\"Mendes, P\",\"Hower, V\",\"Torti, F.\",\"Akman, S.\",\"others\"],\"key\":\"chifman2012core\",\"id\":\"chifman2012core\",\"bibbaseid\":\"chifman-kniss-neupane-williams-leung-deng-mendes-hower-etal-thecorecontrolsystemofintracellularironhomeostasisamathematicalmodel-2012\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"inproceedings\",\"type\":\"inproceedings\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Petrović\"],\"firstnames\":[\"Sonja\"],\"suffixes\":[]}],\"booktitle\":\"Algebraic Biology: Second International Conference, AB 2007, Castle of Hagenberg, Austria, July 2-4, 2007. Proceedings 2\",\"date-modified\":\"2023-05-24 16:17:10 -0400\",\"doi\":\"https://doi.org/10.1007/978-3-540-73433-8_22\",\"organization\":\"Springer Berlin Heidelberg\",\"pages\":\"307–321\",\"title\":\"Toric Ideals of Phylogenetic Invariants for the General Group-Based Model on Claw Trees K 1, n\",\"year\":\"2007\",\"bibtex\":\"@inproceedings{chifman2007toric,\\n\\tauthor = {Chifman, Julia and Petrovi{\\\\'c}, Sonja},\\n\\tbooktitle = {Algebraic Biology: Second International Conference, AB 2007, Castle of Hagenberg, Austria, July 2-4, 2007. Proceedings 2},\\n\\tdate-modified = {2023-05-24 16:17:10 -0400},\\n\\tdoi = {https://doi.org/10.1007/978-3-540-73433-8_22},\\n\\torganization = {Springer Berlin Heidelberg},\\n\\tpages = {307--321},\\n\\ttitle = {Toric Ideals of Phylogenetic Invariants for the General Group-Based Model on Claw Trees K 1, n},\\n\\tyear = {2007}}\\n\\n\",\"author_short\":[\"Chifman, J.\",\"Petrović, S.\"],\"key\":\"chifman2007toric\",\"id\":\"chifman2007toric\",\"bibbaseid\":\"chifman-petrovi-toricidealsofphylogeneticinvariantsforthegeneralgroupbasedmodelonclawtreesk1n-2007\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Laubenbacher\"],\"firstnames\":[\"Reinhard\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Torti\"],\"firstnames\":[\"Suzy\",\"V\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:03:18 -0400\",\"doi\":\"https://doi.org/10.1007/978-1-4939-2095-2_10\",\"journal\":\"A Systems Biology Approach to Blood\",\"pages\":\"201–225\",\"publisher\":\"Springer New York\",\"title\":\"A systems biology approach to iron metabolism\",\"year\":\"2014\",\"bibtex\":\"@article{chifman2014systems,\\n\\tauthor = {Chifman, Julia and Laubenbacher, Reinhard and Torti, Suzy V},\\n\\tdate-modified = {2023-05-24 16:03:18 -0400},\\n\\tdoi = {https://doi.org/10.1007/978-1-4939-2095-2_10},\\n\\tjournal = {A Systems Biology Approach to Blood},\\n\\tpages = {201--225},\\n\\tpublisher = {Springer New York},\\n\\ttitle = {A systems biology approach to iron metabolism},\\n\\tyear = {2014}}\\n\\n\",\"author_short\":[\"Chifman, J.\",\"Laubenbacher, R.\",\"Torti, S. V\"],\"key\":\"chifman2014systems\",\"id\":\"chifman2014systems\",\"bibbaseid\":\"chifman-laubenbacher-torti-asystemsbiologyapproachtoironmetabolism-2014\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chou\"],\"firstnames\":[\"Jeff\",\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Black\"],\"firstnames\":[\"Michael\",\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Print\"],\"firstnames\":[\"Cristin\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Alistar\"],\"firstnames\":[\"Angela\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Putti\"],\"firstnames\":[\"Thomas\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Zhou\"],\"firstnames\":[\"Xiaobo\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Bedognetti\"],\"firstnames\":[\"Davide\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Hendrickx\"],\"firstnames\":[\"Wouter\"],\"suffixes\":[]},{\"firstnames\":[],\"propositions\":[],\"lastnames\":[\"others\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:11:26 -0400\",\"doi\":\"https://doi.org/10.1158/2326-6066.CIR-15-0149 https://doi.org/10.1158/2326-6066.CIR-15-0149\",\"journal\":\"Cancer immunology research\",\"number\":\"7\",\"pages\":\"600–610\",\"publisher\":\"American Association for Cancer Research\",\"title\":\"Immunogenic subtypes of breast cancer delineated by gene classifiers of immune responsiveness\",\"volume\":\"4\",\"year\":\"2016\",\"bibtex\":\"@article{miller2016immunogenic,\\n\\tauthor = {Miller, Lance D and Chou, Jeff A and Black, Michael A and Print, Cristin and Chifman, Julia and Alistar, Angela and Putti, Thomas and Zhou, Xiaobo and Bedognetti, Davide and Hendrickx, Wouter and others},\\n\\tdate-modified = {2023-05-24 16:11:26 -0400},\\n\\tdoi = {https://doi.org/10.1158/2326-6066.CIR-15-0149 https://doi.org/10.1158/2326-6066.CIR-15-0149},\\n\\tjournal = {Cancer immunology research},\\n\\tnumber = {7},\\n\\tpages = {600--610},\\n\\tpublisher = {American Association for Cancer Research},\\n\\ttitle = {Immunogenic subtypes of breast cancer delineated by gene classifiers of immune responsiveness},\\n\\tvolume = {4},\\n\\tyear = {2016}}\\n\\n\",\"author_short\":[\"Miller, L. D\",\"Chou, J. A\",\"Black, M. A\",\"Print, C.\",\"Chifman, J.\",\"Alistar, A.\",\"Putti, T.\",\"Zhou, X.\",\"Bedognetti, D.\",\"Hendrickx, W.\",\"others\"],\"key\":\"miller2016immunogenic\",\"id\":\"miller2016immunogenic\",\"bibbaseid\":\"miller-chou-black-print-chifman-alistar-putti-zhou-etal-immunogenicsubtypesofbreastcancerdelineatedbygeneclassifiersofimmuneresponsiveness-2016\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:12:10 -0400\",\"doi\":\"https://doi.org/10.1080/00927870802070322\",\"journal\":\"Communications in Algebra\",\"number\":\"5\",\"pages\":\"1831–1842\",\"publisher\":\"Taylor & Francis\",\"title\":\"Note on direct products of certain classes of finite groups\",\"volume\":\"37\",\"year\":\"2009\",\"bibtex\":\"@article{chifman2009note,\\n\\tauthor = {Chifman, Julia},\\n\\tdate-modified = {2023-05-24 16:12:10 -0400},\\n\\tdoi = {https://doi.org/10.1080/00927870802070322},\\n\\tjournal = {Communications in Algebra},\\n\\tnumber = {5},\\n\\tpages = {1831--1842},\\n\\tpublisher = {Taylor \\\\& Francis},\\n\\ttitle = {Note on direct products of certain classes of finite groups},\\n\\tvolume = {37},\\n\\tyear = {2009}}\\n\\n\",\"author_short\":[\"Chifman, J.\"],\"key\":\"chifman2009note\",\"id\":\"chifman2009note\",\"bibbaseid\":\"chifman-noteondirectproductsofcertainclassesoffinitegroups-2009\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chou\"],\"firstnames\":[\"Jeff\",\"W\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Black\"],\"firstnames\":[\"Michael\",\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Print\"],\"firstnames\":[\"Cristin\",\"G\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Jimenez\"],\"firstnames\":[\"Eric\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Alistar\"],\"firstnames\":[\"Angela\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Putti\"],\"firstnames\":[\"Thomas\",\"C\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Zhou\"],\"firstnames\":[\"Xiaobo\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Bedognetti\"],\"firstnames\":[\"Davide\"],\"suffixes\":[]},{\"firstnames\":[],\"propositions\":[],\"lastnames\":[\"others\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:10:47 -0400\",\"doi\":\"https://doi.org/10.1186/2051-1426-2-S3-P256\",\"journal\":\"Journal for ImmunoTherapy of Cancer\",\"pages\":\"1–3\",\"publisher\":\"BioMed Central\",\"title\":\"Immune gene signatures and tumor intrinsic markers delineate novel immunogenic subtypes of breast cancer\",\"volume\":\"2\",\"year\":\"2014\",\"bibtex\":\"@article{miller2014immune,\\n\\tauthor = {Miller, Lance D and Chou, Jeff W and Black, Michael A and Print, Cristin G and Jimenez, Eric and Chifman, Julia and Alistar, Angela and Putti, Thomas C and Zhou, Xiaobo and Bedognetti, Davide and others},\\n\\tdate-modified = {2023-05-24 16:10:47 -0400},\\n\\tdoi = { https://doi.org/10.1186/2051-1426-2-S3-P256},\\n\\tjournal = {Journal for ImmunoTherapy of Cancer},\\n\\tpages = {1--3},\\n\\tpublisher = {BioMed Central},\\n\\ttitle = {Immune gene signatures and tumor intrinsic markers delineate novel immunogenic subtypes of breast cancer},\\n\\tvolume = {2},\\n\\tyear = {2014}}\\n\\n\",\"author_short\":[\"Miller, L. D\",\"Chou, J. W\",\"Black, M. A\",\"Print, C. G\",\"Jimenez, E.\",\"Chifman, J.\",\"Alistar, A.\",\"Putti, T. C\",\"Zhou, X.\",\"Bedognetti, D.\",\"others\"],\"key\":\"miller2014immune\",\"id\":\"miller2014immune\",\"bibbaseid\":\"miller-chou-black-print-jimenez-chifman-alistar-putti-etal-immunegenesignaturesandtumorintrinsicmarkersdelineatenovelimmunogenicsubtypesofbreastcancer-2014\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Pullikuth\"],\"firstnames\":[\"Ashok\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chou\"],\"firstnames\":[\"Jeff\",\"W\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Bedognetti\"],\"firstnames\":[\"Davide\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:06:39 -0400\",\"doi\":\"https://doi.org/10.1186/s12885-016-2948-z\",\"journal\":\"BMC cancer\",\"number\":\"1\",\"pages\":\"1–17\",\"publisher\":\"BioMed Central\",\"title\":\"Conservation of immune gene signatures in solid tumors and prognostic implications\",\"volume\":\"16\",\"year\":\"2016\",\"bibtex\":\"@article{chifman2016conservation,\\n\\tauthor = {Chifman, Julia and Pullikuth, Ashok and Chou, Jeff W and Bedognetti, Davide and Miller, Lance D},\\n\\tdate-modified = {2023-05-24 16:06:39 -0400},\\n\\tdoi = {https://doi.org/10.1186/s12885-016-2948-z},\\n\\tjournal = {BMC cancer},\\n\\tnumber = {1},\\n\\tpages = {1--17},\\n\\tpublisher = {BioMed Central},\\n\\ttitle = {Conservation of immune gene signatures in solid tumors and prognostic implications},\\n\\tvolume = {16},\\n\\tyear = {2016}}\\n\\n\",\"author_short\":[\"Chifman, J.\",\"Pullikuth, A.\",\"Chou, J. W\",\"Bedognetti, D.\",\"Miller, L. D\"],\"key\":\"chifman2016conservation\",\"id\":\"chifman2016conservation\",\"bibbaseid\":\"chifman-pullikuth-chou-bedognetti-miller-conservationofimmunegenesignaturesinsolidtumorsandprognosticimplications-2016\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Beidleman\"],\"firstnames\":[\"James\",\"C\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:16:17 -0400\",\"doi\":\"beidleman2008intersection\",\"journal\":\"Ricerche di matematica\",\"number\":\"2\",\"pages\":\"301–309\",\"publisher\":\"Springer Milan Milan\",\"title\":\"The intersection map of subgroups and the classes PSTc, PTc and Tc.\",\"volume\":\"57\",\"year\":\"2008\",\"bibtex\":\"@article{beidleman2008intersection,\\n\\tauthor = {Beidleman, James C and Chifman, Julia},\\n\\tdate-modified = {2023-05-24 16:16:17 -0400},\\n\\tdoi = {beidleman2008intersection},\\n\\tjournal = {Ricerche di matematica},\\n\\tnumber = {2},\\n\\tpages = {301--309},\\n\\tpublisher = {Springer Milan Milan},\\n\\ttitle = {The intersection map of subgroups and the classes PSTc, PTc and Tc.},\\n\\tvolume = {57},\\n\\tyear = {2008}}\\n\\n\",\"author_short\":[\"Beidleman, J. C\",\"Chifman, J.\"],\"key\":\"beidleman2008intersection\",\"id\":\"beidleman2008intersection\",\"bibbaseid\":\"beidleman-chifman-theintersectionmapofsubgroupsandtheclassespstcptcandtc-2008\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Arat\"],\"firstnames\":[\"Seda\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Deng\"],\"firstnames\":[\"Zhiyong\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Lemler\"],\"firstnames\":[\"Erica\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Pino\"],\"firstnames\":[\"James\",\"C\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Harris\"],\"firstnames\":[\"Leonard\",\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kochen\"],\"firstnames\":[\"Michael\",\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Lopez\"],\"firstnames\":[\"Carlos\",\"F\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Akman\"],\"firstnames\":[\"Steven\",\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Torti\"],\"firstnames\":[\"Frank\",\"M\"],\"suffixes\":[]},{\"firstnames\":[],\"propositions\":[],\"lastnames\":[\"others\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:04:04 -0400\",\"doi\":\"https://doi.org/10.1371/journal.pcbi.1005352\",\"journal\":\"PLoS computational biology\",\"number\":\"2\",\"pages\":\"e1005352\",\"publisher\":\"Public Library of Science San Francisco, CA USA\",\"title\":\"Activated oncogenic pathway modifies iron network in breast epithelial cells: a dynamic modeling perspective\",\"volume\":\"13\",\"year\":\"2017\",\"bibtex\":\"@article{chifman2017activated,\\n\\tauthor = {Chifman, Julia and Arat, Seda and Deng, Zhiyong and Lemler, Erica and Pino, James C and Harris, Leonard A and Kochen, Michael A and Lopez, Carlos F and Akman, Steven A and Torti, Frank M and others},\\n\\tdate-modified = {2023-05-24 16:04:04 -0400},\\n\\tdoi = {https://doi.org/10.1371/journal.pcbi.1005352},\\n\\tjournal = {PLoS computational biology},\\n\\tnumber = {2},\\n\\tpages = {e1005352},\\n\\tpublisher = {Public Library of Science San Francisco, CA USA},\\n\\ttitle = {Activated oncogenic pathway modifies iron network in breast epithelial cells: a dynamic modeling perspective},\\n\\tvolume = {13},\\n\\tyear = {2017}}\\n\\n\",\"author_short\":[\"Chifman, J.\",\"Arat, S.\",\"Deng, Z.\",\"Lemler, E.\",\"Pino, J. C\",\"Harris, L. A\",\"Kochen, M. A\",\"Lopez, C. F\",\"Akman, S. A\",\"Torti, F. M\",\"others\"],\"key\":\"chifman2017activated\",\"id\":\"chifman2017activated\",\"bibbaseid\":\"chifman-arat-deng-lemler-pino-harris-kochen-lopez-etal-activatedoncogenicpathwaymodifiesironnetworkinbreastepithelialcellsadynamicmodelingperspective-2017\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\",\"S\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:04:41 -0400\",\"doi\":\"https://doi.org/10.1186/s12862-019-1439-7\",\"journal\":\"BMC evolutionary biology\",\"number\":\"1\",\"pages\":\"1–13\",\"publisher\":\"BioMed Central\",\"title\":\"An invariants-based method for efficient identification of hybrid species from large-scale genomic data\",\"volume\":\"19\",\"year\":\"2019\",\"bibtex\":\"@article{kubatko2019invariants,\\n\\tauthor = {Kubatko, Laura S and Chifman, Julia},\\n\\tdate-modified = {2023-05-24 16:04:41 -0400},\\n\\tdoi = {https://doi.org/10.1186/s12862-019-1439-7},\\n\\tjournal = {BMC evolutionary biology},\\n\\tnumber = {1},\\n\\tpages = {1--13},\\n\\tpublisher = {BioMed Central},\\n\\ttitle = {An invariants-based method for efficient identification of hybrid species from large-scale genomic data},\\n\\tvolume = {19},\\n\\tyear = {2019}}\\n\\n\",\"author_short\":[\"Kubatko, L. S\",\"Chifman, J.