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\n  \n 2019\n \n \n (6)\n \n \n
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\n \n\n \n \n \n \n \n Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations.\n \n \n \n\n\n \n Daya, M.; Rafaels, N.; Brunetti, T. M; Chavan, S.; Levin, A. M; Shetty, A.; Gignoux, C. R; Boorgula, M. P.; Wojcik, G.; Campbell, M.; and others\n\n\n \n\n\n\n Nature communications, 10(1): 880. 2019.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{daya2019association,\n  title={Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations},\n  author={Daya, Michelle and Rafaels, Nicholas and Brunetti, Tonya M and Chavan, Sameer and Levin, Albert M and Shetty, Aniket and Gignoux, Christopher R and Boorgula, Meher Preethi and Wojcik, Genevieve and Campbell, Monica and others},\n  journal={Nature communications},\n  volume={10},\n  number={1},\n  pages={880},\n  year={2019},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n Rapid Irreversible Transcriptional Reprogramming in Human Stem Cells Accompanied by Discordance between Replication Timing and Chromatin Compartment.\n \n \n \n\n\n \n Dileep, V.; Wilson, K. A; Marchal, C.; Lyu, X.; Zhao, P. A; Li, B.; Poulet, A.; Bartlett, D. A; Rivera-Mulia, J. C.; Qin, Z. S; and others\n\n\n \n\n\n\n Stem cell reports. 2019.\n \n\n\n\n
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@article{dileep2019rapid,\n  title={Rapid Irreversible Transcriptional Reprogramming in Human Stem Cells Accompanied by Discordance between Replication Timing and Chromatin Compartment},\n  author={Dileep, Vishnu and Wilson, Korey A and Marchal, Claire and Lyu, Xiaowen and Zhao, Peiyao A and Li, Ben and Poulet, Axel and Bartlett, Daniel A and Rivera-Mulia, Juan Carlos and Qin, Zhaohui S and others},\n  journal={Stem cell reports},\n  year={2019},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n Integrative characterization of G-Quadruplexes in the three-dimensional chromatin structure.\n \n \n \n\n\n \n Hou, Y.; Li, F.; Zhang, R.; Li, S.; Liu, H.; Qin, Z. S; and Sun, X.\n\n\n \n\n\n\n Epigenetics,1–18. 2019.\n \n\n\n\n
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@article{hou2019integrative,\n  title={Integrative characterization of G-Quadruplexes in the three-dimensional chromatin structure},\n  author={Hou, Yue and Li, Fuyu and Zhang, Rongxin and Li, Sheng and Liu, Hongde and Qin, Zhaohui S and Sun, Xiao},\n  journal={Epigenetics},\n  pages={1--18},\n  year={2019},\n  publisher={Taylor \\& Francis}\n}\n\n
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\n \n\n \n \n \n \n \n Regulatory annotation of genomic intervals based on tissue-specific expression QTLs.\n \n \n \n\n\n \n Xu, T.; Jin, P.; and Qin, Z. S\n\n\n \n\n\n\n Bioinformatics. 2019.\n \n\n\n\n
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@article{xu2019regulatory,\n  title={Regulatory annotation of genomic intervals based on tissue-specific expression QTLs},\n  author={Xu, Tianlei and Jin, Peng and Qin, Zhaohui S},\n  journal={Bioinformatics},\n  year={2019}\n}\n\n
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\n \n\n \n \n \n \n \n An integrated system biology approach yields drug repositioning candidates for the treatment of heart failure.\n \n \n \n\n\n \n Yang, G.; Ma, A.; and Qin, Z. S\n\n\n \n\n\n\n Frontiers in genetics, 10: 916. 2019.\n \n\n\n\n
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@article{yang2019integrated,\n  title={An integrated system biology approach yields drug repositioning candidates for the treatment of heart failure},\n  author={Yang, Guodong and Ma, Aiqun and Qin, Zhaohui S},\n  journal={Frontiers in genetics},\n  volume={10},\n  pages={916},\n  year={2019},\n  publisher={Frontiers}\n}\n\n
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\n \n\n \n \n \n \n \n Author Correction: Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations.\n \n \n \n\n\n \n Daya, M.; Rafaels, N.; Brunetti, T. M; Chavan, S.; Levin, A. M; Shetty, A.; Gignoux, C. R; Boorgula, M. P.; Wojcik, G.; Campbell, M.; and others\n\n\n \n\n\n\n Nature communications, 10(1): 1–2. 2019.\n \n\n\n\n
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@article{daya2019author,\n  title={Author Correction: Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations},\n  author={Daya, Michelle and Rafaels, Nicholas and Brunetti, Tonya M and Chavan, Sameer and Levin, Albert M and Shetty, Aniket and Gignoux, Christopher R and Boorgula, Meher Preethi and Wojcik, Genevieve and Campbell, Monica and others},\n  journal={Nature communications},\n  volume={10},\n  number={1},\n  pages={1--2},\n  year={2019},\n  publisher={Nature Publishing Group}\n}\n
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\n  \n 2018\n \n \n (5)\n \n \n
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\n \n\n \n \n \n \n \n Optimized distributed systems achieve significant performance improvement on sorted merging of massive VCF files.\n \n \n \n\n\n \n Sun, X.; Gao, J.; Jin, P.; Eng, C.; Burchard, E. G; Beaty, T. H; Ruczinski, I.; Mathias, R. A; Barnes, K.; Wang, F.; and others\n\n\n \n\n\n\n GigaScience, 7(6): giy052. 2018.\n \n\n\n\n
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@article{sun2018optimized,\n  title={Optimized distributed systems achieve significant performance improvement on sorted merging of massive VCF files},\n  author={Sun, Xiaobo and Gao, Jingjing and Jin, Peng and Eng, Celeste and Burchard, Esteban G and Beaty, Terri H and Ruczinski, Ingo and Mathias, Rasika A and Barnes, Kathleen and Wang, Fusheng and others},\n  journal={GigaScience},\n  volume={7},\n  number={6},\n  pages={giy052},\n  year={2018},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n EWS/ETS-driven ewing sarcoma requires BET bromodomain proteins.\n \n \n \n\n\n \n Gollavilli, P. N.; Pawar, A.; Wilder-Romans, K.; Natesan, R.; Engelke, C. G; Dommeti, V. L; Krishnamurthy, P. M; Nallasivam, A.; Apel, I. J; Xu, T.; and others\n\n\n \n\n\n\n Cancer research, 78(16): 4760–4773. 2018.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{gollavilli2018ews,\n  title={EWS/ETS-driven ewing sarcoma requires BET bromodomain proteins},\n  author={Gollavilli, Paradesi Naidu and Pawar, Aishwarya and Wilder-Romans, Kari and Natesan, Ramakrishnan and Engelke, Carl G and Dommeti, Vijaya L and Krishnamurthy, Pranathi M and Nallasivam, Archana and Apel, Ingrid J and Xu, Tianlei and others},\n  journal={Cancer research},\n  volume={78},\n  number={16},\n  pages={4760--4773},\n  year={2018},\n  publisher={American Association for Cancer Research}\n}\n\n
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\n \n\n \n \n \n \n \n RT States: systematic annotation of the human genome using cell type-specific replication timing programs.\n \n \n \n\n\n \n Poulet, A.; Li, B.; Dubos, T.; Rivera-Mulia, J. C.; Gilbert, D. M; and Qin, Z. S\n\n\n \n\n\n\n Bioinformatics, 35(13): 2167–2176. 2018.\n \n\n\n\n
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@article{poulet2018rt,\n  title={RT States: systematic annotation of the human genome using cell type-specific replication timing programs},\n  author={Poulet, Axel and Li, Ben and Dubos, Tristan and Rivera-Mulia, Juan Carlos and Gilbert, David M and Qin, Zhaohui S},\n  journal={Bioinformatics},\n  volume={35},\n  number={13},\n  pages={2167--2176},\n  year={2018},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Inferring Spatial Organization of Individual Topologically Associated Domains via Piecewise Helical Model.\n \n \n \n\n\n \n Zhang, R.; Hu, M.; Zhu, Y. M.; Qin, Z. S.; Deng, K.; and Liu, J. S\n\n\n \n\n\n\n IEEE/ACM transactions on computational biology and bioinformatics. 2018.\n \n\n\n\n
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@article{zhang2018inferring,\n  title={Inferring Spatial Organization of Individual Topologically Associated Domains via Piecewise Helical Model},\n  author={Zhang, Rongrong and Hu, Ming and Zhu, Yu Michael and Qin, Zhaohui Steve and Deng, Ke and Liu, Jun S},\n  journal={IEEE/ACM transactions on computational biology and bioinformatics},\n  year={2018},\n  publisher={IEEE}\n}\n\n
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\n \n\n \n \n \n \n \n A comprehensive review of computational prediction of genome-wide features.\n \n \n \n\n\n \n Xu, T.; Zheng, X.; Li, B.; Jin, P.; Qin, Z.; and Wu, H.\n\n\n \n\n\n\n Briefings in bioinformatics. 2018.\n \n\n\n\n
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@article{xu2018comprehensive,\n  title={A comprehensive review of computational prediction of genome-wide features},\n  author={Xu, Tianlei and Zheng, Xiaoqi and Li, Ben and Jin, Peng and Qin, Zhaohui and Wu, Hao},\n  journal={Briefings in bioinformatics},\n  year={2018}\n}\n\n
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\n  \n 2017\n \n \n (15)\n \n \n
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\n \n\n \n \n \n \n \n Improving hierarchical models using historical data with applications in high-throughput genomics data analysis.\n \n \n \n\n\n \n Li, B.; Li, Y.; and Qin, Z. S\n\n\n \n\n\n\n Statistics in biosciences, 9(1): 73–90. 2017.\n \n\n\n\n
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@article{li2017improving,\n  title={Improving hierarchical models using historical data with applications in high-throughput genomics data analysis},\n  author={Li, Ben and Li, Yunxiao and Qin, Zhaohui S},\n  journal={Statistics in biosciences},\n  volume={9},\n  number={1},\n  pages={73--90},\n  year={2017},\n  publisher={Springer US}\n}\n\n
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\n \n\n \n \n \n \n \n Genome-wide STAT3 binding analysis after histone deacetylase inhibition reveals novel target genes in dendritic cells.\n \n \n \n\n\n \n Sun, Y.; Iyer, M.; McEachin, R.; Zhao, M.; Wu, Y.; Cao, X.; Oravecz-Wilson, K.; Zajac, C.; Mathewson, N.; Wu, S. J.; and others\n\n\n \n\n\n\n Journal of innate immunity, 9(2): 126–144. 2017.\n \n\n\n\n
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@article{sun2017genome,\n  title={Genome-wide STAT3 binding analysis after histone deacetylase inhibition reveals novel target genes in dendritic cells},\n  author={Sun, Yaping and Iyer, Matthew and McEachin, Richard and Zhao, Meng and Wu, Yi-Mi and Cao, Xuhong and Oravecz-Wilson, Katherine and Zajac, Cynthia and Mathewson, Nathan and Wu, Shin-Rong Julia and others},\n  journal={Journal of innate immunity},\n  volume={9},\n  number={2},\n  pages={126--144},\n  year={2017},\n  publisher={Karger Publishers}\n}\n\n
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\n \n\n \n \n \n \n \n An approach of identifying differential nucleosome regions in multiple samples.\n \n \n \n\n\n \n Liu, L.; Xie, J.; Sun, X.; Luo, K.; Qin, Z. S.; and Liu, H.\n\n\n \n\n\n\n BMC genomics, 18(1): 135. 2017.\n \n\n\n\n
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@article{liu2017approach,\n  title={An approach of identifying differential nucleosome regions in multiple samples},\n  author={Liu, Lingjie and Xie, Jianming and Sun, Xiao and Luo, Kun and Qin, Zhaohui Steve and Liu, Hongde},\n  journal={BMC genomics},\n  volume={18},\n  number={1},\n  pages={135},\n  year={2017},\n  publisher={BioMed Central}\n}\n\n
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\n \n\n \n \n \n \n \n Computationally Tractable Multivariate HMM in Genome-Wide Mapping Studies.\n \n \n \n\n\n \n Choi, H.; Ghosh, D.; and Qin, Z.\n\n\n \n\n\n\n In Hidden Markov Models, pages 135–148. Humana Press, New York, NY, 2017.\n \n\n\n\n
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@incollection{choi2017computationally,\n  title={Computationally Tractable Multivariate HMM in Genome-Wide Mapping Studies},\n  author={Choi, Hyungwon and Ghosh, Debashis and Qin, Zhaohui},\n  booktitle={Hidden Markov Models},\n  pages={135--148},\n  year={2017},\n  publisher={Humana Press, New York, NY}\n}\n\n