\"],\"key\":\"kubatko2019invariants\",\"id\":\"kubatko2019invariants\",\"bibbaseid\":\"kubatko-chifman-aninvariantsbasedmethodforefficientidentificationofhybridspeciesfromlargescalegenomicdata-2019\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"title\":\"Direct Products and the Intersection Map of Certain Classes of Finite Groups\",\"year\":\"2009\",\"bibtex\":\"@article{chifman2009direct,\\n\\tauthor = {Chifman, Julia},\\n\\ttitle = {Direct Products and the Intersection Map of Certain Classes of Finite Groups},\\n\\tyear = {2009}}\\n\\n\",\"author_short\":[\"Chifman, J.\"],\"key\":\"chifman2009direct\",\"id\":\"chifman2009direct\",\"bibbaseid\":\"chifman-directproductsandtheintersectionmapofcertainclassesoffinitegroups-2009\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Alistar\"],\"firstnames\":[\"Angela\",\"Tatiana\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"D'Agostino\",\"Jr\"],\"firstnames\":[\"Ralph\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]}],\"journal\":\"Cancer Immunology Research\",\"number\":\"1_Supplement\",\"pages\":\"A011–A011\",\"publisher\":\"The American Association for Cancer Research\",\"title\":\"Abstract A011: Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer\",\"volume\":\"4\",\"year\":\"2016\",\"bibtex\":\"@article{alistar2016abstract,\\n\\tauthor = {Alistar, Angela Tatiana and Chifman, Julia and D'Agostino Jr, Ralph and Miller, Lance D},\\n\\tjournal = {Cancer Immunology Research},\\n\\tnumber = {1\\\\_Supplement},\\n\\tpages = {A011--A011},\\n\\tpublisher = {The American Association for Cancer Research},\\n\\ttitle = {Abstract A011: Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer},\\n\\tvolume = {4},\\n\\tyear = {2016}}\\n\\n\",\"author_short\":[\"Alistar, A. T.\",\"Chifman, J.\",\"D'Agostino Jr, R.\",\"Miller, L. D\"],\"key\":\"alistar2016abstract\",\"id\":\"alistar2016abstract\",\"bibbaseid\":\"alistar-chifman-dagostinojr-miller-abstracta011geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"incollection\",\"type\":\"incollection\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"booktitle\":\"Kliman, R.M. (ed.), Encyclopedia of Evolutionary Biology.\",\"pages\":\"pp–257\",\"publisher\":\"Oxford: Academic Press\",\"title\":\"Phylogenetic Invariants\",\"volume\":\"3\",\"year\":\"2016\",\"bibtex\":\"@incollection{chifman2016phylogenetic,\\n\\tauthor = {Chifman, Julia},\\n\\tbooktitle = {Kliman, R.M. (ed.), Encyclopedia of Evolutionary Biology.},\\n\\tpages = {pp--257},\\n\\tpublisher = {Oxford: Academic Press},\\n\\ttitle = {Phylogenetic Invariants},\\n\\tvolume = {3},\\n\\tyear = {2016}}\\n\\n\",\"author_short\":[\"Chifman, J.\"],\"key\":\"chifman2016phylogenetic\",\"id\":\"chifman2016phylogenetic\",\"bibbaseid\":\"chifman-phylogeneticinvariants-2016\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Marini\"],\"firstnames\":[\"Frank\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Tooze\"],\"firstnames\":[\"Janet\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Gomez-Manzano\"],\"firstnames\":[\"Candelaria\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Bussard\"],\"firstnames\":[\"Karen\",\"M\"],\"suffixes\":[]}],\"journal\":\"Cancer Research\",\"number\":\"13_Supplement\",\"pages\":\"5890–5890\",\"publisher\":\"The American Association for Cancer Research\",\"title\":\"Osteoblasts are educated into a tumor-associated stromal cell by disseminated breast cancer cells and mediate breast cancer cell proliferation in the bone microenvironment\",\"volume\":\"77\",\"year\":\"2017\",\"bibtex\":\"@article{marini2017osteoblasts,\\n\\tauthor = {Marini, Frank and Chifman, Julia and Tooze, Janet and Gomez-Manzano, Candelaria and Bussard, Karen M},\\n\\tjournal = {Cancer Research},\\n\\tnumber = {13\\\\_Supplement},\\n\\tpages = {5890--5890},\\n\\tpublisher = {The American Association for Cancer Research},\\n\\ttitle = {Osteoblasts are educated into a tumor-associated stromal cell by disseminated breast cancer cells and mediate breast cancer cell proliferation in the bone microenvironment},\\n\\tvolume = {77},\\n\\tyear = {2017}}\\n\\n\",\"author_short\":[\"Marini, F.\",\"Chifman, J.\",\"Tooze, J.\",\"Gomez-Manzano, C.\",\"Bussard, K. M\"],\"key\":\"marini2017osteoblasts\",\"id\":\"marini2017osteoblasts\",\"bibbaseid\":\"marini-chifman-tooze-gomezmanzano-bussard-osteoblastsareeducatedintoatumorassociatedstromalcellbydisseminatedbreastcancercellsandmediatebreastcancercellproliferationinthebonemicroenvironment-2017\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Blischak\"],\"firstnames\":[\"Paul\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Wolfe\"],\"firstnames\":[\"Andrea\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\",\"S\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:08:19 -0400\",\"doi\":\"https://doi.org/10.1093/sysbio/syy023\",\"journal\":\"Systematic Biology\",\"number\":\"5\",\"pages\":\"821–829\",\"publisher\":\"Oxford University Press\",\"title\":\"HyDe: a Python package for genome-scale hybridization detection\",\"volume\":\"67\",\"year\":\"2018\",\"bibtex\":\"@article{blischak2018hyde,\\n\\tauthor = {Blischak, Paul D and Chifman, Julia and Wolfe, Andrea D and Kubatko, Laura S},\\n\\tdate-modified = {2023-05-24 16:08:19 -0400},\\n\\tdoi = {https://doi.org/10.1093/sysbio/syy023},\\n\\tjournal = {Systematic Biology},\\n\\tnumber = {5},\\n\\tpages = {821--829},\\n\\tpublisher = {Oxford University Press},\\n\\ttitle = {HyDe: a Python package for genome-scale hybridization detection},\\n\\tvolume = {67},\\n\\tyear = {2018}}\\n\\n\",\"author_short\":[\"Blischak, P. D\",\"Chifman, J.\",\"Wolfe, A. D\",\"Kubatko, L. S\"],\"key\":\"blischak2018hyde\",\"id\":\"blischak2018hyde\",\"bibbaseid\":\"blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridizationdetection-2018\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"BLISCHAK\"],\"firstnames\":[\"PAUL\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"CHIFMAN\"],\"firstnames\":[\"JULIA\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"WOLFE\"],\"firstnames\":[\"ANDREA\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"KUBATKO\"],\"firstnames\":[\"LAURA\",\"S\"],\"suffixes\":[]}],\"title\":\"HyDe: a Python Package for Genome-Scale Hybridization\",\"bibtex\":\"@article{blischakhyde,\\n\\tauthor = {BLISCHAK, PAUL D and CHIFMAN, JULIA and WOLFE, ANDREA D and KUBATKO, LAURA S},\\n\\ttitle = {HyDe: a Python Package for Genome-Scale Hybridization}}\\n\\n\",\"author_short\":[\"BLISCHAK, P. D\",\"CHIFMAN, J.\",\"WOLFE, A. D\",\"KUBATKO, L. S\"],\"key\":\"blischakhyde\",\"id\":\"blischakhyde\",\"bibbaseid\":\"blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridization\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Pullikuth\"],\"firstnames\":[\"Ashok\",\"K\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Routh\"],\"firstnames\":[\"Eric\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chou\"],\"firstnames\":[\"Jeff\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Jin\"],\"firstnames\":[\"Guangxu\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Black\"],\"firstnames\":[\"Michael\",\"A\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]}],\"journal\":\"Cancer Research\",\"number\":\"13_Supplement\",\"pages\":\"3791–3791\",\"publisher\":\"The American Association for Cancer Research\",\"title\":\"Triggering receptor expressed in myeloid cells 1 (TREM1) is a predictive marker for breast cancer therapeutics\",\"volume\":\"78\",\"year\":\"2018\",\"bibtex\":\"@article{pullikuth2018triggering,\\n\\tauthor = {Pullikuth, Ashok K and Chifman, Julia and Routh, Eric D and Chou, Jeff and Jin, Guangxu and Black, Michael A and Miller, Lance D},\\n\\tjournal = {Cancer Research},\\n\\tnumber = {13\\\\_Supplement},\\n\\tpages = {3791--3791},\\n\\tpublisher = {The American Association for Cancer Research},\\n\\ttitle = {Triggering receptor expressed in myeloid cells 1 (TREM1) is a predictive marker for breast cancer therapeutics},\\n\\tvolume = {78},\\n\\tyear = {2018}}\\n\\n\",\"author_short\":[\"Pullikuth, A. K\",\"Chifman, J.\",\"Routh, E. D\",\"Chou, J.\",\"Jin, G.\",\"Black, M. A\",\"Miller, L. D\"],\"key\":\"pullikuth2018triggering\",\"id\":\"pullikuth2018triggering\",\"bibbaseid\":\"pullikuth-chifman-routh-chou-jin-black-miller-triggeringreceptorexpressedinmyeloidcells1trem1isapredictivemarkerforbreastcancertherapeutics-2018\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Routh\"],\"firstnames\":[\"Eric\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Pullikuth\"],\"firstnames\":[\"Ashok\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]}],\"journal\":\"Cancer Research\",\"number\":\"13_Supplement\",\"pages\":\"4753–4753\",\"publisher\":\"The American Association for Cancer Research\",\"title\":\"Bone Morphogenetic Protein 7 is a candidate promoter of cancer immune evasion\",\"volume\":\"78\",\"year\":\"2018\",\"bibtex\":\"@article{routh2018bone,\\n\\tauthor = {Routh, Eric D and Chifman, Julia and Pullikuth, Ashok and Miller, Lance D},\\n\\tjournal = {Cancer Research},\\n\\tnumber = {13\\\\_Supplement},\\n\\tpages = {4753--4753},\\n\\tpublisher = {The American Association for Cancer Research},\\n\\ttitle = {Bone Morphogenetic Protein 7 is a candidate promoter of cancer immune evasion},\\n\\tvolume = {78},\\n\\tyear = {2018}}\\n\\n\",\"author_short\":[\"Routh, E. D\",\"Chifman, J.\",\"Pullikuth, A.\",\"Miller, L. D\"],\"key\":\"routh2018bone\",\"id\":\"routh2018bone\",\"bibbaseid\":\"routh-chifman-pullikuth-miller-bonemorphogeneticprotein7isacandidatepromoterofcancerimmuneevasion-2018\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"inproceedings\",\"type\":\"inproceedings\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Alistar\"],\"firstnames\":[\"Angela\",\"Tatiana\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"D'Agostino\",\"Jr\"],\"firstnames\":[\"Ralph\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Miller\"],\"firstnames\":[\"Lance\",\"D\"],\"suffixes\":[]}],\"booktitle\":\"CANCER IMMUNOLOGY RESEARCH\",\"number\":\"1\",\"organization\":\"AMER ASSOC CANCER RESEARCH 615 CHESTNUT ST, 17TH FLOOR, PHILADELPHIA, PA …\",\"title\":\"Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer\",\"volume\":\"4\",\"year\":\"2016\",\"bibtex\":\"@inproceedings{alistar2016gene,\\n\\tauthor = {Alistar, Angela Tatiana and Chifman, Julia and D'Agostino Jr, Ralph and Miller, Lance D},\\n\\tbooktitle = {CANCER IMMUNOLOGY RESEARCH},\\n\\tnumber = {1},\\n\\torganization = {AMER ASSOC CANCER RESEARCH 615 CHESTNUT ST, 17TH FLOOR, PHILADELPHIA, PA~{\\\\ldots}},\\n\\ttitle = {Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer},\\n\\tvolume = {4},\\n\\tyear = {2016}}\\n\\n\",\"author_short\":[\"Alistar, A. T.\",\"Chifman, J.\",\"D'Agostino Jr, R.\",\"Miller, L. D\"],\"key\":\"alistar2016gene\",\"id\":\"alistar2016gene\",\"bibbaseid\":\"alistar-chifman-dagostinojr-miller-geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Vieira\"],\"firstnames\":[\"Luis\",\"Sordo\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Masison\"],\"firstnames\":[\"Joseph\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Adams\"],\"firstnames\":[\"Jacqueline\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Torti\"],\"firstnames\":[\"Suzy\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Laubenbacher\"],\"firstnames\":[\"Reinhard\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"journal\":\"Cancer Research\",\"number\":\"13_Supplement\",\"pages\":\"2442–2442\",\"publisher\":\"The American Association for Cancer Research\",\"title\":\"Assessing how macrophages attain distinct iron handling phenotypes in a tumor via a mathematical model\",\"volume\":\"79\",\"year\":\"2019\",\"bibtex\":\"@article{vieira2019assessing,\\n\\tauthor = {Vieira, Luis Sordo and Masison, Joseph and Adams, Jacqueline and Torti, Suzy and Laubenbacher, Reinhard and Chifman, Julia},\\n\\tjournal = {Cancer Research},\\n\\tnumber = {13\\\\_Supplement},\\n\\tpages = {2442--2442},\\n\\tpublisher = {The American Association for Cancer Research},\\n\\ttitle = {Assessing how macrophages attain distinct iron handling phenotypes in a tumor via a mathematical model},\\n\\tvolume = {79},\\n\\tyear = {2019}}\\n\\n\",\"author_short\":[\"Vieira, L. S.\",\"Masison, J.\",\"Adams, J.\",\"Torti, S.\",\"Laubenbacher, R.\",\"Chifman, J.\"],\"key\":\"vieira2019assessing\",\"id\":\"vieira2019assessing\",\"bibbaseid\":\"vieira-masison-adams-torti-laubenbacher-chifman-assessinghowmacrophagesattaindistinctironhandlingphenotypesinatumorviaamathematicalmodel-2019\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"BLISCHAK\"],\"firstnames\":[\"PAUL\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"CHIFMAN\"],\"firstnames\":[\"JULIA\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"WOLFE\"],\"firstnames\":[\"ANDREA\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"KUBATKO\"],\"firstnames\":[\"LAURA\",\"S\"],\"suffixes\":[]}],\"journal\":\"Syst. Biol\",\"number\":\"5\",\"pages\":\"821–829\",\"title\":\"Software for Systematics and Evolution\",\"volume\":\"67\",\"year\":\"2018\",\"bibtex\":\"@article{blischak2018software,\\n\\tauthor = {BLISCHAK, PAUL D and CHIFMAN, JULIA and WOLFE, ANDREA D and KUBATKO, LAURA S},\\n\\tjournal = {Syst. Biol},\\n\\tnumber = {5},\\n\\tpages = {821--829},\\n\\ttitle = {Software for Systematics and Evolution},\\n\\tvolume = {67},\\n\\tyear = {2018}}\\n\\n\",\"author_short\":[\"BLISCHAK, P. D\",\"CHIFMAN, J.\",\"WOLFE, A. D\",\"KUBATKO, L. S\"],\"key\":\"blischak2018software\",\"id\":\"blischak2018software\",\"bibbaseid\":\"blischak-chifman-wolfe-kubatko-softwareforsystematicsandevolution-2018\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Routh\"],\"firstnames\":[\"Eric\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Pullikuth\"],\"firstnames\":[\"Ashok\",\"K\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Jin\"],\"firstnames\":[\"Guangxu\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chou\"],\"firstnames\":[\"Jeff\",\"W\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"D'Agostino\",\"Jr\"],\"firstnames\":[\"Ralph\",\"B\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Seino\"],\"firstnames\":[\"Ken-ichiro\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Wada\"],\"firstnames\":[\"Haruka\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Print\"],\"firstnames\":[\"Cristin\",\"G\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Zhang\"],\"firstnames\":[\"Wei\"],\"suffixes\":[]},{\"firstnames\":[],\"propositions\":[],\"lastnames\":[\"others\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:18:04 -0400\",\"doi\":\"https://doi.org/10.3389/fimmu.2020.00057\",\"journal\":\"Frontiers in immunology\",\"pages\":\"57\",\"publisher\":\"Frontiers Media SA\",\"title\":\"Transcriptomic features of T cell-barren tumors are conserved across diverse tumor types\",\"volume\":\"11\",\"year\":\"2020\",\"bibtex\":\"@article{routh2020transcriptomic,\\n\\tauthor = {Routh, Eric D and Pullikuth, Ashok K and Jin, Guangxu and Chifman, Julia and Chou, Jeff W and D'Agostino Jr, Ralph B and Seino, Ken-ichiro and Wada, Haruka and Print, Cristin G and Zhang, Wei and others},\\n\\tdate-modified = {2023-05-24 16:18:04 -0400},\\n\\tdoi = {https://doi.org/10.3389/fimmu.2020.00057},\\n\\tjournal = {Frontiers in immunology},\\n\\tpages = {57},\\n\\tpublisher = {Frontiers Media SA},\\n\\ttitle = {Transcriptomic features of T cell-barren tumors are conserved across diverse tumor types},\\n\\tvolume = {11},\\n\\tyear = {2020}}\\n\\n\",\"author_short\":[\"Routh, E. D\",\"Pullikuth, A. K\",\"Jin, G.\",\"Chifman, J.\",\"Chou, J. W\",\"D'Agostino Jr, R. B\",\"Seino, K.\",\"Wada, H.\",\"Print, C. G\",\"Zhang, W.\",\"others\"],\"key\":\"routh2020transcriptomic\",\"id\":\"routh2020transcriptomic\",\"bibbaseid\":\"routh-pullikuth-jin-chifman-chou-dagostinojr-seino-wada-etal-transcriptomicfeaturesoftcellbarrentumorsareconservedacrossdiversetumortypes-2020\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Gao\"],\"firstnames\":[\"Yuan\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Gaither\"],\"firstnames\":[\"Jeff\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 15:53:01 -0400\",\"doi\":\"https://doi.org/10.1371/journal.pcbi.1010560\",\"journal\":\"PLOS Computational Biology\",\"number\":\"12\",\"pages\":\"e1010560\",\"publisher\":\"Public Library of Science San Francisco, CA USA\",\"title\":\"A phylogenetic approach to inferring the order in which mutations arise during cancer progression\",\"volume\":\"18\",\"year\":\"2022\",\"bdsk-url-1\":\"https://doi.org/10.1371/journal.pcbi.1010560\",\"bibtex\":\"@article{gao2022phylogenetic,\\n\\tauthor = {Gao, Yuan and Gaither, Jeff and Chifman, Julia and Kubatko, Laura},\\n\\tdate-modified = {2023-05-24 15:53:01 -0400},\\n\\tdoi = {https://doi.org/10.1371/journal.pcbi.1010560},\\n\\tjournal = {PLOS Computational Biology},\\n\\tnumber = {12},\\n\\tpages = {e1010560},\\n\\tpublisher = {Public Library of Science San Francisco, CA USA},\\n\\ttitle = {A phylogenetic approach to inferring the order in which mutations arise during cancer progression},\\n\\tvolume = {18},\\n\\tyear = {2022},\\n\\tbdsk-url-1 = {https://doi.org/10.1371/journal.pcbi.1010560}}\\n\\n\",\"author_short\":[\"Gao, Y.\",\"Gaither, J.\",\"Chifman, J.\",\"Kubatko, L.\"],\"key\":\"gao2022phylogenetic\",\"id\":\"gao2022phylogenetic\",\"bibbaseid\":\"gao-gaither-chifman-kubatko-aphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression-2022\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"downloads\":2,\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Leonard\"],\"firstnames\":[\"Alexander\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:08:45 -0400\",\"doi\":\"https://doi.org/10.1101/2020.11.24.396424\",\"journal\":\"bioRxiv\",\"pages\":\"2020–11\",\"publisher\":\"Cold Spring Harbor Laboratory\",\"title\":\"Identifiability of speciation times under the multispecies coalescent\",\"year\":\"2020\",\"bibtex\":\"@article{kubatko2020identifiability,\\n\\tauthor = {Kubatko, Laura and Leonard, Alexander and Chifman, Julia},\\n\\tdate-modified = {2023-05-24 16:08:45 -0400},\\n\\tdoi = {https://doi.org/10.1101/2020.11.24.396424},\\n\\tjournal = {bioRxiv},\\n\\tpages = {2020--11},\\n\\tpublisher = {Cold Spring Harbor Laboratory},\\n\\ttitle = {Identifiability of speciation times under the multispecies coalescent},\\n\\tyear = {2020}}\\n\\n\",\"author_short\":[\"Kubatko, L.\",\"Leonard, A.\",\"Chifman, J.\"],\"key\":\"kubatko2020identifiability\",\"id\":\"kubatko2020identifiability\",\"bibbaseid\":\"kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2020\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Knapp\"],\"firstnames\":[\"Adam\",\"C\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Sordo\",\"Vieira\"],\"firstnames\":[\"Luis\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Laubenbacher\"],\"firstnames\":[\"Reinhard\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:14:55 -0400\",\"doi\":\"https://doi.org/10.1093/bioinformatics/btac097\",\"journal\":\"Bioinformatics\",\"number\":\"8\",\"pages\":\"2369–2370\",\"publisher\":\"Oxford University Press\",\"title\":\"SteadyCellPhenotype: a web-based tool for the modeling of biological networks with ternary logic\",\"volume\":\"38\",\"year\":\"2022\",\"bibtex\":\"@article{knapp2022steadycellphenotype,\\n\\tauthor = {Knapp, Adam C and Sordo Vieira, Luis and Laubenbacher, Reinhard and Chifman, Julia},\\n\\tdate-modified = {2023-05-24 16:14:55 -0400},\\n\\tdoi = {https://doi.org/10.1093/bioinformatics/btac097},\\n\\tjournal = {Bioinformatics},\\n\\tnumber = {8},\\n\\tpages = {2369--2370},\\n\\tpublisher = {Oxford University Press},\\n\\ttitle = {SteadyCellPhenotype: a web-based tool for the modeling of biological networks with ternary logic},\\n\\tvolume = {38},\\n\\tyear = {2022}}\\n\\n\",\"author_short\":[\"Knapp, A. C\",\"Sordo Vieira, L.\",\"Laubenbacher, R.\",\"Chifman, J.\"],\"key\":\"knapp2022steadycellphenotype\",\"id\":\"knapp2022steadycellphenotype\",\"bibbaseid\":\"knapp-sordovieira-laubenbacher-chifman-steadycellphenotypeawebbasedtoolforthemodelingofbiologicalnetworkswithternarylogic-2022\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Basser-Ravitz\"],\"firstnames\":[\"Etan\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Darbar\"],\"firstnames\":[\"Arman\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:07:05 -0400\",\"doi\":\"https://doi.org/10.1007/s00285-022-01796-2\",\"journal\":\"Journal of Mathematical Biology\",\"number\":\"5\",\"pages\":\"45\",\"publisher\":\"Springer Berlin Heidelberg Berlin/Heidelberg\",\"title\":\"Cyclic attractors of nonexpanding q-ary networks\",\"volume\":\"85\",\"year\":\"2022\",\"bibtex\":\"@article{basser2022cyclic,\\n\\tauthor = {Basser-Ravitz, Etan and Darbar, Arman and Chifman, Julia},\\n\\tdate-modified = {2023-05-24 16:07:05 -0400},\\n\\tdoi = {https://doi.org/10.1007/s00285-022-01796-2},\\n\\tjournal = {Journal of Mathematical Biology},\\n\\tnumber = {5},\\n\\tpages = {45},\\n\\tpublisher = {Springer Berlin Heidelberg Berlin/Heidelberg},\\n\\ttitle = {Cyclic attractors of nonexpanding q-ary networks},\\n\\tvolume = {85},\\n\\tyear = {2022}}\\n\\n\",\"author_short\":[\"Basser-Ravitz, E.\",\"Darbar, A.\",\"Chifman, J.\"],\"key\":\"basser2022cyclic\",\"id\":\"basser2022cyclic\",\"bibbaseid\":\"basserravitz-darbar-chifman-cyclicattractorsofnonexpandingqarynetworks-2022\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Pullikuth\"],\"firstnames\":[\"Ashok\",\"K\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Routh\"],\"firstnames\":[\"Eric\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Zimmerman\"],\"firstnames\":[\"Kip\",\"D\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chou\"],\"firstnames\":[\"Jeff\",\"W\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Soike\"],\"firstnames\":[\"Michael\",\"H\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Jin\"],\"firstnames\":[\"Guangxu\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Su\"],\"firstnames\":[\"Jing\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Song\"],\"firstnames\":[\"Qianqian\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Black\"],\"firstnames\":[\"Michael\",\"A\"],\"suffixes\":[]},{\"firstnames\":[],\"propositions\":[],\"lastnames\":[\"others\"],\"suffixes\":[]}],\"date-modified\":\"2023-05-24 16:06:12 -0400\",\"doi\":\"https://doi.org/10.3389/fonc.2021.734959\",\"journal\":\"Frontiers in Oncology\",\"pages\":\"734959\",\"publisher\":\"Frontiers Media SA\",\"title\":\"Bulk and single-cell profiling of breast tumors Identifies TREM-1 as a dominant immune suppressive marker associated with poor outcomes\",\"volume\":\"11\",\"year\":\"2021\",\"bibtex\":\"@article{pullikuth2021bulk,\\n\\tauthor = {Pullikuth, Ashok K and Routh, Eric D and Zimmerman, Kip D and Chifman, Julia and Chou, Jeff W and Soike, Michael H and Jin, Guangxu and Su, Jing and Song, Qianqian and Black, Michael A and others},\\n\\tdate-modified = {2023-05-24 16:06:12 -0400},\\n\\tdoi = {https://doi.org/10.3389/fonc.2021.734959},\\n\\tjournal = {Frontiers in Oncology},\\n\\tpages = {734959},\\n\\tpublisher = {Frontiers Media SA},\\n\\ttitle = {Bulk and single-cell profiling of breast tumors Identifies TREM-1 as a dominant immune suppressive marker associated with poor outcomes},\\n\\tvolume = {11},\\n\\tyear = {2021}}\\n\\n\",\"author_short\":[\"Pullikuth, A. K\",\"Routh, E. D\",\"Zimmerman, K. D\",\"Chifman, J.\",\"Chou, J. W\",\"Soike, M. H\",\"Jin, G.\",\"Su, J.\",\"Song, Q.\",\"Black, M. A\",\"others\"],\"key\":\"pullikuth2021bulk\",\"id\":\"pullikuth2021bulk\",\"bibbaseid\":\"pullikuth-routh-zimmerman-chifman-chou-soike-jin-su-etal-bulkandsinglecellprofilingofbreasttumorsidentifiestrem1asadominantimmunesuppressivemarkerassociatedwithpooroutcomes-2021\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"},{\"bibtype\":\"article\",\"type\":\"article\",\"author\":[{\"propositions\":[],\"lastnames\":[\"Gao\"],\"firstnames\":[\"Yuan\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Gaither\"],\"firstnames\":[\"Jeff\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Chifman\"],\"firstnames\":[\"Julia\"],\"suffixes\":[]},{\"propositions\":[],\"lastnames\":[\"Kubatko\"],\"firstnames\":[\"Laura\"],\"suffixes\":[]}],\"title\":\"Supplementary material to ``A Phylogenetic Approach to Inferring the Order in Which Mutations Arise during Cancer Progression''\",\"bibtex\":\"@article{gaosupplementary,\\n\\tauthor = {Gao, Yuan and Gaither, Jeff and Chifman, Julia and Kubatko, Laura},\\n\\ttitle = {Supplementary material to ``A Phylogenetic Approach to Inferring the Order in Which Mutations Arise during Cancer Progression''}}\\n\",\"author_short\":[\"Gao, Y.\",\"Gaither, J.\",\"Chifman, J.\",\"Kubatko, L.\"],\"key\":\"gaosupplementary\",\"id\":\"gaosupplementary\",\"bibbaseid\":\"gao-gaither-chifman-kubatko-supplementarymaterialtoaphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression\",\"role\":\"author\",\"urls\":{},\"metadata\":{\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\"html\":\"\"}],\n      metadata: {\"owner\":\"chifman, j\",\"authorlinks\":{\"chifman, j\":\"https://chifman.github.io/publications.html\"}},\n      ownerID: \"jFYtuHCpPLTEKbu9f\"\n    };\n  </script>\n\n  <script type=\"text/javascript\">\n  var site$;\n  if (typeof $ != 'undefined') {\n    console.log('existing jquery: storing and then restoring');\n    site$ = $;\n    $ = null;\n  }\n  </script>\n\n  <script src=\"https://ajax.googleapis.com/ajax/libs/jquery/2.2.4/jquery.min.js\">\n  </script>\n  <script type=\"text/javascript\">\n  if (site$) {\n    console.log('existing jquery: avoiding conflict and restoring');\n    bb$ = $.noConflict(true);\n    $ = site$;\n  } else {\n    bb$ = $;\n  }\n  </script>\n\n  <script src=\"//bibbase.org/js/bibbase.min.js\"\n          type=\"text/javascript\">\n  </script>\n\n  <script type=\"text/javascript\"\n          src=\"https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.1/MathJax.js?config=TeX-AMS-MML_HTMLorMML\">\n  </script>\n  <script type=\"text/x-mathjax-config\">\n    MathJax.Hub.Config({tex2jax: {inlineMath: [['$','$'], ['\\\\(','\\\\)']]},\n                        skipTags: [\"body\"],\n                        processClass: \"bibbase_paper\"});\n  </script>\n\n  <style>\n  @media print {\n    .dontprint {\n        display: none !important;\n    }\n\n  .bibbase_group {\n    background-color: #E0E0E0;\n    font-style: italic;\n    font-size: larger;\n    text-shadow: 0px 0px 3px #FFFFFF;\n    border-radius: 4px 4px 4px 4px;\n    -moz-border-radius: 4px 4px 4px 4px;\n    -webkit-border-radius: 4px;\n    padding: 5px 40px 5px;\n    margin-top: 10px;\n    margin-bottom: 5px;\n    cursor: pointer;\n  }\n\n  .bibbase_paper {\n    margin-bottom: 5px;\n  }\n\n  }\n  </style>\n\n  \n  <div style=\"float: right; margin-right: 10px; margin-top: 10px; text-align: right; font-size: 12px\">\n    generated by\n    <a href=\"//bibbase.org\"\n       onclick=\"trackOutboundLink('bibbase', 'logo clicked', window.location.href, '//bibbase.org'); return false;\">\n      <img src=\"//bibbase.org/img/logo.svg\"\n           style=\"vertical-align: middle; margin-left: 3px; height: 16px;\"/\n           alt=\"bibbase.org\"\n           title=\"BibBase – The easiest way to maintain your publications page.\"\n        ></a>\n    \n  </div>\n  \n\n  <div id=\"bibbase_header\" class=\"dontprint\" style=\"\">\n\n    <ul class=\"nav nav-pills\" style=\"margin: 0px;\">\n\n      <li class=\"dropdown\" id=\"groupby_dropdown\">\n      <a class=\"dropdown-toggle\"\n         data-toggle=\"dropdown\"\n         href=\"#\">\n          Group by\n          <b class=\"caret\"></b>\n      </a>\n      <ul class=\"dropdown-menu\">\n        <li class=\"groupby year\"><a onclick=\"groupby('year')\">\n            Year</a>\n        </li>\n        <li class=\"groupby author\"><a onclick=\"groupby('author_short')\">\n            Author</a>\n        </li>\n        <li class=\"groupby type\"><a onclick=\"groupby('type')\">\n            Type</a>\n        </li>\n        <li class=\"groupby keyword\"><a onclick=\"groupby('keyword')\">\n            Keyword</a>\n        </li>\n        <li class=\"groupby downloads\"><a onclick=\"groupby('downloads')\">\n            Downloads</a>\n        </li>\n      </ul>\n      </li>\n\n\n      <li class=\"dropdown\" id=\"menu_dropdown\">\n      <a class=\"dropdown-toggle\"\n         data-toggle=\"dropdown\"\n         href=\"#\" alt=\"controls\">\n          <i class=\"fa fa-reorder\" alt=\"controls\"></i>\n          <b class=\"caret\"></b>\n      </a>\n      <ul class=\"dropdown-menu\">\n        <li>\n          <a onclick=\"toggleAll()\">\n            <i class=\"fa fa-chevron-down fa-fw\"></i> Expand/Collapse All\n          </a>\n        </li>\n        <li>\n          <a download=\"citations.bib\" href=\"data:text/bibtex;base64,@article{kubatko2024,
	author = {Kubatko, Laura and Leonard, Alexander and Chifman, Julia},
	journal = {J Theor Biol},
	month = {Dec},
	pages = {111927},
	title = {Identifiability of speciation times under the multispecies coalescent},
	volume = {595},
	year = {2024}}