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\n \n\n \n \n \n \n \n Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome.\n \n \n \n\n\n \n Johnston, H. R.; Hu, Y.; Gao, J.; O’Connor, T. D; Abecasis, G. R; Wojcik, G. L; Gignoux, C. R; Gourraud, P.; Lizee, A.; Hansen, M.; and others\n\n\n \n\n\n\n Scientific reports, 7: 46398. 2017.\n \n\n\n\n
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@article{johnston2017identifying,\n  title={Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome},\n  author={Johnston, Henry Richard and Hu, Yi-Juan and Gao, Jingjing and O’Connor, Timothy D and Abecasis, Gon{\\c{c}}alo R and Wojcik, Genevieve L and Gignoux, Christopher R and Gourraud, Pierre-Antoine and Lizee, Antoine and Hansen, Mark and others},\n  journal={Scientific reports},\n  volume={7},\n  pages={46398},\n  year={2017},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n Genome-wide association study of asthma in individuals of African ancestry reveals novel asthma susceptibility loci.\n \n \n \n\n\n \n Daya, M.; Rafaels, N.; Chavan, S.; Johnston, H. R.; Shetty, A.; Gignoux, C. R; Boorgula, M. P.; Campbell, M.; Maul, P.; Maul, T.; and others\n\n\n \n\n\n\n bioRxiv,112953. 2017.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{daya2017genome,\n  title={Genome-wide association study of asthma in individuals of African ancestry reveals novel asthma susceptibility loci},\n  author={Daya, Michelle and Rafaels, Nicholas and Chavan, Sameer and Johnston, Henry Richard and Shetty, Aniket and Gignoux, Christopher R and Boorgula, Meher Preethi and Campbell, Monica and Maul, Pissamai and Maul, Trevor and others},\n  journal={bioRxiv},\n  pages={112953},\n  year={2017},\n  publisher={Cold Spring Harbor Laboratory}\n}\n\n
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\n \n\n \n \n \n \n \n Omicseq: a web-based search engine for exploring omics datasets.\n \n \n \n\n\n \n Sun, X.; Pittard, W. S; Xu, T.; Chen, L.; Zwick, M. E; Jiang, X.; Wang, F.; and Qin, Z. S\n\n\n \n\n\n\n Nucleic acids research, 45(W1): W445–W452. 2017.\n \n\n\n\n
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@article{sun2017omicseq,\n  title={Omicseq: a web-based search engine for exploring omics datasets},\n  author={Sun, Xiaobo and Pittard, William S and Xu, Tianlei and Chen, Li and Zwick, Michael E and Jiang, Xiaoqian and Wang, Fusheng and Qin, Zhaohui S},\n  journal={Nucleic acids research},\n  volume={45},\n  number={W1},\n  pages={W445--W452},\n  year={2017},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Genome-Wide Association Study Of Asthma In Individuals Of Mixed African Ancestry Reveals A Novel Association On Chromosome 2q14.\n \n \n \n\n\n \n Daya, M.; Rafaels, N. M; Chavan, S.; Boorgula, M.; Johnston, H. R; Wilson, J.; Williams, L K; Rotimi, C.; Ober, C.; Meyers, D.; and others\n\n\n \n\n\n\n In B34. GENETICS AND GENOMICS OF LUNG DISEASE, pages A7615–A7615. American Thoracic Society, 2017.\n \n\n\n\n
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@incollection{daya2017genome,\n  title={Genome-Wide Association Study Of Asthma In Individuals Of Mixed African Ancestry Reveals A Novel Association On Chromosome 2q14},\n  author={Daya, Michelle and Rafaels, Nicholas M and Chavan, Sameer and Boorgula, Meher and Johnston, Henry R and Wilson, James and Williams, L K and Rotimi, Charles and Ober, Carole and Meyers, Deborah and others},\n  booktitle={B34. GENETICS AND GENOMICS OF LUNG DISEASE},\n  pages={A7615--A7615},\n  year={2017},\n  publisher={American Thoracic Society}\n}\n\n
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\n \n\n \n \n \n \n \n CRISPR/Cas9-mediated gene editing ameliorates neurotoxicity in mouse model of Huntington’s disease.\n \n \n \n\n\n \n Yang, S.; Chang, R.; Yang, H.; Zhao, T.; Hong, Y.; Kong, H. E.; Sun, X.; Qin, Z.; Jin, P.; Li, S.; and others\n\n\n \n\n\n\n The Journal of clinical investigation, 127(7): 2719–2724. 2017.\n \n\n\n\n
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@article{yang2017crispr,\n  title={CRISPR/Cas9-mediated gene editing ameliorates neurotoxicity in mouse model of Huntington’s disease},\n  author={Yang, Su and Chang, Renbao and Yang, Huiming and Zhao, Ting and Hong, Yan and Kong, Ha Eun and Sun, Xiaobo and Qin, Zhaohui and Jin, Peng and Li, Shihua and others},\n  journal={The Journal of clinical investigation},\n  volume={127},\n  number={7},\n  pages={2719--2724},\n  year={2017},\n  publisher={American Society for Clinical Investigation}\n}\n\n
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\n \n\n \n \n \n \n \n Ten-eleven translocation 2 interacts with forkhead box O3 and regulates adult neurogenesis.\n \n \n \n\n\n \n Li, X.; Yao, B.; Chen, L.; Kang, Y.; Li, Y.; Cheng, Y.; Li, L.; Lin, L.; Wang, Z.; Wang, M.; and others\n\n\n \n\n\n\n Nature communications, 8: 15903. 2017.\n \n\n\n\n
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@article{li2017ten,\n  title={Ten-eleven translocation 2 interacts with forkhead box O3 and regulates adult neurogenesis},\n  author={Li, Xuekun and Yao, Bing and Chen, Li and Kang, Yunhee and Li, Yujing and Cheng, Ying and Li, Liping and Lin, Li and Wang, Zhiqin and Wang, Mengli and others},\n  journal={Nature communications},\n  volume={8},\n  pages={15903},\n  year={2017},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n Abstract LB-099: BET bromodomain proteins are essential for the oncogenic EWS-fusion driven Ewing Sarcoma.\n \n \n \n\n\n \n Gollavilli, P. N; Pawar, A.; Wilder-Romans, K.; Engelke, C.; Dommeti, V. L; Krishnamurthy, P. M; Nallasivam, A.; Apel, I. A; Xu, T.; Qin, Z. S; and others\n\n\n \n\n\n\n 2017.\n \n\n\n\n
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@misc{gollavilli2017abstract,\n  title={Abstract LB-099: BET bromodomain proteins are essential for the oncogenic EWS-fusion driven Ewing Sarcoma},\n  author={Gollavilli, Paradesi N and Pawar, Aishwarya and Wilder-Romans, Kari and Engelke, Carl and Dommeti, Vijaya L and Krishnamurthy, Pranathi M and Nallasivam, Archana and Apel, Ingrid A and Xu, Tianlei and Qin, Zhaohui S and others},\n  year={2017},\n  publisher={American Association for Cancer Research}\n}\n\n
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\n \n\n \n \n \n \n \n High Performance Merging of Massive Data from Genome-Wide Association Studies.\n \n \n \n\n\n \n Sun, X.; Wang, F.; and Qin, Z.\n\n\n \n\n\n\n In VLDB Workshop on Data Management and Analytics for Medicine and Healthcare, pages 36–40, 2017. Springer, Cham\n \n\n\n\n
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@inproceedings{sun2017high,\n  title={High Performance Merging of Massive Data from Genome-Wide Association Studies},\n  author={Sun, Xiaobo and Wang, Fusheng and Qin, Zhaohui},\n  booktitle={VLDB Workshop on Data Management and Analytics for Medicine and Healthcare},\n  pages={36--40},\n  year={2017},\n  organization={Springer, Cham}\n}\n\n
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\n \n\n \n \n \n \n \n Using DIVAN to assess disease/trait-associated single nucleotide variants in genome-wide scale.\n \n \n \n\n\n \n Chen, L.; and Qin, Z. S\n\n\n \n\n\n\n BMC research notes, 10(1): 530. 2017.\n \n\n\n\n
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@article{chen2017using,\n  title={Using DIVAN to assess disease/trait-associated single nucleotide variants in genome-wide scale},\n  author={Chen, Li and Qin, Zhaohui S},\n  journal={BMC research notes},\n  volume={10},\n  number={1},\n  pages={530},\n  year={2017},\n  publisher={BioMed Central}\n}\n\n
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\n \n\n \n \n \n \n \n CRISPR/Cas9-mediated gene editing ameliorates neurotoxicity in mouse model of Huntington's.\n \n \n \n\n\n \n Yang, S.; Chang, R.; Yang, H.; Zhao, T.; Hong, Y.; Kong, H. E.; Sun, X.; Qin, Z.; Jin, P.; and Li, S.\n\n\n \n\n\n\n . 2017.\n \n\n\n\n
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@article{yang2017crispr,\n  title={CRISPR/Cas9-mediated gene editing ameliorates neurotoxicity in mouse model of Huntington's},\n  author={Yang, Su and Chang, Renbao and Yang, Huiming and Zhao, Ting and Hong, Yan and Kong, Ha Eun and Sun, Xiaobo and Qin, Zhaohui and Jin, Peng and Li, Shihua},\n  year={2017}\n}\n\n
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\n \n\n \n \n \n \n \n Special collection of bioinformatics in the era of precision medicine.\n \n \n \n\n\n \n Qin, Z. S\n\n\n \n\n\n\n 2017.\n \n\n\n\n
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@misc{qin2017special,\n  title={Special collection of bioinformatics in the era of precision medicine},\n  author={Qin, Zhaohui S},\n  year={2017},\n  publisher={Higher Education Press}\n}\n\n
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\n  \n 2016\n \n \n (12)\n \n \n
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\n \n\n \n \n \n \n \n The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data.\n \n \n \n\n\n \n Joseph, S. J; Li, B.; Petit III, R. A; Qin, Z. S; Darrow, L.; and Read, T. D\n\n\n \n\n\n\n PeerJ, 4: e2571. 2016.\n \n\n\n\n
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@article{joseph2016single,\n  title={The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data},\n  author={Joseph, Sandeep J and Li, Ben and Petit III, Robert A and Qin, Zhaohui S and Darrow, Lyndsey and Read, Timothy D},\n  journal={PeerJ},\n  volume={4},\n  pages={e2571},\n  year={2016},\n  publisher={PeerJ Inc.}\n}\n\n
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\n \n\n \n \n \n \n \n Gene integrated set profile analysis: a context-based approach for inferring biological endpoints.\n \n \n \n\n\n \n Kowalski, J.; Dwivedi, B.; Newman, S.; Switchenko, J. M; Pauly, R.; Gutman, D. A; Arora, J.; Gandhi, K.; Ainslie, K.; Doho, G.; and others\n\n\n \n\n\n\n Nucleic acids research, 44(7): e69–e69. 2016.\n \n\n\n\n
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@article{kowalski2016gene,\n  title={Gene integrated set profile analysis: a context-based approach for inferring biological endpoints},\n  author={Kowalski, Jeanne and Dwivedi, Bhakti and Newman, Scott and Switchenko, Jeffery M and Pauly, Rini and Gutman, David A and Arora, Jyoti and Gandhi, Khanjan and Ainslie, Kylie and Doho, Gregory and others},\n  journal={Nucleic acids research},\n  volume={44},\n  number={7},\n  pages={e69--e69},\n  year={2016},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n ChIPComp: A novel statistical method for quantitative comparison of multiple ChIP-seq datasets.\n \n \n \n\n\n \n Chen, L.; Wang, C.; Qin, Z.; and Wu, H.\n\n\n \n\n\n\n . 2016.\n \n\n\n\n
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@article{chen2016chipcomp,\n  title={ChIPComp: A novel statistical method for quantitative comparison of multiple ChIP-seq datasets},\n  author={Chen, Li and Wang, Chi and Qin, Zhaohui and Wu, Hao},\n  year={2016}\n}\n\n
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\n \n\n \n \n \n \n \n Statistical challenges in analyzing methylation and long-range chromosomal interaction data.\n \n \n \n\n\n \n Qin, Z.; Li, B.; Conneely, K. N; Wu, H.; Hu, M.; Ayyala, D.; Park, Y.; Jin, V. X; Zhang, F.; Zhang, H.; and others\n\n\n \n\n\n\n Statistics in biosciences, 8(2): 284–309. 2016.\n \n\n\n\n
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@article{qin2016statistical,\n  title={Statistical challenges in analyzing methylation and long-range chromosomal interaction data},\n  author={Qin, Zhaohui and Li, Ben and Conneely, Karen N and Wu, Hao and Hu, Ming and Ayyala, Deepak and Park, Yongseok and Jin, Victor X and Zhang, Fangyuan and Zhang, Han and others},\n  journal={Statistics in biosciences},\n  volume={8},\n  number={2},\n  pages={284--309},\n  year={2016},\n  publisher={Springer US}\n}\n\n
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\n \n\n \n \n \n \n \n Heat shock protein beta-1 modifies anterior to posterior Purkinje cell vulnerability in a mouse model of Niemann-pick type C disease.\n \n \n \n\n\n \n Chung, C.; Elrick, M. J; Dell’Orco, J. M; Qin, Z. S; Kalyana-Sundaram, S.; Chinnaiyan, A. M; Shakkottai, V. G; and Lieberman, A. P\n\n\n \n\n\n\n PLoS genetics, 12(5): e1006042. 2016.\n \n\n\n\n