@article{berry2024,
	author = {Berry, Laurel K and Pullikuth, Ashok K and Stearns, Kristen L and Wang, Yuezhu and Wagner, Calvin J and Chou, Jeff W and Darby, Janelle P and Kelly, Michael G and Mall, Raghvendra and Leung, Ming and Chifman, Julia and Miller, Lance D},
	journal = {J Transl Med},
	month = {Nov},
	number = {1},
	pages = {1048},
	title = {A patient stratification signature mirrors the immunogenic potential of high grade serous ovarian cancers},
	volume = {22},
	year = {2024}}





@article{chifman2014quartet,
	author = {Chifman, Julia and Kubatko, Laura},
	date-modified = {2023-05-24 16:14:30 -0400},
	doi = {https://doi.org/10.1093/bioinformatics/btu530},
	journal = {Bioinformatics},
	number = {23},
	pages = {3317--3324},
	publisher = {Oxford University Press},
	title = {Quartet inference from SNP data under the coalescent model},
	volume = {30},
	year = {2014}}



@article{chifman2015identifiability,
	author = {Chifman, Julia and Kubatko, Laura},
	date-modified = {2023-05-24 16:09:22 -0400},
	doi = {https://doi.org/10.1016/j.jtbi.2015.03.006},
	journal = {Journal of theoretical biology},
	pages = {35--47},
	publisher = {Elsevier},
	title = {Identifiability of the unrooted species tree topology under the coalescent model with time-reversible substitution processes, site-specific rate variation, and invariable sites},
	volume = {374},
	year = {2015}}



@article{chifman2012core,
	author = {Chifman, J and Kniss, A and Neupane, P and Williams, I and Leung, B and Deng, Z and Mendes, P and Hower, V and Torti, FM and Akman, SA and others},
	date-modified = {2023-05-24 16:15:27 -0400},
	doi = {https://doi.org/10.1016/j.jtbi.2012.01.024},
	journal = {Journal of Theoretical Biology},
	pages = {91--99},
	publisher = {Academic Press},
	title = {The core control system of intracellular iron homeostasis: a mathematical model},
	volume = {300},
	year = {2012}}



@inproceedings{chifman2007toric,
	author = {Chifman, Julia and Petrovi{\'c}, Sonja},
	booktitle = {Algebraic Biology: Second International Conference, AB 2007, Castle of Hagenberg, Austria, July 2-4, 2007. Proceedings 2},
	date-modified = {2023-05-24 16:17:10 -0400},
	doi = {https://doi.org/10.1007/978-3-540-73433-8_22},
	organization = {Springer Berlin Heidelberg},
	pages = {307--321},
	title = {Toric Ideals of Phylogenetic Invariants for the General Group-Based Model on Claw Trees K 1, n},
	year = {2007}}



@article{chifman2014systems,
	author = {Chifman, Julia and Laubenbacher, Reinhard and Torti, Suzy V},
	date-modified = {2023-05-24 16:03:18 -0400},
	doi = {https://doi.org/10.1007/978-1-4939-2095-2_10},
	journal = {A Systems Biology Approach to Blood},
	pages = {201--225},
	publisher = {Springer New York},
	title = {A systems biology approach to iron metabolism},
	year = {2014}}



@article{miller2016immunogenic,
	author = {Miller, Lance D and Chou, Jeff A and Black, Michael A and Print, Cristin and Chifman, Julia and Alistar, Angela and Putti, Thomas and Zhou, Xiaobo and Bedognetti, Davide and Hendrickx, Wouter and others},
	date-modified = {2023-05-24 16:11:26 -0400},
	doi = {https://doi.org/10.1158/2326-6066.CIR-15-0149 https://doi.org/10.1158/2326-6066.CIR-15-0149},
	journal = {Cancer immunology research},
	number = {7},
	pages = {600--610},
	publisher = {American Association for Cancer Research},
	title = {Immunogenic subtypes of breast cancer delineated by gene classifiers of immune responsiveness},
	volume = {4},
	year = {2016}}



@article{chifman2009note,
	author = {Chifman, Julia},
	date-modified = {2023-05-24 16:12:10 -0400},
	doi = {https://doi.org/10.1080/00927870802070322},
	journal = {Communications in Algebra},
	number = {5},
	pages = {1831--1842},
	publisher = {Taylor \& Francis},
	title = {Note on direct products of certain classes of finite groups},
	volume = {37},
	year = {2009}}



@article{miller2014immune,
	author = {Miller, Lance D and Chou, Jeff W and Black, Michael A and Print, Cristin G and Jimenez, Eric and Chifman, Julia and Alistar, Angela and Putti, Thomas C and Zhou, Xiaobo and Bedognetti, Davide and others},
	date-modified = {2023-05-24 16:10:47 -0400},
	doi = { https://doi.org/10.1186/2051-1426-2-S3-P256},
	journal = {Journal for ImmunoTherapy of Cancer},
	pages = {1--3},
	publisher = {BioMed Central},
	title = {Immune gene signatures and tumor intrinsic markers delineate novel immunogenic subtypes of breast cancer},
	volume = {2},
	year = {2014}}



@article{chifman2016conservation,
	author = {Chifman, Julia and Pullikuth, Ashok and Chou, Jeff W and Bedognetti, Davide and Miller, Lance D},
	date-modified = {2023-05-24 16:06:39 -0400},
	doi = {https://doi.org/10.1186/s12885-016-2948-z},
	journal = {BMC cancer},
	number = {1},
	pages = {1--17},
	publisher = {BioMed Central},
	title = {Conservation of immune gene signatures in solid tumors and prognostic implications},
	volume = {16},
	year = {2016}}



@article{beidleman2008intersection,
	author = {Beidleman, James C and Chifman, Julia},
	date-modified = {2023-05-24 16:16:17 -0400},
	doi = {beidleman2008intersection},
	journal = {Ricerche di matematica},
	number = {2},
	pages = {301--309},
	publisher = {Springer Milan Milan},
	title = {The intersection map of subgroups and the classes PSTc, PTc and Tc.},
	volume = {57},
	year = {2008}}



@article{chifman2017activated,
	author = {Chifman, Julia and Arat, Seda and Deng, Zhiyong and Lemler, Erica and Pino, James C and Harris, Leonard A and Kochen, Michael A and Lopez, Carlos F and Akman, Steven A and Torti, Frank M and others},
	date-modified = {2023-05-24 16:04:04 -0400},
	doi = {https://doi.org/10.1371/journal.pcbi.1005352},
	journal = {PLoS computational biology},
	number = {2},
	pages = {e1005352},
	publisher = {Public Library of Science San Francisco, CA USA},
	title = {Activated oncogenic pathway modifies iron network in breast epithelial cells: a dynamic modeling perspective},
	volume = {13},
	year = {2017}}



@article{kubatko2019invariants,
	author = {Kubatko, Laura S and Chifman, Julia},
	date-modified = {2023-05-24 16:04:41 -0400},
	doi = {https://doi.org/10.1186/s12862-019-1439-7},
	journal = {BMC evolutionary biology},
	number = {1},
	pages = {1--13},
	publisher = {BioMed Central},
	title = {An invariants-based method for efficient identification of hybrid species from large-scale genomic data},
	volume = {19},
	year = {2019}}



@article{chifman2009direct,
	author = {Chifman, Julia},
	title = {Direct Products and the Intersection Map of Certain Classes of Finite Groups},
	year = {2009}}



@article{alistar2016abstract,
	author = {Alistar, Angela Tatiana and Chifman, Julia and D'Agostino Jr, Ralph and Miller, Lance D},
	journal = {Cancer Immunology Research},
	number = {1\_Supplement},
	pages = {A011--A011},
	publisher = {The American Association for Cancer Research},
	title = {Abstract A011: Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer},
	volume = {4},
	year = {2016}}



@incollection{chifman2016phylogenetic,
	author = {Chifman, Julia},
	booktitle = {Kliman, R.M. (ed.), Encyclopedia of Evolutionary Biology.},
	pages = {pp--257},
	publisher = {Oxford: Academic Press},
	title = {Phylogenetic Invariants},
	volume = {3},
	year = {2016}}



@article{marini2017osteoblasts,
	author = {Marini, Frank and Chifman, Julia and Tooze, Janet and Gomez-Manzano, Candelaria and Bussard, Karen M},
	journal = {Cancer Research},
	number = {13\_Supplement},
	pages = {5890--5890},
	publisher = {The American Association for Cancer Research},
	title = {Osteoblasts are educated into a tumor-associated stromal cell by disseminated breast cancer cells and mediate breast cancer cell proliferation in the bone microenvironment},
	volume = {77},
	year = {2017}}



@article{blischak2018hyde,
	author = {Blischak, Paul D and Chifman, Julia and Wolfe, Andrea D and Kubatko, Laura S},
	date-modified = {2023-05-24 16:08:19 -0400},
	doi = {https://doi.org/10.1093/sysbio/syy023},
	journal = {Systematic Biology},
	number = {5},
	pages = {821--829},
	publisher = {Oxford University Press},
	title = {HyDe: a Python package for genome-scale hybridization detection},
	volume = {67},
	year = {2018}}



@article{blischakhyde,
	author = {BLISCHAK, PAUL D and CHIFMAN, JULIA and WOLFE, ANDREA D and KUBATKO, LAURA S},
	title = {HyDe: a Python Package for Genome-Scale Hybridization}}



@article{pullikuth2018triggering,
	author = {Pullikuth, Ashok K and Chifman, Julia and Routh, Eric D and Chou, Jeff and Jin, Guangxu and Black, Michael A and Miller, Lance D},
	journal = {Cancer Research},
	number = {13\_Supplement},
	pages = {3791--3791},
	publisher = {The American Association for Cancer Research},
	title = {Triggering receptor expressed in myeloid cells 1 (TREM1) is a predictive marker for breast cancer therapeutics},
	volume = {78},
	year = {2018}}



@article{routh2018bone,
	author = {Routh, Eric D and Chifman, Julia and Pullikuth, Ashok and Miller, Lance D},
	journal = {Cancer Research},
	number = {13\_Supplement},
	pages = {4753--4753},
	publisher = {The American Association for Cancer Research},
	title = {Bone Morphogenetic Protein 7 is a candidate promoter of cancer immune evasion},
	volume = {78},
	year = {2018}}



@inproceedings{alistar2016gene,
	author = {Alistar, Angela Tatiana and Chifman, Julia and D'Agostino Jr, Ralph and Miller, Lance D},
	booktitle = {CANCER IMMUNOLOGY RESEARCH},
	number = {1},
	organization = {AMER ASSOC CANCER RESEARCH 615 CHESTNUT ST, 17TH FLOOR, PHILADELPHIA, PA~{\ldots}},
	title = {Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer},
	volume = {4},
	year = {2016}}



@article{vieira2019assessing,
	author = {Vieira, Luis Sordo and Masison, Joseph and Adams, Jacqueline and Torti, Suzy and Laubenbacher, Reinhard and Chifman, Julia},
	journal = {Cancer Research},
	number = {13\_Supplement},
	pages = {2442--2442},
	publisher = {The American Association for Cancer Research},
	title = {Assessing how macrophages attain distinct iron handling phenotypes in a tumor via a mathematical model},
	volume = {79},
	year = {2019}}



@article{blischak2018software,
	author = {BLISCHAK, PAUL D and CHIFMAN, JULIA and WOLFE, ANDREA D and KUBATKO, LAURA S},
	journal = {Syst. Biol},
	number = {5},
	pages = {821--829},
	title = {Software for Systematics and Evolution},
	volume = {67},
	year = {2018}}



@article{routh2020transcriptomic,
	author = {Routh, Eric D and Pullikuth, Ashok K and Jin, Guangxu and Chifman, Julia and Chou, Jeff W and D'Agostino Jr, Ralph B and Seino, Ken-ichiro and Wada, Haruka and Print, Cristin G and Zhang, Wei and others},
	date-modified = {2023-05-24 16:18:04 -0400},
	doi = {https://doi.org/10.3389/fimmu.2020.00057},
	journal = {Frontiers in immunology},
	pages = {57},
	publisher = {Frontiers Media SA},
	title = {Transcriptomic features of T cell-barren tumors are conserved across diverse tumor types},
	volume = {11},
	year = {2020}}



@article{gao2022phylogenetic,
	author = {Gao, Yuan and Gaither, Jeff and Chifman, Julia and Kubatko, Laura},
	date-modified = {2023-05-24 15:53:01 -0400},
	doi = {https://doi.org/10.1371/journal.pcbi.1010560},
	journal = {PLOS Computational Biology},
	number = {12},
	pages = {e1010560},
	publisher = {Public Library of Science San Francisco, CA USA},
	title = {A phylogenetic approach to inferring the order in which mutations arise during cancer progression},
	volume = {18},
	year = {2022},
	bdsk-url-1 = {https://doi.org/10.1371/journal.pcbi.1010560}}



@article{kubatko2020identifiability,
	author = {Kubatko, Laura and Leonard, Alexander and Chifman, Julia},
	date-modified = {2023-05-24 16:08:45 -0400},
	doi = {https://doi.org/10.1101/2020.11.24.396424},
	journal = {bioRxiv},
	pages = {2020--11},
	publisher = {Cold Spring Harbor Laboratory},
	title = {Identifiability of speciation times under the multispecies coalescent},
	year = {2020}}



@article{knapp2022steadycellphenotype,
	author = {Knapp, Adam C and Sordo Vieira, Luis and Laubenbacher, Reinhard and Chifman, Julia},
	date-modified = {2023-05-24 16:14:55 -0400},
	doi = {https://doi.org/10.1093/bioinformatics/btac097},
	journal = {Bioinformatics},
	number = {8},
	pages = {2369--2370},
	publisher = {Oxford University Press},
	title = {SteadyCellPhenotype: a web-based tool for the modeling of biological networks with ternary logic},
	volume = {38},
	year = {2022}}



@article{basser2022cyclic,
	author = {Basser-Ravitz, Etan and Darbar, Arman and Chifman, Julia},
	date-modified = {2023-05-24 16:07:05 -0400},
	doi = {https://doi.org/10.1007/s00285-022-01796-2},
	journal = {Journal of Mathematical Biology},
	number = {5},
	pages = {45},
	publisher = {Springer Berlin Heidelberg Berlin/Heidelberg},
	title = {Cyclic attractors of nonexpanding q-ary networks},
	volume = {85},
	year = {2022}}



@article{pullikuth2021bulk,
	author = {Pullikuth, Ashok K and Routh, Eric D and Zimmerman, Kip D and Chifman, Julia and Chou, Jeff W and Soike, Michael H and Jin, Guangxu and Su, Jing and Song, Qianqian and Black, Michael A and others},
	date-modified = {2023-05-24 16:06:12 -0400},
	doi = {https://doi.org/10.3389/fonc.2021.734959},
	journal = {Frontiers in Oncology},
	pages = {734959},
	publisher = {Frontiers Media SA},
	title = {Bulk and single-cell profiling of breast tumors Identifies TREM-1 as a dominant immune suppressive marker associated with poor outcomes},
	volume = {11},
	year = {2021}}