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@article{chung2016heat,\n  title={Heat shock protein beta-1 modifies anterior to posterior Purkinje cell vulnerability in a mouse model of Niemann-pick type C disease},\n  author={Chung, Chan and Elrick, Matthew J and Dell’Orco, James M and Qin, Zhaohui S and Kalyana-Sundaram, Shanker and Chinnaiyan, Arul M and Shakkottai, Vikram G and Lieberman, Andrew P},\n  journal={PLoS genetics},\n  volume={12},\n  number={5},\n  pages={e1006042},\n  year={2016},\n  publisher={Public Library of Science}\n}\n\n
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\n \n\n \n \n \n \n \n Molecular signatures associated with ZIKV exposure in human cortical neural progenitors.\n \n \n \n\n\n \n Zhang, F.; Hammack, C.; Ogden, S. C; Cheng, Y.; Lee, E. M; Wen, Z.; Qian, X.; Nguyen, H. N.; Li, Y.; Yao, B.; and others\n\n\n \n\n\n\n Nucleic acids research, 44(18): 8610–8620. 2016.\n \n\n\n\n
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@article{zhang2016molecular,\n  title={Molecular signatures associated with ZIKV exposure in human cortical neural progenitors},\n  author={Zhang, Feiran and Hammack, Christy and Ogden, Sarah C and Cheng, Yichen and Lee, Emily M and Wen, Zhexing and Qian, Xuyu and Nguyen, Ha Nam and Li, Yujing and Yao, Bing and others},\n  journal={Nucleic acids research},\n  volume={44},\n  number={18},\n  pages={8610--8620},\n  year={2016},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Prolonged effects of chronic adolescent stress on the hippocampal transcriptome are sex-specific.\n \n \n \n\n\n \n Rowson, S. A; Bekhbat, M.; Kelly, S. D; Qin, Z.; Somineni, H.; and Neigh, G. N\n\n\n \n\n\n\n Psychoneuroendocrinology, (71): 48. 2016.\n \n\n\n\n
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@article{rowson2016prolonged,\n  title={Prolonged effects of chronic adolescent stress on the hippocampal transcriptome are sex-specific},\n  author={Rowson, Sydney A and Bekhbat, Mandakh and Kelly, Sean D and Qin, Zhaohui and Somineni, Hari and Neigh, Gretchen N},\n  journal={Psychoneuroendocrinology},\n  number={71},\n  pages={48},\n  year={2016}\n}\n\n
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\n \n\n \n \n \n \n \n A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome.\n \n \n \n\n\n \n Mathias, R. A.; Taub, M. A; Gignoux, C. R; Fu, W.; Musharoff, S.; O'Connor, T. D; Vergara, C.; Torgerson, D. G; Pino-Yanes, M.; Shringarpure, S. S; and others\n\n\n \n\n\n\n Nature communications, 7: 12522. 2016.\n \n\n\n\n
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@article{mathias2016continuum,\n  title={A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome},\n  author={Mathias, Rasika Ann and Taub, Margaret A and Gignoux, Christopher R and Fu, Wenqing and Musharoff, Shaila and O'Connor, Timothy D and Vergara, Candelaria and Torgerson, Dara G and Pino-Yanes, Maria and Shringarpure, Suyash S and others},\n  journal={Nature communications},\n  volume={7},\n  pages={12522},\n  year={2016},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n EGO: A Biomedical Ontology for Integrative Epigenome Representation and Analysis.\n \n \n \n\n\n \n He, Y.; Qin, Z. S; and Zheng, J.\n\n\n \n\n\n\n In ICBO/BioCreative, 2016. \n \n\n\n\n
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@inproceedings{he2016ego,\n  title={EGO: A Biomedical Ontology for Integrative Epigenome Representation and Analysis.},\n  author={He, Yongqun and Qin, Zhaohui S and Zheng, Jie},\n  booktitle={ICBO/BioCreative},\n  year={2016}\n}\n\n
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\n \n\n \n \n \n \n \n DIVAN: accurate identification of non-coding disease-specific risk variants using multi-omics profiles.\n \n \n \n\n\n \n Chen, L.; Jin, P.; and Qin, Z. S\n\n\n \n\n\n\n Genome biology, 17(1): 252. 2016.\n \n\n\n\n
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@article{chen2016divan,\n  title={DIVAN: accurate identification of non-coding disease-specific risk variants using multi-omics profiles},\n  author={Chen, Li and Jin, Peng and Qin, Zhaohui S},\n  journal={Genome biology},\n  volume={17},\n  number={1},\n  pages={252},\n  year={2016},\n  publisher={BioMed Central}\n}\n\n
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\n \n\n \n \n \n \n \n Challenges and disparities in the application of personalized genomic medicine to populations with African ancestry.\n \n \n \n\n\n \n Kessler, M. D; Yerges-Armstrong, L.; Taub, M. A; Shetty, A. C; Maloney, K.; Jeng, L. J. B.; Ruczinski, I.; Levin, A. M; Williams, L K.; Beaty, T. H; and others\n\n\n \n\n\n\n Nature communications, 7: 12521. 2016.\n \n\n\n\n
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@article{kessler2016challenges,\n  title={Challenges and disparities in the application of personalized genomic medicine to populations with African ancestry},\n  author={Kessler, Michael D and Yerges-Armstrong, Laura and Taub, Margaret A and Shetty, Amol C and Maloney, Kristin and Jeng, Linda Jo Bone and Ruczinski, Ingo and Levin, Albert M and Williams, L Keoki and Beaty, Terri H and others},\n  journal={Nature communications},\n  volume={7},\n  pages={12521},\n  year={2016},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n Sex Differences in the Adult Rat Transcriptome Following Chronic Adolescent Stress.\n \n \n \n\n\n \n Rowson, S. A; Bekhbat, M.; Kelly, S. D; Qin, Z.; and Neigh, G. N\n\n\n \n\n\n\n In BIOLOGICAL PSYCHIATRY, volume 79, pages 411S–411S, 2016. ELSEVIER SCIENCE INC 360 PARK AVE SOUTH, NEW YORK, NY 10010-1710 USA\n \n\n\n\n
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@inproceedings{rowson2016sex,\n  title={Sex Differences in the Adult Rat Transcriptome Following Chronic Adolescent Stress},\n  author={Rowson, Sydney A and Bekhbat, Mandakh and Kelly, Sean D and Qin, Zhaohui and Neigh, Gretchen N},\n  booktitle={BIOLOGICAL PSYCHIATRY},\n  volume={79},\n  number={9},\n  pages={411S--411S},\n  year={2016},\n  organization={ELSEVIER SCIENCE INC 360 PARK AVE SOUTH, NEW YORK, NY 10010-1710 USA}\n}\n\n
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\n  \n 2015\n \n \n (18)\n \n \n
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\n \n\n \n \n \n \n \n A novel statistical method for quantitative comparison of multiple ChIP-seq datasets.\n \n \n \n\n\n \n Chen, L.; Wang, C.; Qin, Z. S; and Wu, H.\n\n\n \n\n\n\n Bioinformatics, 31(12): 1889–1896. 2015.\n \n\n\n\n
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@article{chen2015novel,\n  title={A novel statistical method for quantitative comparison of multiple ChIP-seq datasets},\n  author={Chen, Li and Wang, Chi and Qin, Zhaohui S and Wu, Hao},\n  journal={Bioinformatics},\n  volume={31},\n  number={12},\n  pages={1889--1896},\n  year={2015},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Base-resolution methylation patterns accurately predict transcription factor bindings in vivo.\n \n \n \n\n\n \n Xu, T.; Li, B.; Zhao, M.; Szulwach, K. E; Street, R C.; Lin, L.; Yao, B.; Zhang, F.; Jin, P.; Wu, H.; and others\n\n\n \n\n\n\n Nucleic acids research, 43(5): 2757–2766. 2015.\n \n\n\n\n
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@article{xu2015base,\n  title={Base-resolution methylation patterns accurately predict transcription factor bindings in vivo},\n  author={Xu, Tianlei and Li, Ben and Zhao, Meng and Szulwach, Keith E and Street, R Craig and Lin, Li and Yao, Bing and Zhang, Feiran and Jin, Peng and Wu, Hao and others},\n  journal={Nucleic acids research},\n  volume={43},\n  number={5},\n  pages={2757--2766},\n  year={2015},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n PDEGEM: Modeling non-uniform read distribution in RNA-Seq data.\n \n \n \n\n\n \n Xia, Y.; Wang, F.; Qian, M.; Qin, Z.; and Deng, M.\n\n\n \n\n\n\n BMC medical genomics, 8(2): S14. 2015.\n \n\n\n\n
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@article{xia2015pdegem,\n  title={PDEGEM: Modeling non-uniform read distribution in RNA-Seq data},\n  author={Xia, Yuchao and Wang, Fugui and Qian, Minping and Qin, Zhaohui and Deng, Minghua},\n  journal={BMC medical genomics},\n  volume={8},\n  number={2},\n  pages={S14},\n  year={2015},\n  publisher={BioMed Central}\n}\n\n
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\n \n\n \n \n \n \n \n Widespread rearrangement of 3D chromatin organization underlies polycomb-mediated stress-induced silencing.\n \n \n \n\n\n \n Li, L.; Lyu, X.; Hou, C.; Takenaka, N.; Nguyen, H. Q; Ong, C.; Cubeñas-Potts, C.; Hu, M.; Lei, E. P; Bosco, G.; and others\n\n\n \n\n\n\n Molecular cell, 58(2): 216–231. 2015.\n \n\n\n\n
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@article{li2015widespread,\n  title={Widespread rearrangement of 3D chromatin organization underlies polycomb-mediated stress-induced silencing},\n  author={Li, Li and Lyu, Xiaowen and Hou, Chunhui and Takenaka, Naomi and Nguyen, Huy Q and Ong, Chin-Tong and Cube{\\~n}as-Potts, Caelin and Hu, Ming and Lei, Elissa P and Bosco, Giovanni and others},\n  journal={Molecular cell},\n  volume={58},\n  number={2},\n  pages={216--231},\n  year={2015},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n Detection of differentially methylated regions from whole-genome bisulfite sequencing data without replicates.\n \n \n \n\n\n \n Wu, H.; Xu, T.; Feng, H.; Chen, L.; Li, B.; Yao, B.; Qin, Z.; Jin, P.; and Conneely, K. N\n\n\n \n\n\n\n Nucleic acids research, 43(21): e141–e141. 2015.\n \n\n\n\n
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@article{wu2015detection,\n  title={Detection of differentially methylated regions from whole-genome bisulfite sequencing data without replicates},\n  author={Wu, Hao and Xu, Tianlei and Feng, Hao and Chen, Li and Li, Ben and Yao, Bing and Qin, Zhaohui and Jin, Peng and Conneely, Karen N},\n  journal={Nucleic acids research},\n  volume={43},\n  number={21},\n  pages={e141--e141},\n  year={2015},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Cell-cycle control of bivalent epigenetic domains regulates the exit from pluripotency.\n \n \n \n\n\n \n Singh, A. M; Sun, Y.; Li, L.; Zhang, W.; Wu, T.; Zhao, S.; Qin, Z.; and Dalton, S.\n\n\n \n\n\n\n Stem cell reports, 5(3): 323–336. 2015.\n \n\n\n\n
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@article{singh2015cell,\n  title={Cell-cycle control of bivalent epigenetic domains regulates the exit from pluripotency},\n  author={Singh, Amar M and Sun, Yuhua and Li, Li and Zhang, Wenjuan and Wu, Tianming and Zhao, Shaying and Qin, Zhaohui and Dalton, Stephen},\n  journal={Stem cell reports},\n  volume={5},\n  number={3},\n  pages={323--336},\n  year={2015},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n One Size Doesn't Fit All-RefEditor: Building Personalized Diploid Reference Genome to Improve Read Mapping and Genotype Calling in Next Generation Sequencing Studies.\n \n \n \n\n\n \n Yuan, S.; Johnston, H R.; Zhang, G.; Li, Y.; Hu, Y.; and Qin, Z. S\n\n\n \n\n\n\n PLoS computational biology, 11(8): e1004448. 2015.\n \n\n\n\n
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@article{yuan2015one,\n  title={One Size Doesn't Fit All-RefEditor: Building Personalized Diploid Reference Genome to Improve Read Mapping and Genotype Calling in Next Generation Sequencing Studies},\n  author={Yuan, Shuai and Johnston, H Richard and Zhang, Guosheng and Li, Yun and Hu, Yi-Juan and Qin, Zhaohui S},\n  journal={PLoS computational biology},\n  volume={11},\n  number={8},\n  pages={e1004448},\n  year={2015},\n  publisher={Public Library of Science}\n}\n\n
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\n \n\n \n \n \n \n \n The Value Of Whole Genome Sequencing In Identifying Genetic Determinants Of Asthma In Populations Of African Ancestry.\n \n \n \n\n\n \n Mathias, R. A; Johnston, H. R; Torgerson, D.; Levin, A. M; Lange, L. A; Ortega, V. E; Hu, Y.; Caraballo, L.; Foreman, M. G; Hartert, T.; and others\n\n\n \n\n\n\n In A21. GENETIC REGULATION OF CHRONIC AIRWAY INFLAMMATION, pages A1063–A1063. American Thoracic Society, 2015.\n \n\n\n\n