@article{gaosupplementary,
	author = {Gao, Yuan and Gaither, Jeff and Chifman, Julia and Kubatko, Laura},
	title = {Supplementary material to ``A Phylogenetic Approach to Inferring the Order in Which Mutations Arise during Cancer Progression''}}
\">\n            <i class=\"fa fa-download fa-fw\"></i> Download BibTeX\n          </a>\n        </li>\n        <li>\n          <a href=\"//bibbase.org/rss?bib=https://raw.githubusercontent.com/chifman/chifman.github.io/main/docs/citations.bib\">\n            <i class=\"fa fa-rss fa-fw\"></i> RSS Feed\n          </a>\n          </li>\n      </ul>\n      </li>\n\n      \n\n\n      \n    </ul>\n\n\n    <div class=\"alert alert-success bibbase_msg\" id=\"bibbase_msg_embed\"\n         style=\"display: none;\">\n\n      Excellent! Next you can\n      <a href=\"/network/register?next=/network/newSiteFromTemplate%3Fbiburl=https://raw.githubusercontent.com/chifman/chifman.github.io/main/docs/citations.bib\"\n      >create a new website with this list</a>, or\n      embed it in an existing web page by copying &amp; pasting\n      any of the following snippets.\n\n      <div style=\"text-align: left; margin-top: 1em;\">\n        <strong>JavaScript</strong>\n        <span class=\"comment recommended\">(easiest)</span>\n        <div class=\"well well-small\">\n          <code>\n            &lt;script src=\"https://bibbase.org/show?bib=https%3A%2F%2Fraw.githubusercontent.com%2Fchifman%2Fchifman.github.io%2Fmain%2Fdocs%2Fcitations.bib&amp;jsonp=1&amp;jsonp=1\"&gt;&lt;/script&gt;\n          </code>\n        </div>\n\n        <strong>PHP</strong>\n        <div class=\"well well-small\">\n          <code>\n            &lt;?php\n            $contents = file_get_contents(\"https://bibbase.org/show?bib=https%3A%2F%2Fraw.githubusercontent.com%2Fchifman%2Fchifman.github.io%2Fmain%2Fdocs%2Fcitations.bib&amp;jsonp=1\");\n            print_r($contents);\n            ?&gt;\n          </code>\n        </div>\n\n        <strong>iFrame</strong>\n        <span class=\"comment\">(not recommended)</span>\n        <div class=\"well well-small\">\n          <code>\n            &lt;iframe src=\"https://bibbase.org/show?bib=https%3A%2F%2Fraw.githubusercontent.com%2Fchifman%2Fchifman.github.io%2Fmain%2Fdocs%2Fcitations.bib&amp;jsonp=1\"&gt;&lt;/iframe&gt;\n          </code>\n        </div>\n\n        <p>\n          For more details see the <a href=\"//bibbase.org/help\">documention</a>.\n        </p>\n      </div>\n    </div>\n\n    <div class=\"alert alert-success bibbase_msg\" id=\"bibbase_msg_preview\"\n         style=\"display: none;\">\n\n      This is a preview! To use this list on your own web site\n      or create a new web site from it,\n      <a href=\"/network/register?next=/network/newAccountWithFile%3FfileId=\"\n      >create a free account</a>. The file will be added\n      and you will be able to edit it in the File Manager.\n      We will show you instructions once you've created your account.\n    </div>\n\n    <div class=\"alert alert-warning bibbase_msg\" id=\"bibbase_msg_mendeley1\"\n         style=\"display: none;\">\n\n      <p>To the site owner:</p>\n\n      <p><strong>Action required!</strong> Mendeley is changing its\n        API. In order to keep using Mendeley with BibBase past April\n        14th, you need to:\n        <ol>\n          <li>renew the authorization for BibBase on Mendeley, and</li>\n          <li>update the BibBase URL\n            in your page the same way you did when you initially set up\n            this page.\n          </li>\n        </ol>\n      </p>\n\n      <p>\n        <a href=\"http://bibbase.org/cgi-bin/mendeley2/get.py\">\n          <i class=\"fa fa-angle-double-right\"></i>\n          Fix it now</a>\n      </p>\n    </div>\n\n  </div>\n\n\n  <div id=\"bibbase_body\">\n    \n  \n  <div class=\"bibbase_group_whole\" id=\"group_2024\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2024')\"\n      onkeypress=\"toggleGroup('group_2024')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2024</span>\n      <span class=\"bibbase_group_count\">\n        \n        (2)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2024\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Identifiability of speciation times under the multispecies coalescent.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Kubatko, L.; Leonard, A.;  and <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>J Theor Biol</i>, 595: 111927. Dec 2024.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2024\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2024')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{kubatko2024,\n\tauthor = {Kubatko, Laura and Leonard, Alexander and Chifman, Julia},\n\tjournal = {J Theor Biol},\n\tmonth = {Dec},\n\tpages = {111927},\n\ttitle = {Identifiability of speciation times under the multispecies coalescent},\n\tvolume = {595},\n\tyear = {2024}}\n\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"berry-pullikuth-stearns-wang-wagner-chou-darby-kelly-etal-apatientstratificationsignaturemirrorstheimmunogenicpotentialofhighgradeserousovariancancers-2024\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  A patient stratification signature mirrors the immunogenic potential of high grade serous ovarian cancers.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Berry, L. K; Pullikuth, A. K; Stearns, K. L; Wang, Y.; Wagner, C. J; Chou, J. W; Darby, J. P; Kelly, M. G; Mall, R.; Leung, M.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>;  and Miller, L. D\n</span>\n\n  \n\n</span>\n\n  <i>J Transl Med</i>, 22(1): 1048. Nov 2024.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/berry-pullikuth-stearns-wang-wagner-chou-darby-kelly-etal-apatientstratificationsignaturemirrorstheimmunogenicpotentialofhighgradeserousovariancancers-2024\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('berry-pullikuth-stearns-wang-wagner-chou-darby-kelly-etal-apatientstratificationsignaturemirrorstheimmunogenicpotentialofhighgradeserousovariancancers-2024')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{berry2024,\n\tauthor = {Berry, Laurel K and Pullikuth, Ashok K and Stearns, Kristen L and Wang, Yuezhu and Wagner, Calvin J and Chou, Jeff W and Darby, Janelle P and Kelly, Michael G and Mall, Raghvendra and Leung, Ming and Chifman, Julia and Miller, Lance D},\n\tjournal = {J Transl Med},\n\tmonth = {Nov},\n\tnumber = {1},\n\tpages = {1048},\n\ttitle = {A patient stratification signature mirrors the immunogenic potential of high grade serous ovarian cancers},\n\tvolume = {22},\n\tyear = {2024}}\n\n\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2022\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2022')\"\n      onkeypress=\"toggleGroup('group_2022')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2022</span>\n      <span class=\"bibbase_group_count\">\n        \n        (3)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"gao-gaither-chifman-kubatko-aphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression-2022\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  A phylogenetic approach to inferring the order in which mutations arise during cancer progression.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Gao, Y.; Gaither, J.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>;  and Kubatko, L.\n</span>\n\n  \n\n</span>\n\n  <i>PLOS Computational Biology</i>, 18(12): e1010560.  2022.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1371/journal.pcbi.1010560\"\n     onclick=\"log_download('gao-gaither-chifman-kubatko-aphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression-2022', 'http://doi.org/https://doi.org/10.1371/journal.pcbi.1010560', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/gao-gaither-chifman-kubatko-aphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression-2022\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n  &nbsp;\n  <span class=\"bibbase_stats_paper\" style=\"color: #777;\">\n    <span>2 downloads</span>\n  </span>\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('gao-gaither-chifman-kubatko-aphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression-2022')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{gao2022phylogenetic,\n\tauthor = {Gao, Yuan and Gaither, Jeff and Chifman, Julia and Kubatko, Laura},\n\tdate-modified = {2023-05-24 15:53:01 -0400},\n\tdoi = {https://doi.org/10.1371/journal.pcbi.1010560},\n\tjournal = {PLOS Computational Biology},\n\tnumber = {12},\n\tpages = {e1010560},\n\tpublisher = {Public Library of Science San Francisco, CA USA},\n\ttitle = {A phylogenetic approach to inferring the order in which mutations arise during cancer progression},\n\tvolume = {18},\n\tyear = {2022},\n\tbdsk-url-1 = {https://doi.org/10.1371/journal.pcbi.1010560}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"knapp-sordovieira-laubenbacher-chifman-steadycellphenotypeawebbasedtoolforthemodelingofbiologicalnetworkswithternarylogic-2022\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  SteadyCellPhenotype: a web-based tool for the modeling of biological networks with ternary logic.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Knapp, A. C; Sordo Vieira, L.; Laubenbacher, R.;  and <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>Bioinformatics</i>, 38(8): 2369–2370.  2022.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1093/bioinformatics/btac097\"\n     onclick=\"log_download('knapp-sordovieira-laubenbacher-chifman-steadycellphenotypeawebbasedtoolforthemodelingofbiologicalnetworkswithternarylogic-2022', 'http://doi.org/https://doi.org/10.1093/bioinformatics/btac097', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/knapp-sordovieira-laubenbacher-chifman-steadycellphenotypeawebbasedtoolforthemodelingofbiologicalnetworkswithternarylogic-2022\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('knapp-sordovieira-laubenbacher-chifman-steadycellphenotypeawebbasedtoolforthemodelingofbiologicalnetworkswithternarylogic-2022')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{knapp2022steadycellphenotype,\n\tauthor = {Knapp, Adam C and Sordo Vieira, Luis and Laubenbacher, Reinhard and Chifman, Julia},\n\tdate-modified = {2023-05-24 16:14:55 -0400},\n\tdoi = {https://doi.org/10.1093/bioinformatics/btac097},\n\tjournal = {Bioinformatics},\n\tnumber = {8},\n\tpages = {2369--2370},\n\tpublisher = {Oxford University Press},\n\ttitle = {SteadyCellPhenotype: a web-based tool for the modeling of biological networks with ternary logic},\n\tvolume = {38},\n\tyear = {2022}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"basserravitz-darbar-chifman-cyclicattractorsofnonexpandingqarynetworks-2022\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Cyclic attractors of nonexpanding q-ary networks.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Basser-Ravitz, E.; Darbar, A.;  and <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>Journal of Mathematical Biology</i>, 85(5): 45.  2022.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1007/s00285-022-01796-2\"\n     onclick=\"log_download('basserravitz-darbar-chifman-cyclicattractorsofnonexpandingqarynetworks-2022', 'http://doi.org/https://doi.org/10.1007/s00285-022-01796-2', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/basserravitz-darbar-chifman-cyclicattractorsofnonexpandingqarynetworks-2022\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('basserravitz-darbar-chifman-cyclicattractorsofnonexpandingqarynetworks-2022')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{basser2022cyclic,\n\tauthor = {Basser-Ravitz, Etan and Darbar, Arman and Chifman, Julia},\n\tdate-modified = {2023-05-24 16:07:05 -0400},\n\tdoi = {https://doi.org/10.1007/s00285-022-01796-2},\n\tjournal = {Journal of Mathematical Biology},\n\tnumber = {5},\n\tpages = {45},\n\tpublisher = {Springer Berlin Heidelberg Berlin/Heidelberg},\n\ttitle = {Cyclic attractors of nonexpanding q-ary networks},\n\tvolume = {85},\n\tyear = {2022}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2021\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2021')\"\n      onkeypress=\"toggleGroup('group_2021')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2021</span>\n      <span class=\"bibbase_group_count\">\n        \n        (1)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"pullikuth-routh-zimmerman-chifman-chou-soike-jin-su-etal-bulkandsinglecellprofilingofbreasttumorsidentifiestrem1asadominantimmunesuppressivemarkerassociatedwithpooroutcomes-2021\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Bulk and single-cell profiling of breast tumors Identifies TREM-1 as a dominant immune suppressive marker associated with poor outcomes.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Pullikuth, A. K; Routh, E. D; Zimmerman, K. D; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Chou, J. W; Soike, M. H; Jin, G.; Su, J.; Song, Q.; Black, M. A;  and others\n</span>\n\n  \n\n</span>\n\n  <i>Frontiers in Oncology</i>, 11: 734959.  2021.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.3389/fonc.2021.734959\"\n     onclick=\"log_download('pullikuth-routh-zimmerman-chifman-chou-soike-jin-su-etal-bulkandsinglecellprofilingofbreasttumorsidentifiestrem1asadominantimmunesuppressivemarkerassociatedwithpooroutcomes-2021', 'http://doi.org/https://doi.org/10.3389/fonc.2021.734959', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/pullikuth-routh-zimmerman-chifman-chou-soike-jin-su-etal-bulkandsinglecellprofilingofbreasttumorsidentifiestrem1asadominantimmunesuppressivemarkerassociatedwithpooroutcomes-2021\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('pullikuth-routh-zimmerman-chifman-chou-soike-jin-su-etal-bulkandsinglecellprofilingofbreasttumorsidentifiestrem1asadominantimmunesuppressivemarkerassociatedwithpooroutcomes-2021')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{pullikuth2021bulk,\n\tauthor = {Pullikuth, Ashok K and Routh, Eric D and Zimmerman, Kip D and Chifman, Julia and Chou, Jeff W and Soike, Michael H and Jin, Guangxu and Su, Jing and Song, Qianqian and Black, Michael A and others},\n\tdate-modified = {2023-05-24 16:06:12 -0400},\n\tdoi = {https://doi.org/10.3389/fonc.2021.734959},\n\tjournal = {Frontiers in Oncology},\n\tpages = {734959},\n\tpublisher = {Frontiers Media SA},\n\ttitle = {Bulk and single-cell profiling of breast tumors Identifies TREM-1 as a dominant immune suppressive marker associated with poor outcomes},\n\tvolume = {11},\n\tyear = {2021}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2020\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2020')\"\n      onkeypress=\"toggleGroup('group_2020')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2020</span>\n      <span class=\"bibbase_group_count\">\n        \n        (2)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"routh-pullikuth-jin-chifman-chou-dagostinojr-seino-wada-etal-transcriptomicfeaturesoftcellbarrentumorsareconservedacrossdiversetumortypes-2020\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Transcriptomic features of T cell-barren tumors are conserved across diverse tumor types.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Routh, E. D; Pullikuth, A. K; Jin, G.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Chou, J. W; D'Agostino Jr, R. B; Seino, K.; Wada, H.; Print, C. G; Zhang, W.;  and others\n</span>\n\n  \n\n</span>\n\n  <i>Frontiers in immunology</i>, 11: 57.  2020.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.3389/fimmu.2020.00057\"\n     onclick=\"log_download('routh-pullikuth-jin-chifman-chou-dagostinojr-seino-wada-etal-transcriptomicfeaturesoftcellbarrentumorsareconservedacrossdiversetumortypes-2020', 'http://doi.org/https://doi.org/10.3389/fimmu.2020.00057', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/routh-pullikuth-jin-chifman-chou-dagostinojr-seino-wada-etal-transcriptomicfeaturesoftcellbarrentumorsareconservedacrossdiversetumortypes-2020\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('routh-pullikuth-jin-chifman-chou-dagostinojr-seino-wada-etal-transcriptomicfeaturesoftcellbarrentumorsareconservedacrossdiversetumortypes-2020')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{routh2020transcriptomic,\n\tauthor = {Routh, Eric D and Pullikuth, Ashok K and Jin, Guangxu and Chifman, Julia and Chou, Jeff W and D&#x27;Agostino Jr, Ralph B and Seino, Ken-ichiro and Wada, Haruka and Print, Cristin G and Zhang, Wei and others},\n\tdate-modified = {2023-05-24 16:18:04 -0400},\n\tdoi = {https://doi.org/10.3389/fimmu.2020.00057},\n\tjournal = {Frontiers in immunology},\n\tpages = {57},\n\tpublisher = {Frontiers Media SA},\n\ttitle = {Transcriptomic features of T cell-barren tumors are conserved across diverse tumor types},\n\tvolume = {11},\n\tyear = {2020}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2020\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Identifiability of speciation times under the multispecies coalescent.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Kubatko, L.; Leonard, A.;  and <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>bioRxiv</i>,2020–11.  2020.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1101/2020.11.24.396424\"\n     onclick=\"log_download('kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2020', 'http://doi.org/https://doi.org/10.1101/2020.11.24.396424', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2020\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('kubatko-leonard-chifman-identifiabilityofspeciationtimesunderthemultispeciescoalescent-2020')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{kubatko2020identifiability,\n\tauthor = {Kubatko, Laura and Leonard, Alexander and Chifman, Julia},\n\tdate-modified = {2023-05-24 16:08:45 -0400},\n\tdoi = {https://doi.org/10.1101/2020.11.24.396424},\n\tjournal = {bioRxiv},\n\tpages = {2020--11},\n\tpublisher = {Cold Spring Harbor Laboratory},\n\ttitle = {Identifiability of speciation times under the multispecies coalescent},\n\tyear = {2020}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2019\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2019')\"\n      onkeypress=\"toggleGroup('group_2019')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2019</span>\n      <span class=\"bibbase_group_count\">\n        \n        (2)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"kubatko-chifman-aninvariantsbasedmethodforefficientidentificationofhybridspeciesfromlargescalegenomicdata-2019\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  An invariants-based method for efficient identification of hybrid species from large-scale genomic data.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Kubatko, L. S;  and <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>BMC evolutionary biology</i>, 19(1): 1–13.  2019.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1186/s12862-019-1439-7\"\n     onclick=\"log_download('kubatko-chifman-aninvariantsbasedmethodforefficientidentificationofhybridspeciesfromlargescalegenomicdata-2019', 'http://doi.org/https://doi.org/10.1186/s12862-019-1439-7', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/kubatko-chifman-aninvariantsbasedmethodforefficientidentificationofhybridspeciesfromlargescalegenomicdata-2019\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('kubatko-chifman-aninvariantsbasedmethodforefficientidentificationofhybridspeciesfromlargescalegenomicdata-2019')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{kubatko2019invariants,\n\tauthor = {Kubatko, Laura S and Chifman, Julia},\n\tdate-modified = {2023-05-24 16:04:41 -0400},\n\tdoi = {https://doi.org/10.1186/s12862-019-1439-7},\n\tjournal = {BMC evolutionary biology},\n\tnumber = {1},\n\tpages = {1--13},\n\tpublisher = {BioMed Central},\n\ttitle = {An invariants-based method for efficient identification of hybrid species from large-scale genomic data},\n\tvolume = {19},\n\tyear = {2019}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"vieira-masison-adams-torti-laubenbacher-chifman-assessinghowmacrophagesattaindistinctironhandlingphenotypesinatumorviaamathematicalmodel-2019\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Assessing how macrophages attain distinct iron handling phenotypes in a tumor via a mathematical model.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Vieira, L. S.; Masison, J.; Adams, J.; Torti, S.; Laubenbacher, R.;  and <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>Cancer Research</i>, 79(13_Supplement): 2442–2442.  2019.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/vieira-masison-adams-torti-laubenbacher-chifman-assessinghowmacrophagesattaindistinctironhandlingphenotypesinatumorviaamathematicalmodel-2019\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('vieira-masison-adams-torti-laubenbacher-chifman-assessinghowmacrophagesattaindistinctironhandlingphenotypesinatumorviaamathematicalmodel-2019')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{vieira2019assessing,\n\tauthor = {Vieira, Luis Sordo and Masison, Joseph and Adams, Jacqueline and Torti, Suzy and Laubenbacher, Reinhard and Chifman, Julia},\n\tjournal = {Cancer Research},\n\tnumber = {13\\_Supplement},\n\tpages = {2442--2442},\n\tpublisher = {The American Association for Cancer Research},\n\ttitle = {Assessing how macrophages attain distinct iron handling phenotypes in a tumor via a mathematical model},\n\tvolume = {79},\n\tyear = {2019}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2018\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2018')\"\n      onkeypress=\"toggleGroup('group_2018')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2018</span>\n      <span class=\"bibbase_group_count\">\n        \n        (4)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridizationdetection-2018\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  HyDe: a Python package for genome-scale hybridization detection.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Blischak, P. D; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Wolfe, A. D;  and Kubatko, L. S\n</span>\n\n  \n\n</span>\n\n  <i>Systematic Biology</i>, 67(5): 821–829.  2018.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1093/sysbio/syy023\"\n     onclick=\"log_download('blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridizationdetection-2018', 'http://doi.org/https://doi.org/10.1093/sysbio/syy023', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridizationdetection-2018\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridizationdetection-2018')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{blischak2018hyde,\n\tauthor = {Blischak, Paul D and Chifman, Julia and Wolfe, Andrea D and Kubatko, Laura S},\n\tdate-modified = {2023-05-24 16:08:19 -0400},\n\tdoi = {https://doi.org/10.1093/sysbio/syy023},\n\tjournal = {Systematic Biology},\n\tnumber = {5},\n\tpages = {821--829},\n\tpublisher = {Oxford University Press},\n\ttitle = {HyDe: a Python package for genome-scale hybridization detection},\n\tvolume = {67},\n\tyear = {2018}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"pullikuth-chifman-routh-chou-jin-black-miller-triggeringreceptorexpressedinmyeloidcells1trem1isapredictivemarkerforbreastcancertherapeutics-2018\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Triggering receptor expressed in myeloid cells 1 (TREM1) is a predictive marker for breast cancer therapeutics.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Pullikuth, A. K; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Routh, E. D; Chou, J.; Jin, G.; Black, M. A;  and Miller, L. D\n</span>\n\n  \n\n</span>\n\n  <i>Cancer Research</i>, 78(13_Supplement): 3791–3791.  2018.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/pullikuth-chifman-routh-chou-jin-black-miller-triggeringreceptorexpressedinmyeloidcells1trem1isapredictivemarkerforbreastcancertherapeutics-2018\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('pullikuth-chifman-routh-chou-jin-black-miller-triggeringreceptorexpressedinmyeloidcells1trem1isapredictivemarkerforbreastcancertherapeutics-2018')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{pullikuth2018triggering,\n\tauthor = {Pullikuth, Ashok K and Chifman, Julia and Routh, Eric D and Chou, Jeff and Jin, Guangxu and Black, Michael A and Miller, Lance D},\n\tjournal = {Cancer Research},\n\tnumber = {13\\_Supplement},\n\tpages = {3791--3791},\n\tpublisher = {The American Association for Cancer Research},\n\ttitle = {Triggering receptor expressed in myeloid cells 1 (TREM1) is a predictive marker for breast cancer therapeutics},\n\tvolume = {78},\n\tyear = {2018}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"routh-chifman-pullikuth-miller-bonemorphogeneticprotein7isacandidatepromoterofcancerimmuneevasion-2018\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Bone Morphogenetic Protein 7 is a candidate promoter of cancer immune evasion.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Routh, E. D; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Pullikuth, A.;  and Miller, L. D\n</span>\n\n  \n\n</span>\n\n  <i>Cancer Research</i>, 78(13_Supplement): 4753–4753.  2018.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/routh-chifman-pullikuth-miller-bonemorphogeneticprotein7isacandidatepromoterofcancerimmuneevasion-2018\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('routh-chifman-pullikuth-miller-bonemorphogeneticprotein7isacandidatepromoterofcancerimmuneevasion-2018')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{routh2018bone,\n\tauthor = {Routh, Eric D and Chifman, Julia and Pullikuth, Ashok and Miller, Lance D},\n\tjournal = {Cancer Research},\n\tnumber = {13\\_Supplement},\n\tpages = {4753--4753},\n\tpublisher = {The American Association for Cancer Research},\n\ttitle = {Bone Morphogenetic Protein 7 is a candidate promoter of cancer immune evasion},\n\tvolume = {78},\n\tyear = {2018}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"blischak-chifman-wolfe-kubatko-softwareforsystematicsandevolution-2018\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Software for Systematics and Evolution.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  BLISCHAK, P. D; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">CHIFMAN, J.</a>; WOLFE, A. D;  and KUBATKO, L. S\n</span>\n\n  \n\n</span>\n\n  <i>Syst. Biol</i>, 67(5): 821–829.  2018.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/blischak-chifman-wolfe-kubatko-softwareforsystematicsandevolution-2018\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('blischak-chifman-wolfe-kubatko-softwareforsystematicsandevolution-2018')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{blischak2018software,\n\tauthor = {BLISCHAK, PAUL D and CHIFMAN, JULIA and WOLFE, ANDREA D and KUBATKO, LAURA S},\n\tjournal = {Syst. Biol},\n\tnumber = {5},\n\tpages = {821--829},\n\ttitle = {Software for Systematics and Evolution},\n\tvolume = {67},\n\tyear = {2018}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2017\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2017')\"\n      onkeypress=\"toggleGroup('group_2017')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2017</span>\n      <span class=\"bibbase_group_count\">\n        \n        (2)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"chifman-arat-deng-lemler-pino-harris-kochen-lopez-etal-activatedoncogenicpathwaymodifiesironnetworkinbreastepithelialcellsadynamicmodelingperspective-2017\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Activated oncogenic pathway modifies iron network in breast epithelial cells: a dynamic modeling perspective.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Arat, S.; Deng, Z.; Lemler, E.; Pino, J. C; Harris, L. A; Kochen, M. A; Lopez, C. F; Akman, S. A; Torti, F. M;  and others\n</span>\n\n  \n\n</span>\n\n  <i>PLoS computational biology</i>, 13(2): e1005352.  2017.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1371/journal.pcbi.1005352\"\n     onclick=\"log_download('chifman-arat-deng-lemler-pino-harris-kochen-lopez-etal-activatedoncogenicpathwaymodifiesironnetworkinbreastepithelialcellsadynamicmodelingperspective-2017', 'http://doi.org/https://doi.org/10.1371/journal.pcbi.1005352', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-arat-deng-lemler-pino-harris-kochen-lopez-etal-activatedoncogenicpathwaymodifiesironnetworkinbreastepithelialcellsadynamicmodelingperspective-2017\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-arat-deng-lemler-pino-harris-kochen-lopez-etal-activatedoncogenicpathwaymodifiesironnetworkinbreastepithelialcellsadynamicmodelingperspective-2017')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2017activated,\n\tauthor = {Chifman, Julia and Arat, Seda and Deng, Zhiyong and Lemler, Erica and Pino, James C and Harris, Leonard A and Kochen, Michael A and Lopez, Carlos F and Akman, Steven A and Torti, Frank M and others},\n\tdate-modified = {2023-05-24 16:04:04 -0400},\n\tdoi = {https://doi.org/10.1371/journal.pcbi.1005352},\n\tjournal = {PLoS computational biology},\n\tnumber = {2},\n\tpages = {e1005352},\n\tpublisher = {Public Library of Science San Francisco, CA USA},\n\ttitle = {Activated oncogenic pathway modifies iron network in breast epithelial cells: a dynamic modeling perspective},\n\tvolume = {13},\n\tyear = {2017}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"marini-chifman-tooze-gomezmanzano-bussard-osteoblastsareeducatedintoatumorassociatedstromalcellbydisseminatedbreastcancercellsandmediatebreastcancercellproliferationinthebonemicroenvironment-2017\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Osteoblasts are educated into a tumor-associated stromal cell by disseminated breast cancer cells and mediate breast cancer cell proliferation in the bone microenvironment.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Marini, F.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Tooze, J.; Gomez-Manzano, C.;  and Bussard, K. M\n</span>\n\n  \n\n</span>\n\n  <i>Cancer Research</i>, 77(13_Supplement): 5890–5890.  2017.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/marini-chifman-tooze-gomezmanzano-bussard-osteoblastsareeducatedintoatumorassociatedstromalcellbydisseminatedbreastcancercellsandmediatebreastcancercellproliferationinthebonemicroenvironment-2017\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('marini-chifman-tooze-gomezmanzano-bussard-osteoblastsareeducatedintoatumorassociatedstromalcellbydisseminatedbreastcancercellsandmediatebreastcancercellproliferationinthebonemicroenvironment-2017')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{marini2017osteoblasts,\n\tauthor = {Marini, Frank and Chifman, Julia and Tooze, Janet and Gomez-Manzano, Candelaria and Bussard, Karen M},\n\tjournal = {Cancer Research},\n\tnumber = {13\\_Supplement},\n\tpages = {5890--5890},\n\tpublisher = {The American Association for Cancer Research},\n\ttitle = {Osteoblasts are educated into a tumor-associated stromal cell by disseminated breast cancer cells and mediate breast cancer cell proliferation in the bone microenvironment},\n\tvolume = {77},\n\tyear = {2017}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2016\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2016')\"\n      onkeypress=\"toggleGroup('group_2016')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2016</span>\n      <span class=\"bibbase_group_count\">\n        \n        (5)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"miller-chou-black-print-chifman-alistar-putti-zhou-etal-immunogenicsubtypesofbreastcancerdelineatedbygeneclassifiersofimmuneresponsiveness-2016\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Immunogenic subtypes of breast cancer delineated by gene classifiers of immune responsiveness.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Miller, L. D; Chou, J. A; Black, M. A; Print, C.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Alistar, A.; Putti, T.; Zhou, X.; Bedognetti, D.; Hendrickx, W.;  and others\n</span>\n\n  \n\n</span>\n\n  <i>Cancer immunology research</i>, 4(7): 600–610.  2016.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1158/2326-6066.CIR-15-0149 https://doi.org/10.1158/2326-6066.CIR-15-0149\"\n     onclick=\"log_download('miller-chou-black-print-chifman-alistar-putti-zhou-etal-immunogenicsubtypesofbreastcancerdelineatedbygeneclassifiersofimmuneresponsiveness-2016', 'http://doi.org/https://doi.org/10.1158/2326-6066.CIR-15-0149 https://doi.org/10.1158/2326-6066.CIR-15-0149', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/miller-chou-black-print-chifman-alistar-putti-zhou-etal-immunogenicsubtypesofbreastcancerdelineatedbygeneclassifiersofimmuneresponsiveness-2016\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('miller-chou-black-print-chifman-alistar-putti-zhou-etal-immunogenicsubtypesofbreastcancerdelineatedbygeneclassifiersofimmuneresponsiveness-2016')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{miller2016immunogenic,\n\tauthor = {Miller, Lance D and Chou, Jeff A and Black, Michael A and Print, Cristin and Chifman, Julia and Alistar, Angela and Putti, Thomas and Zhou, Xiaobo and Bedognetti, Davide and Hendrickx, Wouter and others},\n\tdate-modified = {2023-05-24 16:11:26 -0400},\n\tdoi = {https://doi.org/10.1158/2326-6066.CIR-15-0149 https://doi.org/10.1158/2326-6066.CIR-15-0149},\n\tjournal = {Cancer immunology research},\n\tnumber = {7},\n\tpages = {600--610},\n\tpublisher = {American Association for Cancer Research},\n\ttitle = {Immunogenic subtypes of breast cancer delineated by gene classifiers of immune responsiveness},\n\tvolume = {4},\n\tyear = {2016}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"chifman-pullikuth-chou-bedognetti-miller-conservationofimmunegenesignaturesinsolidtumorsandprognosticimplications-2016\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Conservation of immune gene signatures in solid tumors and prognostic implications.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Pullikuth, A.; Chou, J. W; Bedognetti, D.;  and Miller, L. D\n</span>\n\n  \n\n</span>\n\n  <i>BMC cancer</i>, 16(1): 1–17.  2016.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1186/s12885-016-2948-z\"\n     onclick=\"log_download('chifman-pullikuth-chou-bedognetti-miller-conservationofimmunegenesignaturesinsolidtumorsandprognosticimplications-2016', 'http://doi.org/https://doi.org/10.1186/s12885-016-2948-z', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-pullikuth-chou-bedognetti-miller-conservationofimmunegenesignaturesinsolidtumorsandprognosticimplications-2016\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-pullikuth-chou-bedognetti-miller-conservationofimmunegenesignaturesinsolidtumorsandprognosticimplications-2016')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2016conservation,\n\tauthor = {Chifman, Julia and Pullikuth, Ashok and Chou, Jeff W and Bedognetti, Davide and Miller, Lance D},\n\tdate-modified = {2023-05-24 16:06:39 -0400},\n\tdoi = {https://doi.org/10.1186/s12885-016-2948-z},\n\tjournal = {BMC cancer},\n\tnumber = {1},\n\tpages = {1--17},\n\tpublisher = {BioMed Central},\n\ttitle = {Conservation of immune gene signatures in solid tumors and prognostic implications},\n\tvolume = {16},\n\tyear = {2016}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"alistar-chifman-dagostinojr-miller-abstracta011geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Abstract A011: Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Alistar, A. T.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; D'Agostino Jr, R.;  and Miller, L. D\n</span>\n\n  \n\n</span>\n\n  <i>Cancer Immunology Research</i>, 4(1_Supplement): A011–A011.  2016.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/alistar-chifman-dagostinojr-miller-abstracta011geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('alistar-chifman-dagostinojr-miller-abstracta011geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{alistar2016abstract,\n\tauthor = {Alistar, Angela Tatiana and Chifman, Julia and D&#x27;Agostino Jr, Ralph and Miller, Lance D},\n\tjournal = {Cancer Immunology Research},\n\tnumber = {1\\_Supplement},\n\tpages = {A011--A011},\n\tpublisher = {The American Association for Cancer Research},\n\ttitle = {Abstract A011: Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer},\n\tvolume = {4},\n\tyear = {2016}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"chifman-phylogeneticinvariants-2016\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Phylogenetic Invariants.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  In <i>Kliman, R.M. (ed.), Encyclopedia of Evolutionary Biology.</i>, volume 3, pages pp–257. Oxford: Academic Press,  2016.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-phylogeneticinvariants-2016\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-phylogeneticinvariants-2016')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@incollection{chifman2016phylogenetic,\n\tauthor = {Chifman, Julia},\n\tbooktitle = {Kliman, R.M. (ed.), Encyclopedia of Evolutionary Biology.},\n\tpages = {pp--257},\n\tpublisher = {Oxford: Academic Press},\n\ttitle = {Phylogenetic Invariants},\n\tvolume = {3},\n\tyear = {2016}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"alistar-chifman-dagostinojr-miller-geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Alistar, A. T.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; D'Agostino Jr, R.;  and Miller, L. D\n</span>\n\n  \n\n</span>\n\n  In <i>CANCER IMMUNOLOGY RESEARCH</i>, volume 4,  2016. AMER ASSOC CANCER RESEARCH 615 CHESTNUT ST, 17TH FLOOR, PHILADELPHIA, PA …\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/alistar-chifman-dagostinojr-miller-geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('alistar-chifman-dagostinojr-miller-geneexpressionsignaturesofeffectorimmunecellabundancearesignificantlyassociatedwithrecurrenceriskincoloncancer-2016')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@inproceedings{alistar2016gene,\n\tauthor = {Alistar, Angela Tatiana and Chifman, Julia and D&#x27;Agostino Jr, Ralph and Miller, Lance D},\n\tbooktitle = {CANCER IMMUNOLOGY RESEARCH},\n\tnumber = {1},\n\torganization = {AMER ASSOC CANCER RESEARCH 615 CHESTNUT ST, 17TH FLOOR, PHILADELPHIA, PA~{\\ldots}},\n\ttitle = {Gene expression signatures of effector immune cell abundance are significantly associated with recurrence risk in colon cancer},\n\tvolume = {4},\n\tyear = {2016}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2015\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2015')\"\n      onkeypress=\"toggleGroup('group_2015')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2015</span>\n      <span class=\"bibbase_group_count\">\n        \n        (1)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"chifman-kubatko-identifiabilityoftheunrootedspeciestreetopologyunderthecoalescentmodelwithtimereversiblesubstitutionprocessessitespecificratevariationandinvariablesites-2015\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Identifiability of the unrooted species tree topology under the coalescent model with time-reversible substitution processes, site-specific rate variation, and invariable sites.