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@incollection{mathias2015value,\n  title={The Value Of Whole Genome Sequencing In Identifying Genetic Determinants Of Asthma In Populations Of African Ancestry},\n  author={Mathias, Rasika A and Johnston, Henry R and Torgerson, Dara and Levin, Albert M and Lange, Leslie A and Ortega, Victor E and Hu, Yijuan and Caraballo, Luis and Foreman, Marilyn G and Hartert, Tina and others},\n  booktitle={A21. GENETIC REGULATION OF CHRONIC AIRWAY INFLAMMATION},\n  pages={A1063--A1063},\n  year={2015},\n  publisher={American Thoracic Society}\n}\n\n
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\n \n\n \n \n \n \n \n Bayesian inference with historical data-based informative priors improves detection of differentially expressed genes.\n \n \n \n\n\n \n Li, B.; Sun, Z.; He, Q.; Zhu, Y.; and Qin, Z. S\n\n\n \n\n\n\n Bioinformatics, 32(5): 682–689. 2015.\n \n\n\n\n
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@article{li2015bayesian,\n  title={Bayesian inference with historical data-based informative priors improves detection of differentially expressed genes},\n  author={Li, Ben and Sun, Zhaonan and He, Qing and Zhu, Yu and Qin, Zhaohui S},\n  journal={Bioinformatics},\n  volume={32},\n  number={5},\n  pages={682--689},\n  year={2015},\n  publisher={Oxford University Press}\n}\n\n
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@article{xu2015hidden,\n  title={A hidden Markov random field-based Bayesian method for the detection of long-range chromosomal interactions in Hi-C data},\n  author={Xu, Zheng and Zhang, Guosheng and Jin, Fulai and Chen, Mengjie and Furey, Terrence S and Sullivan, Patrick F and Qin, Zhaohui and Hu, Ming and Li, Yun},\n  journal={Bioinformatics},\n  volume={32},\n  number={5},\n  pages={650--656},\n  year={2015},\n  publisher={Oxford University Press}\n}\n\n
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@article{zhao2015combined,\n  title={Combined loss of Tet1 and Tet2 promotes B cell, but not myeloid malignancies, in mice},\n  author={Zhao, Zhigang and Chen, Li and Dawlaty, Meelad M and Pan, Feng and Weeks, Ophelia and Zhou, Yuan and Cao, Zeng and Shi, Hui and Wang, Jiapeng and Lin, Li and others},\n  journal={Cell reports},\n  volume={13},\n  number={8},\n  pages={1692--1704},\n  year={2015},\n  publisher={Cell Press}\n}\n\n
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@inproceedings{gignoux2015multi,\n  title={A Multi-Ethnic Genotyping Array for the Next Generation of Association Studies},\n  author={Gignoux, Christopher R and Wojcik, Genevieve L and Johnston, H Rich and Fuchsberger, Christian and Shringarpure, Suyash and Martin, Alicia R and Rosse, Stephanie and Zubair, Niha and Taliun, Daniel and Welch, Ryan and others},\n  booktitle={GENETIC EPIDEMIOLOGY},\n  volume={39},\n  number={7},\n  pages={551--552},\n  year={2015},\n  organization={WILEY-BLACKWELL 111 RIVER ST, HOBOKEN 07030-5774, NJ USA}\n}\n\n
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\n \n\n \n \n \n \n \n Enabling improved low frequency variant imputation in multi-ethnic studies.\n \n \n \n\n\n \n Wojcik, G. L; Gignoux, C. R; Fuchsberger, C.; Taliun, D.; Welch, R.; Martin, A. R; Johnston, H. R; Shringarpure, S.; Pethiyagoda, C.; O'Connell, J.; and others\n\n\n \n\n\n\n In GENETIC EPIDEMIOLOGY, volume 39, pages 593–593, 2015. WILEY-BLACKWELL 111 RIVER ST, HOBOKEN 07030-5774, NJ USA\n \n\n\n\n
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@inproceedings{wojcik2015enabling,\n  title={Enabling improved low frequency variant imputation in multi-ethnic studies},\n  author={Wojcik, Genevieve L and Gignoux, Christopher R and Fuchsberger, Christian and Taliun, Daniel and Welch, Ryan and Martin, Alicia R and Johnston, Henry R and Shringarpure, Suyash and Pethiyagoda, Charit and O'Connell, Jared and others},\n  booktitle={GENETIC EPIDEMIOLOGY},\n  volume={39},\n  number={7},\n  pages={593--593},\n  year={2015},\n  organization={WILEY-BLACKWELL 111 RIVER ST, HOBOKEN 07030-5774, NJ USA}\n}\n\n
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@article{chen2015traser,\n  title={traseR: an R package for performing trait-associated SNP enrichment analysis in genomic intervals},\n  author={Chen, Li and Qin, Zhaohui S},\n  journal={Bioinformatics},\n  volume={32},\n  number={8},\n  pages={1214--1216},\n  year={2015},\n  publisher={Oxford University Press}\n}\n\n
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@article{sun2015647,\n  title={647 Genome-Wide Binding Studies of Acetyl-STAT3 Demonstrates a Novel Regulatory Pathway in Dendritic Cells},\n  author={Sun, Yaping},\n  year={2015}\n}\n\n
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@article{cui2015comprehensive,\n  title={Comprehensive characterization of the genomic alterations in human gastric cancer},\n  author={Cui, Juan and Yin, Yanbin and Ma, Qin and Wang, Guoqing and Olman, Victor and Zhang, Yu and Chou, Wen-Chi and Hong, Celine S and Zhang, Chi and Cao, Sha and others},\n  journal={International journal of cancer},\n  volume={137},\n  number={1},\n  pages={86--95},\n  year={2015},\n  publisher={Wiley Online Library}\n}\n\n
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@article{li2015preclinical,\n  title={A preclinical evaluation of SKLB261},\n  author={Li, L and Lyu, X and Hou, C and Takenaka, N and Nguyen, HQ and Ong, C-T and Cubenas-Potts, C and Hu, M and Lei, EP and Bosco, G and others},\n  journal={Molecular Cancer Therapeutics},\n  volume={14},\n  number={2},\n  pages={407--418},\n  year={2015}\n}\n\n
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\n \n\n \n \n \n \n \n A21 GENETIC REGULATION OF CHRONIC AIRWAY INFLAMMATION: The Value Of Whole Genome Sequencing In Identifying Genetic Determinants Of Asthma In Populations Of African Ancestry.\n \n \n \n\n\n \n Mathias, R.; Johnston, H.; Torgerson, D; Levin, A.; Lange, L.; Ortega, V.; Hu, Y; Caraballo, L; Foreman, M.; Hartert, T; and others\n\n\n \n\n\n\n American Journal of Respiratory and Critical Care Medicine, 191: 1. 2015.\n \n\n\n\n
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@article{mathias2015a21,\n  title={A21 GENETIC REGULATION OF CHRONIC AIRWAY INFLAMMATION: The Value Of Whole Genome Sequencing In Identifying Genetic Determinants Of Asthma In Populations Of African Ancestry},\n  author={Mathias, RA and Johnston, HR and Torgerson, D and Levin, AM and Lange, LA and Ortega, VE and Hu, Y and Caraballo, L and Foreman, MG and Hartert, T and others},\n  journal={American Journal of Respiratory and Critical Care Medicine},\n  volume={191},\n  pages={1},\n  year={2015},\n  publisher={American Thoracic Society}\n}\n\n
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@article{cao2014targeting,\n  title={Targeting MLL1 H3K4 methyltransferase activity in mixed-lineage leukemia},\n  author={Cao, Fang and Townsend, Elizabeth C and Karatas, Hacer and Xu, Jing and Li, Li and Lee, Shirley and Liu, Liu and Chen, Yong and Ouillette, Peter and Zhu, Jidong and others},\n  journal={Molecular cell},\n  volume={53},\n  number={2},\n  pages={247--261},\n  year={2014},\n  publisher={Cell Press}\n}\n\n
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@article{cao2014central,\n  title={The central role of EED in the orchestration of polycomb group complexes},\n  author={Cao, Qi and Wang, Xiaoju and Zhao, Meng and Yang, Rendong and Malik, Rohit and Qiao, Yuanyuan and Poliakov, Anton and Yocum, Anastasia K and Li, Yong and Chen, Wei and others},\n  journal={Nature communications},\n  volume={5},\n  pages={3127},\n  year={2014},\n  publisher={Nature Publishing Group}\n}\n\n
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@article{asangani2014therapeutic,\n  title={Therapeutic targeting of BET bromodomain proteins in castration-resistant prostate cancer},\n  author={Asangani, Irfan A and Dommeti, Vijaya L and Wang, Xiaoju and Malik, Rohit and Cieslik, Marcin and Yang, Rendong and Escara-Wilke, June and Wilder-Romans, Kari and Dhanireddy, Sudheer and Engelke, Carl and others},\n  journal={Nature},\n  volume={510},\n  number={7504},\n  pages={278},\n  year={2014},\n  publisher={Nature Publishing Group}\n}\n\n
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@article{yang2014egonet,\n  title={EgoNet: identification of human disease ego-network modules},\n  author={Yang, Rendong and Bai, Yun and Qin, Zhaohui and Yu, Tianwei},\n  journal={BMC genomics},\n  volume={15},\n  number={1},\n  pages={314},\n  year={2014},\n  publisher={BioMed Central}\n}\n\n
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@article{wu2014h2b,\n  title={H2B ubiquitylation promotes RNA Pol II processivity via PAF1 and pTEFb},\n  author={Wu, Lipeng and Li, Li and Zhou, Bo and Qin, Zhaohui and Dou, Yali},\n  journal={Molecular cell},\n  volume={54},\n  number={6},\n  pages={920--931},\n  year={2014},\n  publisher={Cell Press}\n}\n\n
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@article{joseph2014direct,\n  title={Direct amplification, sequencing and profiling of Chlamydia trachomatis strains in single and mixed infection clinical samples},\n  author={Joseph, Sandeep J and Li, Ben and Ghonasgi, Tanvi and Haase, Chad P and Qin, Zhaohui S and Dean, Deborah and Read, Timothy D},\n  journal={PloS one},\n  volume={9},\n  number={6},\n  pages={e99290},\n  year={2014},\n  publisher={Public Library of Science}\n}\n\n
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@article{van2014insulator,\n  title={Insulator function and topological domain border strength scale with architectural protein occupancy},\n  author={Van Bortle, Kevin and Nichols, Michael H and Li, Li and Ong, Chin-Tong and Takenaka, Naomi and Qin, Zhaohui S and Corces, Victor G},\n  journal={Genome biology},\n  volume={15},\n  number={5},\n  pages={R82},\n  year={2014},\n  publisher={BioMed Central}\n}\n\n
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@article{lin2014reciprocal,\n  title={Reciprocal occupancy of BCL6 and STAT5 on Growth Hormone target genes: contrasting transcriptional outcomes and promoter-specific roles of p300 and HDAC3},\n  author={Lin, Grace and LaPensee, Christopher R and Qin, Zhaohui S and Schwartz, Jessica},\n  journal={Molecular and cellular endocrinology},\n  volume={395},\n  number={1-2},\n  pages={19--31},\n  year={2014},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Integrated analysis of whole-genome paired-end and mate-pair sequencing data for identifying genomic structural variations in multiple myeloma.\n \n \n \n\n\n \n Yang, R.; Chen, L.; Newman, S.; Gandhi, K.; Doho, G.; Moreno, C. S; Vertino, P. M; Bernal-Mizarchi, L.; Lonial, S.; Boise, L. H; and others\n\n\n \n\n\n\n Cancer informatics, 13: CIN–S13783. 2014.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{yang2014integrated,\n  title={Integrated analysis of whole-genome paired-end and mate-pair sequencing data for identifying genomic structural variations in multiple myeloma},\n  author={Yang, Rendong and Chen, Li and Newman, Scott and Gandhi, Khanjan and Doho, Gregory and Moreno, Carlos S and Vertino, Paula M and Bernal-Mizarchi, Leon and Lonial, Sagar and Boise, Lawrence H and others},\n  journal={Cancer informatics},\n  volume={13},\n  pages={CIN--S13783},\n  year={2014},\n  publisher={SAGE Publications Sage UK: London, England}\n}\n\n
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\n \n\n \n \n \n \n \n Systems biology and metagenomics: a showcase of Chinese bioinformatics researchers and their work.\n \n \n \n\n\n \n Zhu, D.; and Qin, Z. S\n\n\n \n\n\n\n 2014.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@misc{zhu2014systems,\n  title={Systems biology and metagenomics: a showcase of Chinese bioinformatics researchers and their work},\n  author={Zhu, DongXiao and Qin, Zhaohui S},\n  year={2014},\n  publisher={Science China Press}\n}\n\n
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\n \n\n \n \n \n \n \n Cell-cycle control of developmentally regulated transcription factors accounts for heterogeneity in human pluripotent cells.\n \n \n \n\n\n \n Singh, A. M; Chappell, J.; Trost, R.; Lin, L.; Wang, T.; Tang, J.; Matlock, B. K; Weller, K. P; Wu, H.; Zhao, S.; and others\n\n\n \n\n\n\n Stem cell reports, 2(3): 398. 2014.\n \n\n\n\n
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@article{singh2014cell,\n  title={Cell-cycle control of developmentally regulated transcription factors accounts for heterogeneity in human pluripotent cells},\n  author={Singh, Amar M and Chappell, James and Trost, Robert and Lin, Li and Wang, Tao and Tang, Jie and Matlock, Brittany K and Weller, Kevin P and Wu, Hao and Zhao, Shaying and others},\n  journal={Stem cell reports},\n  volume={2},\n  number={3},\n  pages={398},\n  year={2014},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Abstract LB-132: The central role of EED in orchestration of polycomb group complexes.\n \n \n \n\n\n \n Cao, Q.; Wang, X.; Zhao, M.; Yang, R.; Malik, R.; Qiao, Y.; Poliakov, A.; Cao, X.; Harris, C.; Feng, F. Y; and others\n\n\n \n\n\n\n 2014.\n \n\n\n\n
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@misc{cao2014abstract,\n  title={Abstract LB-132: The central role of EED in orchestration of polycomb group complexes},\n  author={Cao, Qi and Wang, Xiaoju and Zhao, Meng and Yang, Rendong and Malik, Rohit and Qiao, Yuanyuan and Poliakov, Anton and Cao, Xuhong and Harris, Clair and Feng, Felix Y and others},\n  year={2014},\n  publisher={American Association for Cancer Research}\n}\n\n
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\n  \n 2013\n \n \n (13)\n \n \n
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\n \n\n \n \n \n \n \n PM-Seq: Using finite Poisson mixture models for RNA-seq data analysis and transcript expression level quantification.\n \n \n \n\n\n \n Wu, H.; Qin, Z.; and Zhu, Y.\n\n\n \n\n\n\n Statistics in Biosciences, 5(1): 71–87. 2013.\n \n\n\n\n
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@article{wu2013pm,\n  title={PM-Seq: Using finite Poisson mixture models for RNA-seq data analysis and transcript expression level quantification},\n  author={Wu, Han and Qin, Zhaohui and Zhu, Yu},\n  journal={Statistics in Biosciences},\n  volume={5},\n  number={1},\n  pages={71--87},\n  year={2013},\n  publisher={Springer-Verlag}\n}\n\n
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\n \n\n \n \n \n \n \n Bayesian inference of spatial organizations of chromosomes.\n \n \n \n\n\n \n Hu, M.; Deng, K.; Qin, Z.; Dixon, J.; Selvaraj, S.; Fang, J.; Ren, B.; and Liu, J. S\n\n\n \n\n\n\n PLoS computational biology, 9(1): e1002893. 2013.\n \n\n\n\n
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@article{hu2013bayesian,\n  title={Bayesian inference of spatial organizations of chromosomes},\n  author={Hu, Ming and Deng, Ke and Qin, Zhaohui and Dixon, Jesse and Selvaraj, Siddarth and Fang, Jennifer and Ren, Bing and Liu, Jun S},\n  journal={PLoS computational biology},\n  volume={9},\n  number={1},\n  pages={e1002893},\n  year={2013},\n  publisher={Public Library of Science}\n}\n\n
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\n \n\n \n \n \n \n \n Characterization of the EZH2-MMSET histone methyltransferase regulatory axis in cancer.\n \n \n \n\n\n \n Asangani, I. A; Ateeq, B.; Cao, Q.; Dodson, L.; Pandhi, M.; Kunju, L. P; Mehra, R.; Lonigro, R. J; Siddiqui, J.; Palanisamy, N.; and others\n\n\n \n\n\n\n Molecular cell, 49(1): 80–93. 2013.\n \n\n\n\n
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@article{asangani2013characterization,\n  title={Characterization of the EZH2-MMSET histone methyltransferase regulatory axis in cancer},\n  author={Asangani, Irfan A and Ateeq, Bushra and Cao, Qi and Dodson, Lois and Pandhi, Mithil and Kunju, Lakshmi P and Mehra, Rohit and Lonigro, Robert J and Siddiqui, Javed and Palanisamy, Nallasivam and others},\n  journal={Molecular cell},\n  volume={49},\n  number={1},\n  pages={80--93},\n  year={2013},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n MotifOrganizer: a scalable model-based motif clustering tool for mammalian genomes.\n \n \n \n\n\n \n Qin, Z. S; Bilenky, M.; Su, G.; and Jones, S.\n\n\n \n\n\n\n Front Biosci, 5: 785–797. 2013.\n \n\n\n\n
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@article{qin2013motiforganizer,\n  title={MotifOrganizer: a scalable model-based motif clustering tool for mammalian genomes},\n  author={Qin, Zhaohui S and Bilenky, Misha and Su, Gang and Jones, SJ},\n  journal={Front Biosci},\n  volume={5},\n  pages={785--797},\n  year={2013}\n}\n\n
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\n \n\n \n \n \n \n \n Sparsely correlated hidden Markov models with application to genome-wide location studies.\n \n \n \n\n\n \n Choi, H.; Fermin, D.; Nesvizhskii, A. I; Ghosh, D.; and Qin, Z. S\n\n\n \n\n\n\n Bioinformatics, 29(5): 533–541. 2013.\n \n\n\n\n
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@article{choi2013sparsely,\n  title={Sparsely correlated hidden Markov models with application to genome-wide location studies},\n  author={Choi, Hyungwon and Fermin, Damian and Nesvizhskii, Alexey I and Ghosh, Debashis and Qin, Zhaohui S},\n  journal={Bioinformatics},\n  volume={29},\n  number={5},\n  pages={533--541},\n  year={2013},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Exploring the cooccurrence patterns of multiple sets of genomic intervals.\n \n \n \n\n\n \n Wu, H.; and Qin, Z. S\n\n\n \n\n\n\n BioMed research international, 2013. 2013.\n \n\n\n\n
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@article{wu2013exploring,\n  title={Exploring the cooccurrence patterns of multiple sets of genomic intervals},\n  author={Wu, Hao and Qin, Zhaohui S},\n  journal={BioMed research international},\n  volume={2013},\n  year={2013},\n  publisher={Hindawi}\n}\n\n
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\n \n\n \n \n \n \n \n Model-Based Methods for Transcript Expression-Level Quantification in RNA-Seq.\n \n \n \n\n\n \n Sun, Z.; Wu, H.; Qin, Z.; and Zhu, Y.\n\n\n \n\n\n\n Advances in Statistical Bioinformatics: Models and Integrative Inference for High-Throughput Data,105. 2013.\n \n\n\n\n
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@article{sun2013model,\n  title={Model-Based Methods for Transcript Expression-Level Quantification in RNA-Seq},\n  author={Sun, Zhaonan and Wu, Han and Qin, Zhaohui and Zhu, Yu},\n  journal={Advances in Statistical Bioinformatics: Models and Integrative Inference for High-Throughput Data},\n  pages={105},\n  year={2013},\n  publisher={Cambridge University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Advances in Statistical Bioinformatics: Models and Integrative Inference for High-Throughput Data.\n \n \n \n\n\n \n Do, K.; Qin, Z. S.; and Vannucci, M.\n\n\n \n\n\n\n 2013.\n \n\n\n\n
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@misc{do2013advances,\n  title={Advances in Statistical Bioinformatics: Models and Integrative Inference for High-Throughput Data},\n  author={Do, Kim-Anh and Qin, Zhaohui Steve and Vannucci, Marina},\n  year={2013},\n  publisher={Cambridge University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Understanding spatial organizations of chromosomes via statistical analysis of Hi-C data.\n \n \n \n\n\n \n Hu, M.; Deng, K.; Qin, Z.; and Liu, J. S\n\n\n \n\n\n\n Quantitative Biology, 1(2): 156–174. 2013.\n \n\n\n\n
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@article{hu2013understanding,\n  title={Understanding spatial organizations of chromosomes via statistical analysis of Hi-C data},\n  author={Hu, Ming and Deng, Ke and Qin, Zhaohui and Liu, Jun S},\n  journal={Quantitative Biology},\n  volume={1},\n  number={2},\n  pages={156--174},\n  year={2013},\n  publisher={Springer Berlin Heidelberg}\n}\n\n
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\n \n\n \n \n \n \n \n Impaired replication elongation in Tetrahymena mutants deficient in histone H3 Lys 27 monomethylation.\n \n \n \n\n\n \n Gao, S.; Xiong, J.; Zhang, C.; Berquist, B. R; Yang, R.; Zhao, M.; Molascon, A. J; Kwiatkowski, S. Y; Yuan, D.; Qin, Z.; and others\n\n\n \n\n\n\n Genes & development, 27(15): 1662–1679. 2013.\n \n\n\n\n
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@article{gao2013impaired,\n  title={Impaired replication elongation in Tetrahymena mutants deficient in histone H3 Lys 27 monomethylation},\n  author={Gao, Shan and Xiong, Jie and Zhang, Chunchao and Berquist, Brian R and Yang, Rendong and Zhao, Meng and Molascon, Anthony J and Kwiatkowski, Shaina Y and Yuan, Dongxia and Qin, Zhaohui and others},\n  journal={Genes \\& development},\n  volume={27},\n  number={15},\n  pages={1662--1679},\n  year={2013},\n  publisher={Cold Spring Harbor Lab}\n}\n\n
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\n \n\n \n \n \n \n \n A genome-wide MeSH-based literature mining system predicts implicit gene-to-gene relationships and networks.\n \n \n \n\n\n \n Xiang, Z.; Qin, T.; Qin, Z. S; and He, Y.\n\n\n \n\n\n\n BMC systems biology, 7(3): S9. 2013.\n \n\n\n\n
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@article{xiang2013genome,\n  title={A genome-wide MeSH-based literature mining system predicts implicit gene-to-gene relationships and networks},\n  author={Xiang, Zuoshuang and Qin, Tingting and Qin, Zhaohui S and He, Yongqun},\n  journal={BMC systems biology},\n  volume={7},\n  number={3},\n  pages={S9},\n  year={2013},\n  publisher={BioMed Central}\n}\n\n
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\n \n\n \n \n \n \n \n Allogeneic T cell responses are regulated by a specific miRNA-mRNA network.\n \n \n \n\n\n \n Sun, Y.; Tawara, I.; Zhao, M.; Qin, Z. S; Toubai, T.; Mathewson, N.; Tamaki, H.; Nieves, E.; Chinnaiyan, A. M; and Reddy, P.\n\n\n \n\n\n\n The Journal of clinical investigation, 123(11): 4739–4754. 2013.\n \n\n\n\n
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@article{sun2013allogeneic,\n  title={Allogeneic T cell responses are regulated by a specific miRNA-mRNA network},\n  author={Sun, Yaping and Tawara, Isao and Zhao, Meng and Qin, Zhaohui S and Toubai, Tomomi and Mathewson, Nathan and Tamaki, Hiroya and Nieves, Evelyn and Chinnaiyan, Arul M and Reddy, Pavan},\n  journal={The Journal of clinical investigation},\n  volume={123},\n  number={11},\n  pages={4739--4754},\n  year={2013},\n  publisher={American Society for Clinical Investigation}\n}\n\n
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\n \n\n \n \n \n \n \n chromosomes via statistical analysis of Hi-C data.\n \n \n \n\n\n \n Hu, M.; Deng, K.; Qin, Z.; and Liu, J. S\n\n\n \n\n\n\n . 2013.\n \n\n\n\n
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@article{hu2013chromosomes,\n  title={chromosomes via statistical analysis of Hi-C data},\n  author={Hu, Ming and Deng, Ke and Qin, Zhaohui and Liu, Jun S},\n  year={2013}\n}\n\n
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\n  \n 2012\n \n \n (7)\n \n \n
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\n \n\n \n \n \n \n \n Cooperation between Polycomb and androgen receptor during oncogenic transformation.\n \n \n \n\n\n \n Zhao, J. C; Yu, J.; Runkle, C.; Wu, L.; Hu, M.; Wu, D.; Liu, J. S; Wang, Q.; Qin, Z. S; and Yu, J.\n\n\n \n\n\n\n Genome research, 22(2): 322–331. 2012.\n \n\n\n\n
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@article{zhao2012cooperation,\n  title={Cooperation between Polycomb and androgen receptor during oncogenic transformation},\n  author={Zhao, Jonathan C and Yu, Jianjun and Runkle, Christine and Wu, Longtao and Hu, Ming and Wu, Dayong and Liu, Jun S and Wang, Qianben and Qin, Zhaohui S and Yu, Jindan},\n  journal={Genome research},\n  volume={22},\n  number={2},\n  pages={322--331},\n  year={2012},\n  publisher={Cold Spring Harbor Lab}\n}\n\n
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\n \n\n \n \n \n \n \n GPUmotif: an ultra-fast and energy-efficient motif analysis program using graphics processing units.\n \n \n \n\n\n \n Zandevakili, P.; Hu, M.; and Qin, Z.\n\n\n \n\n\n\n PloS one, 7(5): e36865. 2012.\n \n\n\n\n