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>;  and Kubatko, L.\n</span>\n\n  \n\n</span>\n\n  <i>Journal of theoretical biology</i>, 374: 35–47.  2015.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1016/j.jtbi.2015.03.006\"\n     onclick=\"log_download('chifman-kubatko-identifiabilityoftheunrootedspeciestreetopologyunderthecoalescentmodelwithtimereversiblesubstitutionprocessessitespecificratevariationandinvariablesites-2015', 'http://doi.org/https://doi.org/10.1016/j.jtbi.2015.03.006', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-kubatko-identifiabilityoftheunrootedspeciestreetopologyunderthecoalescentmodelwithtimereversiblesubstitutionprocessessitespecificratevariationandinvariablesites-2015\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-kubatko-identifiabilityoftheunrootedspeciestreetopologyunderthecoalescentmodelwithtimereversiblesubstitutionprocessessitespecificratevariationandinvariablesites-2015')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2015identifiability,\n\tauthor = {Chifman, Julia and Kubatko, Laura},\n\tdate-modified = {2023-05-24 16:09:22 -0400},\n\tdoi = {https://doi.org/10.1016/j.jtbi.2015.03.006},\n\tjournal = {Journal of theoretical biology},\n\tpages = {35--47},\n\tpublisher = {Elsevier},\n\ttitle = {Identifiability of the unrooted species tree topology under the coalescent model with time-reversible substitution processes, site-specific rate variation, and invariable sites},\n\tvolume = {374},\n\tyear = {2015}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2014\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2014')\"\n      onkeypress=\"toggleGroup('group_2014')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2014</span>\n      <span class=\"bibbase_group_count\">\n        \n        (3)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"chifman-kubatko-quartetinferencefromsnpdataunderthecoalescentmodel-2014\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Quartet inference from SNP data under the coalescent model.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>;  and Kubatko, L.\n</span>\n\n  \n\n</span>\n\n  <i>Bioinformatics</i>, 30(23): 3317–3324.  2014.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1093/bioinformatics/btu530\"\n     onclick=\"log_download('chifman-kubatko-quartetinferencefromsnpdataunderthecoalescentmodel-2014', 'http://doi.org/https://doi.org/10.1093/bioinformatics/btu530', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-kubatko-quartetinferencefromsnpdataunderthecoalescentmodel-2014\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-kubatko-quartetinferencefromsnpdataunderthecoalescentmodel-2014')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2014quartet,\n\tauthor = {Chifman, Julia and Kubatko, Laura},\n\tdate-modified = {2023-05-24 16:14:30 -0400},\n\tdoi = {https://doi.org/10.1093/bioinformatics/btu530},\n\tjournal = {Bioinformatics},\n\tnumber = {23},\n\tpages = {3317--3324},\n\tpublisher = {Oxford University Press},\n\ttitle = {Quartet inference from SNP data under the coalescent model},\n\tvolume = {30},\n\tyear = {2014}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"chifman-laubenbacher-torti-asystemsbiologyapproachtoironmetabolism-2014\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  A systems biology approach to iron metabolism.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Laubenbacher, R.;  and Torti, S. V\n</span>\n\n  \n\n</span>\n\n  <i>A Systems Biology Approach to Blood</i>,201–225.  2014.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1007/978-1-4939-2095-2_10\"\n     onclick=\"log_download('chifman-laubenbacher-torti-asystemsbiologyapproachtoironmetabolism-2014', 'http://doi.org/https://doi.org/10.1007/978-1-4939-2095-2_10', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-laubenbacher-torti-asystemsbiologyapproachtoironmetabolism-2014\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-laubenbacher-torti-asystemsbiologyapproachtoironmetabolism-2014')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2014systems,\n\tauthor = {Chifman, Julia and Laubenbacher, Reinhard and Torti, Suzy V},\n\tdate-modified = {2023-05-24 16:03:18 -0400},\n\tdoi = {https://doi.org/10.1007/978-1-4939-2095-2_10},\n\tjournal = {A Systems Biology Approach to Blood},\n\tpages = {201--225},\n\tpublisher = {Springer New York},\n\ttitle = {A systems biology approach to iron metabolism},\n\tyear = {2014}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"miller-chou-black-print-jimenez-chifman-alistar-putti-etal-immunegenesignaturesandtumorintrinsicmarkersdelineatenovelimmunogenicsubtypesofbreastcancer-2014\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Immune gene signatures and tumor intrinsic markers delineate novel immunogenic subtypes of breast cancer.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Miller, L. D; Chou, J. W; Black, M. A; Print, C. G; Jimenez, E.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>; Alistar, A.; Putti, T. C; Zhou, X.; Bedognetti, D.;  and others\n</span>\n\n  \n\n</span>\n\n  <i>Journal for ImmunoTherapy of Cancer</i>, 2: 1–3.  2014.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1186/2051-1426-2-S3-P256\"\n     onclick=\"log_download('miller-chou-black-print-jimenez-chifman-alistar-putti-etal-immunegenesignaturesandtumorintrinsicmarkersdelineatenovelimmunogenicsubtypesofbreastcancer-2014', 'http://doi.org/https://doi.org/10.1186/2051-1426-2-S3-P256', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/miller-chou-black-print-jimenez-chifman-alistar-putti-etal-immunegenesignaturesandtumorintrinsicmarkersdelineatenovelimmunogenicsubtypesofbreastcancer-2014\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('miller-chou-black-print-jimenez-chifman-alistar-putti-etal-immunegenesignaturesandtumorintrinsicmarkersdelineatenovelimmunogenicsubtypesofbreastcancer-2014')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{miller2014immune,\n\tauthor = {Miller, Lance D and Chou, Jeff W and Black, Michael A and Print, Cristin G and Jimenez, Eric and Chifman, Julia and Alistar, Angela and Putti, Thomas C and Zhou, Xiaobo and Bedognetti, Davide and others},\n\tdate-modified = {2023-05-24 16:10:47 -0400},\n\tdoi = { https://doi.org/10.1186/2051-1426-2-S3-P256},\n\tjournal = {Journal for ImmunoTherapy of Cancer},\n\tpages = {1--3},\n\tpublisher = {BioMed Central},\n\ttitle = {Immune gene signatures and tumor intrinsic markers delineate novel immunogenic subtypes of breast cancer},\n\tvolume = {2},\n\tyear = {2014}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2012\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2012')\"\n      onkeypress=\"toggleGroup('group_2012')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2012</span>\n      <span class=\"bibbase_group_count\">\n        \n        (1)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"chifman-kniss-neupane-williams-leung-deng-mendes-hower-etal-thecorecontrolsystemofintracellularironhomeostasisamathematicalmodel-2012\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  The core control system of intracellular iron homeostasis: a mathematical model.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Chifman, J; Kniss, A; Neupane, P; Williams, I; Leung, B; Deng, Z; Mendes, P; Hower, V; Torti, F.; Akman, S.;  and others\n</span>\n\n  \n\n</span>\n\n  <i>Journal of Theoretical Biology</i>, 300: 91–99.  2012.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1016/j.jtbi.2012.01.024\"\n     onclick=\"log_download('chifman-kniss-neupane-williams-leung-deng-mendes-hower-etal-thecorecontrolsystemofintracellularironhomeostasisamathematicalmodel-2012', 'http://doi.org/https://doi.org/10.1016/j.jtbi.2012.01.024', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-kniss-neupane-williams-leung-deng-mendes-hower-etal-thecorecontrolsystemofintracellularironhomeostasisamathematicalmodel-2012\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-kniss-neupane-williams-leung-deng-mendes-hower-etal-thecorecontrolsystemofintracellularironhomeostasisamathematicalmodel-2012')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2012core,\n\tauthor = {Chifman, J and Kniss, A and Neupane, P and Williams, I and Leung, B and Deng, Z and Mendes, P and Hower, V and Torti, FM and Akman, SA and others},\n\tdate-modified = {2023-05-24 16:15:27 -0400},\n\tdoi = {https://doi.org/10.1016/j.jtbi.2012.01.024},\n\tjournal = {Journal of Theoretical Biology},\n\tpages = {91--99},\n\tpublisher = {Academic Press},\n\ttitle = {The core control system of intracellular iron homeostasis: a mathematical model},\n\tvolume = {300},\n\tyear = {2012}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2009\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2009')\"\n      onkeypress=\"toggleGroup('group_2009')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2009</span>\n      <span class=\"bibbase_group_count\">\n        \n        (2)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"chifman-noteondirectproductsofcertainclassesoffinitegroups-2009\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Note on direct products of certain classes of finite groups.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>Communications in Algebra</i>, 37(5): 1831–1842.  2009.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1080/00927870802070322\"\n     onclick=\"log_download('chifman-noteondirectproductsofcertainclassesoffinitegroups-2009', 'http://doi.org/https://doi.org/10.1080/00927870802070322', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-noteondirectproductsofcertainclassesoffinitegroups-2009\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-noteondirectproductsofcertainclassesoffinitegroups-2009')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2009note,\n\tauthor = {Chifman, Julia},\n\tdate-modified = {2023-05-24 16:12:10 -0400},\n\tdoi = {https://doi.org/10.1080/00927870802070322},\n\tjournal = {Communications in Algebra},\n\tnumber = {5},\n\tpages = {1831--1842},\n\tpublisher = {Taylor \\&amp; Francis},\n\ttitle = {Note on direct products of certain classes of finite groups},\n\tvolume = {37},\n\tyear = {2009}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"chifman-directproductsandtheintersectionmapofcertainclassesoffinitegroups-2009\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Direct Products and the Intersection Map of Certain Classes of Finite Groups.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  .  2009.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-directproductsandtheintersectionmapofcertainclassesoffinitegroups-2009\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-directproductsandtheintersectionmapofcertainclassesoffinitegroups-2009')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{chifman2009direct,\n\tauthor = {Chifman, Julia},\n\ttitle = {Direct Products and the Intersection Map of Certain Classes of Finite Groups},\n\tyear = {2009}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2008\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2008')\"\n      onkeypress=\"toggleGroup('group_2008')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2008</span>\n      <span class=\"bibbase_group_count\">\n        \n        (1)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"beidleman-chifman-theintersectionmapofsubgroupsandtheclassespstcptcandtc-2008\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  The intersection map of subgroups and the classes PSTc, PTc and Tc.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Beidleman, J. C;  and <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>\n</span>\n\n  \n\n</span>\n\n  <i>Ricerche di matematica</i>, 57(2): 301–309.  2008.\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/beidleman2008intersection\"\n     onclick=\"log_download('beidleman-chifman-theintersectionmapofsubgroupsandtheclassespstcptcandtc-2008', 'http://doi.org/beidleman2008intersection', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/beidleman-chifman-theintersectionmapofsubgroupsandtheclassespstcptcandtc-2008\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('beidleman-chifman-theintersectionmapofsubgroupsandtheclassespstcptcandtc-2008')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{beidleman2008intersection,\n\tauthor = {Beidleman, James C and Chifman, Julia},\n\tdate-modified = {2023-05-24 16:16:17 -0400},\n\tdoi = {beidleman2008intersection},\n\tjournal = {Ricerche di matematica},\n\tnumber = {2},\n\tpages = {301--309},\n\tpublisher = {Springer Milan Milan},\n\ttitle = {The intersection map of subgroups and the classes PSTc, PTc and Tc.},\n\tvolume = {57},\n\tyear = {2008}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_2007\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_2007')\"\n      onkeypress=\"toggleGroup('group_2007')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>2007</span>\n      <span class=\"bibbase_group_count\">\n        \n        (1)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"chifman-petrovi-toricidealsofphylogeneticinvariantsforthegeneralgroupbasedmodelonclawtreesk1n-2007\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Toric Ideals of Phylogenetic Invariants for the General Group-Based Model on Claw Trees K 1, n.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>;  and Petrović, S.\n</span>\n\n  \n\n</span>\n\n  In <i>Algebraic Biology: Second International Conference, AB 2007, Castle of Hagenberg, Austria, July 2-4, 2007. Proceedings 2</i>, pages 307–321,  2007. Springer Berlin Heidelberg\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n  <a href=\"http://doi.org/https://doi.org/10.1007/978-3-540-73433-8_22\"\n     onclick=\"log_download('chifman-petrovi-toricidealsofphylogeneticinvariantsforthegeneralgroupbasedmodelonclawtreesk1n-2007', 'http://doi.org/https://doi.org/10.1007/978-3-540-73433-8_22', event.ctrlKey)\"\n     class=\"bibbase doi link\">\n    <span>doi</span></a>\n  &nbsp;\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/chifman-petrovi-toricidealsofphylogeneticinvariantsforthegeneralgroupbasedmodelonclawtreesk1n-2007\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('chifman-petrovi-toricidealsofphylogeneticinvariantsforthegeneralgroupbasedmodelonclawtreesk1n-2007')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@inproceedings{chifman2007toric,\n\tauthor = {Chifman, Julia and Petrovi{\\&#x27;c}, Sonja},\n\tbooktitle = {Algebraic Biology: Second International Conference, AB 2007, Castle of Hagenberg, Austria, July 2-4, 2007. Proceedings 2},\n\tdate-modified = {2023-05-24 16:17:10 -0400},\n\tdoi = {https://doi.org/10.1007/978-3-540-73433-8_22},\n\torganization = {Springer Berlin Heidelberg},\n\tpages = {307--321},\n\ttitle = {Toric Ideals of Phylogenetic Invariants for the General Group-Based Model on Claw Trees K 1, n},\n\tyear = {2007}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n  <div class=\"bibbase_group_whole\" id=\"group_undefined\">\n    <div class=\"bibbase_group\"\n      onclick=\"toggleGroup('group_undefined')\"\n      onkeypress=\"toggleGroup('group_undefined')\"\n      tabindex=\"0\">\n      <i class=\"fa fa-angle-down bibbase_group_head_icon\"></i>&nbsp;\n      <span>undefined</span>\n      <span class=\"bibbase_group_count\">\n        \n        (2)\n        \n      </span>\n    </div>\n    <div class=\"bibbase_group_body\">\n      \n  \n  <div class=\"bibbase_paper\" id=\"blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridization\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  HyDe: a Python Package for Genome-Scale Hybridization.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  BLISCHAK, P. D; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">CHIFMAN, J.</a>; WOLFE, A. D;  and KUBATKO, L. S\n</span>\n\n  \n\n</span>\n\n  .  .\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridization\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('blischak-chifman-wolfe-kubatko-hydeapythonpackageforgenomescalehybridization')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{blischakhyde,\n\tauthor = {BLISCHAK, PAUL D and CHIFMAN, JULIA and WOLFE, ANDREA D and KUBATKO, LAURA S},\n\ttitle = {HyDe: a Python Package for Genome-Scale Hybridization}}\n\n</pre>\n</div>\n\n\n\n</div>\n\n\n  <div class=\"bibbase_paper\" id=\"gao-gaither-chifman-kubatko-supplementarymaterialtoaphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression\">\n  <span class=\"bibbase_paper_titleauthoryear\">\n\n  \n  <span class=\"bibbase_paper_title\">\n  \n  \n  \n  Supplementary material to ``A Phylogenetic Approach to Inferring the Order in Which Mutations Arise during Cancer Progression''.\n  \n  \n  \n</span>\n\n  <span class=\"bibbase_paper_author\">\n  Gao, Y.; Gaither, J.; <a class=\"bibbase author link\" href=\"https://chifman.github.io/publications.html\">Chifman, J.</a>;  and Kubatko, L.\n</span>\n\n  \n\n</span>\n\n  .  .\n  <span class=\"note\"></span>\n\n<span class=\"bibbase_note\"></span>\n\n<br class=\"bibbase_paper_content\"/>\n\n<span class=\"bibbase_paper_content dontprint\">\n\n  \n\n  \n\n  \n  <a href=\"//bibbase.org/network/publication/gao-gaither-chifman-kubatko-supplementarymaterialtoaphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression\"\n     class=\"bibbase bibbase_page link\">link</a>\n  &nbsp;\n  \n\n  <a href=\"#\"\n     onclick=\"showBib(event); return false;\"\n     class=\"bibbase bibtex link\">bibtex\n    <i class=\"fa fa-caret-down\"></i></a>\n\n  \n\n  \n\n  <!-- <a class=\"bibbase read link hidden\" -->\n  <!--    href=\"javascript:toggleRead('gao-gaither-chifman-kubatko-supplementarymaterialtoaphylogeneticapproachtoinferringtheorderinwhichmutationsariseduringcancerprogression')\" -->\n  <!--    title=\"Marking this paper as read adds it to your library on BibBase.\" -->\n  <!--    > -->\n  <!--   <i class=\"fa fa-check\"></i>&nbsp; -->\n  <!--   <span>mark as read</span> -->\n  <!-- </a> -->\n\n  &nbsp;\n  \n  \n\n</span>\n\n<div class=\"well well-small bibbase\" data-type=\"bibtex\"\n     style=\"display:none\">\n  <pre style=\"white-space: pre-wrap;\">@article{gaosupplementary,\n\tauthor = {Gao, Yuan and Gaither, Jeff and Chifman, Julia and Kubatko, Laura},\n\ttitle = {Supplementary material to &#x60;&#x60;A Phylogenetic Approach to Inferring the Order in Which Mutations Arise during Cancer Progression&#x27;&#x27;}}\n</pre>\n</div>\n\n\n\n</div>\n\n\n\n\n\n    </div>\n  </div>\n\n\n\n\n  </div>\n\n\n  <!-- Modal -->\n\n  <!-- <iframe id=\"bibbase_network_frame\" -->\n  <!--         src=\"//bibbase.org/network/control\" -->\n  <!--         style=\"display: none;\"> -->\n  <!-- </iframe> -->\n\n</div>\n"}; document.write(bibbase_data.data);