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@article{zandevakili2012gpumotif,\n  title={GPUmotif: an ultra-fast and energy-efficient motif analysis program using graphics processing units},\n  author={Zandevakili, Pooya and Hu, Ming and Qin, Zhaohui},\n  journal={PloS one},\n  volume={7},\n  number={5},\n  pages={e36865},\n  year={2012},\n  publisher={Public Library of Science}\n}\n\n
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\n \n\n \n \n \n \n \n The histone acetyltransferase MOF is a key regulator of the embryonic stem cell core transcriptional network.\n \n \n \n\n\n \n Li, X.; Li, L.; Pandey, R.; Byun, J. S; Gardner, K.; Qin, Z.; and Dou, Y.\n\n\n \n\n\n\n Cell stem cell, 11(2): 163–178. 2012.\n \n\n\n\n
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@article{li2012histone,\n  title={The histone acetyltransferase MOF is a key regulator of the embryonic stem cell core transcriptional network},\n  author={Li, Xiangzhi and Li, Li and Pandey, Ruchi and Byun, Jung S and Gardner, Kevin and Qin, Zhaohui and Dou, Yali},\n  journal={Cell stem cell},\n  volume={11},\n  number={2},\n  pages={163--178},\n  year={2012},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n HiCNorm: removing biases in Hi-C data via Poisson regression.\n \n \n \n\n\n \n Hu, M.; Deng, K.; Selvaraj, S.; Qin, Z.; Ren, B.; and Liu, J. S\n\n\n \n\n\n\n Bioinformatics, 28(23): 3131–3133. 2012.\n \n\n\n\n
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@article{hu2012hicnorm,\n  title={HiCNorm: removing biases in Hi-C data via Poisson regression},\n  author={Hu, Ming and Deng, Ke and Selvaraj, Siddarth and Qin, Zhaohui and Ren, Bing and Liu, Jun S},\n  journal={Bioinformatics},\n  volume={28},\n  number={23},\n  pages={3131--3133},\n  year={2012},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Gene density, transcription, and insulators contribute to the partition of the Drosophila genome into physical domains.\n \n \n \n\n\n \n Hou, C.; Li, L.; Qin, Z. S; and Corces, V. G\n\n\n \n\n\n\n Molecular cell, 48(3): 471–484. 2012.\n \n\n\n\n
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@article{hou2012gene,\n  title={Gene density, transcription, and insulators contribute to the partition of the Drosophila genome into physical domains},\n  author={Hou, Chunhui and Li, Li and Qin, Zhaohui S and Corces, Victor G},\n  journal={Molecular cell},\n  volume={48},\n  number={3},\n  pages={471--484},\n  year={2012},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n Read-mapping using personalized diploid reference genome for RNA sequencing data reduced bias for detecting allele-specific expression.\n \n \n \n\n\n \n Yuan, S.; and Qin, Z.\n\n\n \n\n\n\n In 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, pages 718–724, 2012. IEEE\n \n\n\n\n
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@inproceedings{yuan2012read,\n  title={Read-mapping using personalized diploid reference genome for RNA sequencing data reduced bias for detecting allele-specific expression},\n  author={Yuan, Shuai and Qin, Zhaohui},\n  booktitle={2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops},\n  pages={718--724},\n  year={2012},\n  organization={IEEE}\n}\n\n
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\n \n\n \n \n \n \n \n Integrative, Multi-Platform, Whole-Genome Analyses Identify Clinically Relevant Common-and Cell-Specific Signatures in Multiple Myeloma.\n \n \n \n\n\n \n Kowalski, J.; Gandhi, K.; Switchenko, J.; Liu, Y.; Kim, S.; Doho, G.; Kim, S. J; Yang, R.; Chen, L.; Qin, Z.; and others\n\n\n \n\n\n\n 2012.\n \n\n\n\n
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@misc{kowalski2012integrative,\n  title={Integrative, Multi-Platform, Whole-Genome Analyses Identify Clinically Relevant Common-and Cell-Specific Signatures in Multiple Myeloma},\n  author={Kowalski, Jeanne and Gandhi, Khanjan and Switchenko, Jeffrey and Liu, Yuan and Kim, Sungjin and Doho, Gregory and Kim, Seung J and Yang, Rendong and Chen, Li and Qin, Zhaohui and others},\n  year={2012},\n  publisher={American Society of Hematology}\n}\n\n
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\n  \n 2011\n \n \n (7)\n \n \n
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\n \n\n \n \n \n \n \n SAINT: probabilistic scoring of affinity purification–mass spectrometry data.\n \n \n \n\n\n \n Choi, H.; Larsen, B.; Lin, Z.; Breitkreutz, A.; Mellacheruvu, D.; Fermin, D.; Qin, Z. S; Tyers, M.; Gingras, A.; and Nesvizhskii, A. I\n\n\n \n\n\n\n Nature methods, 8(1): 70. 2011.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{choi2011saint,\n  title={SAINT: probabilistic scoring of affinity purification--mass spectrometry data},\n  author={Choi, Hyungwon and Larsen, Brett and Lin, Zhen-Yuan and Breitkreutz, Ashton and Mellacheruvu, Dattatreya and Fermin, Damian and Qin, Zhaohui S and Tyers, Mike and Gingras, Anne-Claude and Nesvizhskii, Alexey I},\n  journal={Nature methods},\n  volume={8},\n  number={1},\n  pages={70},\n  year={2011},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n C/EBP$β$ mediates growth hormone-regulated expression of multiple target genes.\n \n \n \n\n\n \n Cui, T. X; Lin, G.; LaPensee, C. R; Calinescu, A.; Rathore, M.; Streeter, C.; Piwien-Pilipuk, G.; Lanning, N.; Jin, H.; Carter-Su, C.; and others\n\n\n \n\n\n\n Molecular Endocrinology, 25(4): 681–693. 2011.\n \n\n\n\n
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@article{cui2011c,\n  title={C/EBP$\\beta$ mediates growth hormone-regulated expression of multiple target genes},\n  author={Cui, Tracy X and Lin, Grace and LaPensee, Christopher R and Calinescu, Anda-Alexandra and Rathore, Maanjot and Streeter, Cale and Piwien-Pilipuk, Graciela and Lanning, Nathan and Jin, Hui and Carter-Su, Christin and others},\n  journal={Molecular Endocrinology},\n  volume={25},\n  number={4},\n  pages={681--693},\n  year={2011},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Deep sequencing reveals distinct patterns of DNA methylation in prostate cancer.\n \n \n \n\n\n \n Kim, J. H; Dhanasekaran, S. M; Prensner, J. R; Cao, X.; Robinson, D.; Kalyana-Sundaram, S.; Huang, C.; Shankar, S.; Jing, X.; Iyer, M.; and others\n\n\n \n\n\n\n Genome research, 21(7): 1028–1041. 2011.\n \n\n\n\n
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@article{kim2011deep,\n  title={Deep sequencing reveals distinct patterns of DNA methylation in prostate cancer},\n  author={Kim, Jung H and Dhanasekaran, Saravana M and Prensner, John R and Cao, Xuhong and Robinson, Daniel and Kalyana-Sundaram, Shanker and Huang, Christina and Shankar, Sunita and Jing, Xiaojun and Iyer, Matthew and others},\n  journal={Genome research},\n  volume={21},\n  number={7},\n  pages={1028--1041},\n  year={2011},\n  publisher={Cold Spring Harbor Lab}\n}\n\n
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\n \n\n \n \n \n \n \n Using Poisson mixed-effects model to quantify transcript-level gene expression in RNA-Seq.\n \n \n \n\n\n \n Hu, M.; Zhu, Y.; Taylor, J. M.; Liu, J. S; and Qin, Z.\n\n\n \n\n\n\n Bioinformatics. 2011.\n \n\n\n\n
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@article{hu2011using,\n  title={Using Poisson mixed-effects model to quantify transcript-level gene expression in RNA-Seq},\n  author={Hu, Ming and Zhu, Yu and Taylor, Jeremy MG and Liu, Jun S and Qin, Zhaohui},\n  journal={Bioinformatics},\n  year={2011},\n  publisher={Oxford Univ Press}\n}\n\n
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\n \n\n \n \n \n \n \n FOXP3 orchestrates H4K16 acetylation and H3K4 trimethylation for activation of multiple genes by recruiting MOF and causing displacement of PLU-1.\n \n \n \n\n\n \n Katoh, H.; Qin, Z. S; Liu, R.; Wang, L.; Li, W.; Li, X.; Wu, L.; Du, Z.; Lyons, R.; Liu, C.; and others\n\n\n \n\n\n\n Molecular cell, 44(5): 770–784. 2011.\n \n\n\n\n
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@article{katoh2011foxp3,\n  title={FOXP3 orchestrates H4K16 acetylation and H3K4 trimethylation for activation of multiple genes by recruiting MOF and causing displacement of PLU-1},\n  author={Katoh, Hiroto and Qin, Zhaohui S and Liu, Runhua and Wang, Lizhong and Li, Weiquan and Li, Xiangzhi and Wu, Lipeng and Du, Zhanwen and Lyons, Robert and Liu, Chang-Gong and others},\n  journal={Molecular cell},\n  volume={44},\n  number={5},\n  pages={770--784},\n  year={2011},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n Coordinated regulation of polycomb group complexes through microRNAs in cancer.\n \n \n \n\n\n \n Cao, Q.; Mani, R.; Ateeq, B.; Dhanasekaran, S. M; Asangani, I. A; Prensner, J. R; Kim, J. H; Brenner, J C.; Jing, X.; Cao, X.; and others\n\n\n \n\n\n\n Cancer cell, 20(2): 187–199. 2011.\n \n\n\n\n
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@article{cao2011coordinated,\n  title={Coordinated regulation of polycomb group complexes through microRNAs in cancer},\n  author={Cao, Qi and Mani, Ram-Shankar and Ateeq, Bushra and Dhanasekaran, Saravana M and Asangani, Irfan A and Prensner, John R and Kim, Jung H and Brenner, J Chad and Jing, Xiaojun and Cao, Xuhong and others},\n  journal={Cancer cell},\n  volume={20},\n  number={2},\n  pages={187--199},\n  year={2011},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n DNA methylation patterns and transcript isoform regulation in prostate cancer.\n \n \n \n\n\n \n Dhanasekaran, S. M.; Kim, J. J. H; Prensner, J.; Cao, X.; Robinson, D.; Kalyana-Sundaram, S.; Shankar, S.; Jing, X.; Iyer, M.; Sam, L.; and others\n\n\n \n\n\n\n 2011.\n \n\n\n\n
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@misc{dhanasekaran2011dna,\n  title={DNA methylation patterns and transcript isoform regulation in prostate cancer},\n  author={Dhanasekaran, Saravana Mohan and Kim, Jung Julie H and Prensner, John and Cao, Xuhong and Robinson, Daniel and Kalyana-Sundaram, Shanker and Shankar, Sunita and Jing, Xiaojun and Iyer, Matthew and Sam, Lee and others},\n  year={2011},\n  publisher={American Association for Cancer Research}\n}\n\n
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\n  \n 2010\n \n \n (7)\n \n \n
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\n \n\n \n \n \n \n \n A global protein kinase and phosphatase interaction network in yeast.\n \n \n \n\n\n \n Breitkreutz, A.; Choi, H.; Sharom, J. R; Boucher, L.; Neduva, V.; Larsen, B.; Lin, Z.; Breitkreutz, B.; Stark, C.; Liu, G.; and others\n\n\n \n\n\n\n Science, 328(5981): 1043. 2010.\n \n\n\n\n
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@article{breitkreutz2010global,\n  title={A global protein kinase and phosphatase interaction network in yeast},\n  author={Breitkreutz, Ashton and Choi, Hyungwon and Sharom, Jeffrey R and Boucher, Lorrie and Neduva, Victor and Larsen, Brett and Lin, Zhen-Yuan and Breitkreutz, Bobby-Joe and Stark, Chris and Liu, Guomin and others},\n  journal={Science},\n  volume={328},\n  number={5981},\n  pages={1043},\n  year={2010},\n  publisher={American Association for the Advancement of Science}\n}\n\n
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\n \n\n \n \n \n \n \n On the detection and refinement of transcription factor binding sites using ChIP-Seq data.\n \n \n \n\n\n \n Hu, M.; Yu, J.; Taylor, J. M.; Chinnaiyan, A. M; and Qin, Z. S\n\n\n \n\n\n\n Nucleic acids research, 38(7): 2154–2167. 2010.\n \n\n\n\n
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@article{hu2010detection,\n  title={On the detection and refinement of transcription factor binding sites using ChIP-Seq data},\n  author={Hu, Ming and Yu, Jindan and Taylor, Jeremy MG and Chinnaiyan, Arul M and Qin, Zhaohui S},\n  journal={Nucleic acids research},\n  volume={38},\n  number={7},\n  pages={2154--2167},\n  year={2010},\n  publisher={Oxford Univ Press}\n}\n\n
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\n \n\n \n \n \n \n \n HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-Seq data.\n \n \n \n\n\n \n Qin, Z.; Yu, J.; Shen, J.; Maher, C.; Hu, M.; Kalyana-Sundaram, S.; Yu, J.; and Chinnaiyan, A.\n\n\n \n\n\n\n BMC bioinformatics, 11(1): 369. 2010.\n \n\n\n\n
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@article{qin2010hpeak,\n  title={HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-Seq data},\n  author={Qin, Zhaohui and Yu, Jianjun and Shen, Jincheng and Maher, Christopher and Hu, Ming and Kalyana-Sundaram, Shanker and Yu, Jindan and Chinnaiyan, Arul},\n  journal={BMC bioinformatics},\n  volume={11},\n  number={1},\n  pages={369},\n  year={2010},\n  publisher={BioMed Central Ltd}\n}\n\n
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\n \n\n \n \n \n \n \n Statistical issues in the analysis of ChIP-Seq and RNA-Seq data.\n \n \n \n\n\n \n Ghosh, D.; and Qin, Z. S\n\n\n \n\n\n\n Genes, 1(2): 317–334. 2010.\n \n\n\n\n
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@article{ghosh2010statistical,\n  title={Statistical issues in the analysis of ChIP-Seq and RNA-Seq data},\n  author={Ghosh, Debashis and Qin, Zhaohui S},\n  journal={Genes},\n  volume={1},\n  number={2},\n  pages={317--334},\n  year={2010},\n  publisher={Molecular Diversity Preservation International}\n}\n\n
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\n \n\n \n \n \n \n \n An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression.\n \n \n \n\n\n \n Yu, J.; Yu, J.; Mani, R.; Cao, Q.; Brenner, C. J; Cao, X.; Wang, X.; Wu, L.; Li, J.; Hu, M.; and others\n\n\n \n\n\n\n Cancer cell, 17(5): 443–454. 2010.\n \n\n\n\n
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@article{yu2010integrated,\n  title={An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression},\n  author={Yu, Jindan and Yu, Jianjun and Mani, Ram-Shankar and Cao, Qi and Brenner, Chad J and Cao, Xuhong and Wang, Xiaoju and Wu, Longtao and Li, James and Hu, Ming and others},\n  journal={Cancer cell},\n  volume={17},\n  number={5},\n  pages={443--454},\n  year={2010},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n A double-layered mixture model for the joint analysis of DNA copy number and gene expression data.\n \n \n \n\n\n \n Choi, H.; Qin, Z. S; and Ghosh, D.\n\n\n \n\n\n\n Journal of Computational Biology, 17(2): 121–137. 2010.\n \n\n\n\n
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@article{choi2010double,\n  title={A double-layered mixture model for the joint analysis of DNA copy number and gene expression data},\n  author={Choi, Hyungwon and Qin, Zhaohui S and Ghosh, Debashis},\n  journal={Journal of Computational Biology},\n  volume={17},\n  number={2},\n  pages={121--137},\n  year={2010},\n  publisher={Mary Ann Liebert, Inc. 140 Huguenot Street, 3rd Floor New Rochelle, NY 10801 USA}\n}\n\n
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\n \n\n \n \n \n \n \n C/EBP beta Mediates Growth Hormone-Regulated Expression of Multiple Target Genes: Involvement of C/EBP beta Phosphorylation and Co-Activator Recruitment.\n \n \n \n\n\n \n Cui, T. X; Streeter, C. C; Lin, G.; Lanning, N. J; Jin, H.; Carter-Su, C.; Qin, Z. S; and Schwartz, J.\n\n\n \n\n\n\n In ENDOCRINE REVIEWS, volume 31, 2010. ENDOCRINE SOC 8401 CONNECTICUT AVE, SUITE 900, CHEVY CHASE, MD 20815-5817 USA\n \n\n\n\n
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@inproceedings{cui2010c,\n  title={C/EBP beta Mediates Growth Hormone-Regulated Expression of Multiple Target Genes: Involvement of C/EBP beta Phosphorylation and Co-Activator Recruitment.},\n  author={Cui, Tracy X and Streeter, Cale C and Lin, Grace and Lanning, Nathan J and Jin, Hui and Carter-Su, Christin and Qin, Zhaohui S and Schwartz, Jessica},\n  booktitle={ENDOCRINE REVIEWS},\n  volume={31},\n  number={3},\n  year={2010},\n  organization={ENDOCRINE SOC 8401 CONNECTICUT AVE, SUITE 900, CHEVY CHASE, MD 20815-5817 USA}\n}\n\n
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\n  \n 2009\n \n \n (8)\n \n \n
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\n \n\n \n \n \n \n \n Global gene expression analysis reveals evidence for decreased lipid biosynthesis and increased innate immunity in uninvolved psoriatic skin.\n \n \n \n\n\n \n Gudjonsson, J. E; Ding, J.; Li, X.; Nair, R. P; Tejasvi, T.; Qin, Z. S; Ghosh, D.; Aphale, A.; Gumucio, D. L; Voorhees, J. J; and others\n\n\n \n\n\n\n Journal of Investigative Dermatology, 129(12): 2795–2804. 2009.\n \n\n\n\n
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@article{gudjonsson2009global,\n  title={Global gene expression analysis reveals evidence for decreased lipid biosynthesis and increased innate immunity in uninvolved psoriatic skin},\n  author={Gudjonsson, Johann E and Ding, Jun and Li, Xing and Nair, Rajan P and Tejasvi, Trilokraj and Qin, Zhaohui S and Ghosh, Debashis and Aphale, Abhishek and Gumucio, Deborah L and Voorhees, John J and others},\n  journal={Journal of Investigative Dermatology},\n  volume={129},\n  number={12},\n  pages={2795--2804},\n  year={2009},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data.\n \n \n \n\n\n \n Choi, H.; Nesvizhskii, A. I; Ghosh, D.; and Qin, Z. S\n\n\n \n\n\n\n Bioinformatics, 25(14): 1715. 2009.\n \n\n\n\n
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@article{choi2009hierarchical,\n  title={Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data},\n  author={Choi, Hyungwon and Nesvizhskii, Alexey I and Ghosh, Debashis and Qin, Zhaohui S},\n  journal={Bioinformatics},\n  volume={25},\n  number={14},\n  pages={1715},\n  year={2009},\n  publisher={Oxford Univ Press}\n}\n\n
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\n \n\n \n \n \n \n \n Query large scale microarray compendium datasets using a model-based bayesian approach with variable selection.\n \n \n \n\n\n \n Hu, M.; and Qin, Z. S\n\n\n \n\n\n\n PloS One, 4(2): e4495. 2009.\n \n\n\n\n
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@article{hu2009query,\n  title={Query large scale microarray compendium datasets using a model-based bayesian approach with variable selection},\n  author={Hu, Ming and Qin, Zhaohui S},\n  journal={PloS One},\n  volume={4},\n  number={2},\n  pages={e4495},\n  year={2009},\n  publisher={Public Library of Science}\n}\n\n
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\n \n\n \n \n \n \n \n Computational and functional analysis of growth hormone (GH)-regulated genes identifies the transcriptional repressor B-cell lymphoma 6 (Bc16) as a participant in GH-regulated transcription.\n \n \n \n\n\n \n Chen, Y.; Lin, G.; Huo, J. S; Barney, D.; Wang, Z.; Livshiz, T.; Qin, Z. S; Schwartz, J.; and others\n\n\n \n\n\n\n Endocrinology, 150(8): 3645. 2009.\n \n\n\n\n
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@article{chen2009computational,\n  title={Computational and functional analysis of growth hormone (GH)-regulated genes identifies the transcriptional repressor B-cell lymphoma 6 (Bc16) as a participant in GH-regulated transcription},\n  author={Chen, Yili and Lin, Grace and Huo, Jeffrey S and Barney, Deborah and Wang, Zhenni and Livshiz, Tamara and Qin, Zhaohui S and Schwartz, Jessica and others},\n  journal={Endocrinology},\n  volume={150},\n  number={8},\n  pages={3645},\n  year={2009},\n  publisher={Endocrine Soc}\n}\n\n
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\n \n\n \n \n \n \n \n Progress toward personalized medicine for glaucoma.\n \n \n \n\n\n \n Moroi, S. E; Raoof, D. A; Reed, D. M; Zöllner, S.; Qin, Z.; and Richards, J. E\n\n\n \n\n\n\n Expert review of ophthalmology, 4(2): 145–161. 2009.\n \n\n\n\n
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@article{moroi2009progress,\n  title={Progress toward personalized medicine for glaucoma},\n  author={Moroi, Sayoko E and Raoof, Duna A and Reed, David M and Z{\\"o}llner, Sebastian and Qin, Zhaohui and Richards, Julia E},\n  journal={Expert review of ophthalmology},\n  volume={4},\n  number={2},\n  pages={145--161},\n  year={2009},\n  publisher={Taylor \\& Francis}\n}\n\n
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\n \n\n \n \n \n \n \n Drug–drug interaction prediction assessment.\n \n \n \n\n\n \n Zhou, J.; Qin, Z.; Sara, Q. K; Kim, S.; Wang, Z.; Hall, S. D; and Li, L.\n\n\n \n\n\n\n Journal of biopharmaceutical statistics, 19(4): 641–657. 2009.\n \n\n\n\n
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@article{zhou2009drug,\n  title={Drug--drug interaction prediction assessment},\n  author={Zhou, Jihao and Qin, Zhaohui and Sara, Quinney K and Kim, Seongho and Wang, Zhiping and Hall, Stephen D and Li, Lang},\n  journal={Journal of biopharmaceutical statistics},\n  volume={19},\n  number={4},\n  pages={641--657},\n  year={2009},\n  publisher={Taylor \\& Francis Group}\n}\n\n
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\n \n\n \n \n \n \n \n A new probabilistic rule for drug–dug interaction prediction.\n \n \n \n\n\n \n Zhou, J.; Qin, Z.; Quinney, S. K; Kim, S.; Wang, Z.; Yu, M.; Chien, J. Y; Lucksiri, A.; Hall, S. D; and Li, L.\n\n\n \n\n\n\n Journal of pharmacokinetics and pharmacodynamics, 36(1): 1–18. 2009.\n \n\n\n\n
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@article{zhou2009new,\n  title={A new probabilistic rule for drug--dug interaction prediction},\n  author={Zhou, Jihao and Qin, Zhaohui and Quinney, Sara K and Kim, Seongho and Wang, Zhiping and Yu, Menggang and Chien, Jenny Y and Lucksiri, Aroonrut and Hall, Stephen D and Li, Lang},\n  journal={Journal of pharmacokinetics and pharmacodynamics},\n  volume={36},\n  number={1},\n  pages={1--18},\n  year={2009},\n  publisher={Springer US}\n}\n\n
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\n \n\n \n \n \n \n \n Abstract# 4243: An integrated network of androgen receptor and TMPRSS2-ERG gene fusions in prostate cancer.\n \n \n \n\n\n \n Yu, J.; Yu, J.; Mani, R.; Vellaichamy, A.; Cao, Q.; Laxman, B.; Li, J.; Cao, X.; Barrette, T.; Qin, Z.; and others\n\n\n \n\n\n\n 2009.\n \n\n\n\n
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@misc{yu2009abstract,\n  title={Abstract\\# 4243: An integrated network of androgen receptor and TMPRSS2-ERG gene fusions in prostate cancer},\n  author={Yu, Jindan and Yu, Jianjun and Mani, Ram and Vellaichamy, Adaikkalam and Cao, Qi and Laxman, Bharathi and Li, James and Cao, Xuhong and Barrette, Terrence and Qin, Zhaohui and others},\n  year={2009},\n  publisher={American Association for Cancer Research}\n}\n\n
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\n  \n 2008\n \n \n (4)\n \n \n
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\n \n\n \n \n \n \n \n Comparison of laboratory-based and phylogenetic methods to distinguish between Haemophilus influenzae and H. haemolyticus.\n \n \n \n\n\n \n Sandstedt, S. A; Zhang, L.; Patel, M.; McCrea, K. W; Qin, Z.; Marrs, C. F; and Gilsdorf, J. R\n\n\n \n\n\n\n Journal of microbiological methods, 75(2): 369–371. 2008.\n \n\n\n\n
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@article{sandstedt2008comparison,\n  title={Comparison of laboratory-based and phylogenetic methods to distinguish between Haemophilus influenzae and H. haemolyticus},\n  author={Sandstedt, Sara A and Zhang, Lixin and Patel, Mayurika and McCrea, Kirk W and Qin, Zhaohui and Marrs, Carl F and Gilsdorf, Janet R},\n  journal={Journal of microbiological methods},\n  volume={75},\n  number={2},\n  pages={369--371},\n  year={2008},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Family-based SNP association study on 8q24 in bipolar disorder.\n \n \n \n\n\n \n Zandi, P. P; Zöllner, S.; Avramopoulos, D.; Willour, V. L; Chen, Y.; Qin, Z. S; Burmeister, M.; Miao, K.; Gopalakrishnan, S.; McEachin, R.; and others\n\n\n \n\n\n\n American Journal of Medical Genetics Part B: Neuropsychiatric Genetics, 147(5): 612–618. 2008.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{zandi2008family,\n  title={Family-based SNP association study on 8q24 in bipolar disorder},\n  author={Zandi, Peter P and Z{\\"o}llner, Sebastian and Avramopoulos, Dimitrios and Willour, Virginia L and Chen, Yi and Qin, Zhaohui S and Burmeister, Margit and Miao, Kuangyi and Gopalakrishnan, Shyam and McEachin, Richard and others},\n  journal={American Journal of Medical Genetics Part B: Neuropsychiatric Genetics},\n  volume={147},\n  number={5},\n  pages={612--618},\n  year={2008},\n  publisher={Wiley Subscription Services, Inc., A Wiley Company Hoboken}\n}\n\n
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\n \n\n \n \n \n \n \n Data Analysis and Graphics Using R: An Example-Based Approach, John Maindonald and John Braun.\n \n \n \n\n\n \n Qin, Z. S.\n\n\n \n\n\n\n 2008.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@misc{qin2008data,\n  title={Data Analysis and Graphics Using R: An Example-Based Approach, John Maindonald and John Braun},\n  author={Qin, Zhaohui Steve},\n  year={2008},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Statistical Methods for Classifying Mass Spectrometry Database Search Results.\n \n \n \n\n\n \n Qin, Z. S; Ulintz, P. J; Zhu, J.; and Andrews, P.\n\n\n \n\n\n\n Introduction to Machine Learning and Bioinformatics,339. 2008.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{qin2008statistical,\n  title={Statistical Methods for Classifying Mass Spectrometry Database Search Results},\n  author={Qin, Zhaohui S and Ulintz, Peter J and Zhu, Ji and Andrews, Philip},\n  journal={Introduction to Machine Learning and Bioinformatics},\n  pages={339},\n  year={2008},\n  publisher={CRC Press}\n}\n\n
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\n  \n 2007\n \n \n (9)\n \n \n
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\n \n\n \n \n \n \n \n A second generation human haplotype map of over 3.1 million SNPs.\n \n \n \n\n\n \n Frazer, K. A; Ballinger, D. G; Cox, D. R; Hinds, D. A; Stuve, L. L; Gibbs, R. A; Belmont, J. W; Boudreau, A.; Hardenbol, P.; Leal, S. M; and others\n\n\n \n\n\n\n Nature, 449(7164): 851–861. 2007.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{frazer2007second,\n  title={A second generation human haplotype map of over 3.1 million SNPs},\n  author={Frazer, Kelly A and Ballinger, Dennis G and Cox, David R and Hinds, David A and Stuve, Laura L and Gibbs, Richard A and Belmont, John W and Boudreau, Andrew and Hardenbol, Paul and Leal, Suzanne M and others},\n  journal={Nature},\n  volume={449},\n  number={7164},\n  pages={851--861},\n  year={2007},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n Genome-wide detection and characterization of positive selection in human populations.\n \n \n \n\n\n \n Sabeti, P. C; Varilly, P.; Fry, B.; Lohmueller, J.; Hostetter, E.; Cotsapas, C.; Xie, X.; Byrne, E. H; McCarroll, S. A; Gaudet, R.; and others\n\n\n \n\n\n\n Nature, 449(7164): 913–918. 2007.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{sabeti2007genome,\n  title={Genome-wide detection and characterization of positive selection in human populations},\n  author={Sabeti, Pardis C and Varilly, Patrick and Fry, Ben and Lohmueller, Jason and Hostetter, Elizabeth and Cotsapas, Chris and Xie, Xiaohui and Byrne, Elizabeth H and McCarroll, Steven A and Gaudet, Rachelle and others},\n  journal={Nature},\n  volume={449},\n  number={7164},\n  pages={913--918},\n  year={2007},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n p53-mediated activation of miRNA34 candidate tumor-suppressor genes.\n \n \n \n\n\n \n Bommer, G. T; Gerin, I.; Feng, Y.; Kaczorowski, A. J; Kuick, R.; Love, R. E; Zhai, Y.; Giordano, T. J; Qin, Z. S; Moore, B. B; and others\n\n\n \n\n\n\n Current biology, 17(15): 1298–1307. 2007.\n \n\n\n\n
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@article{bommer2007p53,\n  title={p53-mediated activation of miRNA34 candidate tumor-suppressor genes},\n  author={Bommer, Guido T and Gerin, Isabelle and Feng, Ying and Kaczorowski, Andrew J and Kuick, Rork and Love, Robert E and Zhai, Yali and Giordano, Thomas J and Qin, Zhaohui S and Moore, Bethany B and others},\n  journal={Current biology},\n  volume={17},\n  number={15},\n  pages={1298--1307},\n  year={2007},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n Operon prediction for sequenced bacterial genomes without experimental information.\n \n \n \n\n\n \n Bergman, N. H; Passalacqua, K. D; Hanna, P. C; and Qin, Z. S\n\n\n \n\n\n\n Applied and environmental microbiology, 73(3): 846–854. 2007.\n \n\n\n\n
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@article{bergman2007operon,\n  title={Operon prediction for sequenced bacterial genomes without experimental information},\n  author={Bergman, Nicholas H and Passalacqua, Karla D and Hanna, Philip C and Qin, Zhaohui S},\n  journal={Applied and environmental microbiology},\n  volume={73},\n  number={3},\n  pages={846--854},\n  year={2007},\n  publisher={Am Soc Microbiol}\n}\n\n
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\n \n\n \n \n \n \n \n CRCView: a web server for analyzing and visualizing microarray gene expression data using model-based clustering.\n \n \n \n\n\n \n Xiang, Z.; Qin, Z. S; and He, Y.\n\n\n \n\n\n\n Bioinformatics, 23(14): 1843–1845. 2007.\n \n\n\n\n
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@article{xiang2007crcview,\n  title={CRCView: a web server for analyzing and visualizing microarray gene expression data using model-based clustering},\n  author={Xiang, Zuoshuang and Qin, Zhaohui S and He, Yongqun},\n  journal={Bioinformatics},\n  volume={23},\n  number={14},\n  pages={1843--1845},\n  year={2007},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Different normalization strategies for microarray gene expression traits affect the heritability estimation.\n \n \n \n\n\n \n Ma, J.; and Qin, Z. S\n\n\n \n\n\n\n In BMC proceedings, volume 1, pages S154, 2007. BioMed Central\n \n\n\n\n
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@inproceedings{ma2007different,\n  title={Different normalization strategies for microarray gene expression traits affect the heritability estimation},\n  author={Ma, Jun and Qin, Zhaohui S},\n  booktitle={BMC proceedings},\n  volume={1},\n  number={1},\n  pages={S154},\n  year={2007},\n  organization={BioMed Central}\n}\n\n
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\n \n\n \n \n \n \n \n PROBABILISTIC DECISION RULES IN DRUG-DRUG INTERACTION PREDICTION: A PHARMACOKINETIC MODEL-BASED SIMULATION APPROACH.: PI-31.\n \n \n \n\n\n \n Zhou, J; Qin, Z; Hall, S; and Li, L\n\n\n \n\n\n\n Clinical Pharmacology & Therapeutics, 81. 2007.\n \n\n\n\n
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@article{zhou2007probabilistic,\n  title={PROBABILISTIC DECISION RULES IN DRUG-DRUG INTERACTION PREDICTION: A PHARMACOKINETIC MODEL-BASED SIMULATION APPROACH.: PI-31},\n  author={Zhou, J and Qin, Z and Hall, S and Li, L},\n  journal={Clinical Pharmacology \\& Therapeutics},\n  volume={81},\n  year={2007}\n}\n\n
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\n \n\n \n \n \n \n \n Fine mapping of psoriasis susceptibility locus PSORS2 on chromosome 17q.\n \n \n \n\n\n \n Nair, R.; Stuart, P.; Qin, Z.; Abecasis, G.; Jenisch, S; Weichenthal, M; Lim, H.; Christophers, E; Voorhees, J.; and Elder, J.\n\n\n \n\n\n\n In JOURNAL OF INVESTIGATIVE DERMATOLOGY, volume 127, pages S89–S89, 2007. NATURE PUBLISHING GROUP 75 VARICK STREET, 9TH FLOOR, NEW YORK, NY 10013-1917 USA\n \n\n\n\n
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@inproceedings{nair2007fine,\n  title={Fine mapping of psoriasis susceptibility locus PSORS2 on chromosome 17q},\n  author={Nair, RP and Stuart, PE and Qin, ZS and Abecasis, GR and Jenisch, S and Weichenthal, M and Lim, HW and Christophers, E and Voorhees, JJ and Elder, JT},\n  booktitle={JOURNAL OF INVESTIGATIVE DERMATOLOGY},\n  volume={127},\n  pages={S89--S89},\n  year={2007},\n  organization={NATURE PUBLISHING GROUP 75 VARICK STREET, 9TH FLOOR, NEW YORK, NY 10013-1917 USA}\n}\n\n
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\n \n\n \n \n \n \n \n Evaluation of drug-drug interaction prediction model: A monte carlo-based two-one sided tests approach.\n \n \n \n\n\n \n Zhou, J; Qin, Z; Hall, S; and Li, L\n\n\n \n\n\n\n Clinical Pharmacology & Therapeutics, 81. 2007.\n \n\n\n\n
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@article{zhou2007evaluation,\n  title={Evaluation of drug-drug interaction prediction model: A monte carlo-based two-one sided tests approach.},\n  author={Zhou, J and Qin, Z and Hall, S and Li, L},\n  journal={Clinical Pharmacology \\& Therapeutics},\n  volume={81},\n  year={2007}\n}\n\n
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\n  \n 2006\n \n \n (6)\n \n \n
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\n \n\n \n \n \n \n \n A comparison of phasing algorithms for trios and unrelated individuals.\n \n \n \n\n\n \n Marchini, J.; Cutler, D.; Patterson, N.; Stephens, M.; Eskin, E.; Halperin, E.; Lin, S.; Qin, Z. S; Munro, H. M; Abecasis, G. R; and others\n\n\n \n\n\n\n The American Journal of Human Genetics, 78(3): 437–450. 2006.\n \n\n\n\n
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@article{marchini2006comparison,\n  title={A comparison of phasing algorithms for trios and unrelated individuals},\n  author={Marchini, Jonathan and Cutler, David and Patterson, Nick and Stephens, Matthew and Eskin, Eleazar and Halperin, Eran and Lin, Shin and Qin, Zhaohui S and Munro, Heather M and Abecasis, Gon{\\c{c}}alo R and others},\n  journal={The American Journal of Human Genetics},\n  volume={78},\n  number={3},\n  pages={437--450},\n  year={2006},\n  publisher={Cell Press}\n}\n\n
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\n \n\n \n \n \n \n \n Clustering microarray gene expression data using weighted Chinese restaurant process.\n \n \n \n\n\n \n Qin, Z. S\n\n\n \n\n\n\n Bioinformatics, 22(16): 1988–1997. 2006.\n \n\n\n\n
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@article{qin2006clustering,\n  title={Clustering microarray gene expression data using weighted Chinese restaurant process},\n  author={Qin, Zhaohui S},\n  journal={Bioinformatics},\n  volume={22},\n  number={16},\n  pages={1988--1997},\n  year={2006},\n  publisher={Oxford Univ Press}\n}\n\n
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\n \n\n \n \n \n \n \n Improved classification of mass spectrometry database search results using newer machine learning approaches.\n \n \n \n\n\n \n Ulintz, P. J; Zhu, J.; Qin, Z. S; and Andrews, P. C\n\n\n \n\n\n\n Molecular & Cellular Proteomics, 5(3): 497–509. 2006.\n \n\n\n\n
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@article{ulintz2006improved,\n  title={Improved classification of mass spectrometry database search results using newer machine learning approaches},\n  author={Ulintz, Peter J and Zhu, Ji and Qin, Zhaohui S and Andrews, Philip C},\n  journal={Molecular \\& Cellular Proteomics},\n  volume={5},\n  number={3},\n  pages={497--509},\n  year={2006},\n  publisher={ASBMB}\n}\n\n
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\n \n\n \n \n \n \n \n An efficient comprehensive search algorithm for tagSNP selection using linkage disequilibrium criteria.\n \n \n \n\n\n \n Qin, Z. S; Gopalakrishnan, S.; and Abecasis, G. R\n\n\n \n\n\n\n Bioinformatics, 22(2): 220–225. 2006.\n \n\n\n\n
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@article{qin2006efficient,\n  title={An efficient comprehensive search algorithm for tagSNP selection using linkage disequilibrium criteria},\n  author={Qin, Zhaohui S and Gopalakrishnan, Shyam and Abecasis, Gon{\\c{c}}alo R},\n  journal={Bioinformatics},\n  volume={22},\n  number={2},\n  pages={220--225},\n  year={2006},\n  publisher={Oxford Univ Press}\n}\n\n
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\n \n\n \n \n \n \n \n Analysis of RUNX1 binding site and RAPTOR polymorphisms in psoriasis: no evidence for association despite adequate power and evidence for linkage.\n \n \n \n\n\n \n Stuart, P.; Nair, R. P; Abecasis, G. R; Nistor, I.; Hiremagalore, R.; Chia, N. V; Qin, Z. S; Thompson, R. A; Jenisch, S.; Weichenthal, M.; and others\n\n\n \n\n\n\n Journal of medical genetics, 43(1): 12. 2006.\n \n\n\n\n
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@article{stuart2006analysis,\n  title={Analysis of RUNX1 binding site and RAPTOR polymorphisms in psoriasis: no evidence for association despite adequate power and evidence for linkage},\n  author={Stuart, Philip and Nair, Rajan P and Abecasis, Goncalo R and Nistor, Ioana and Hiremagalore, Ravi and Chia, Nicholas V and Qin, Zhaohui S and Thompson, Rachel A and Jenisch, Stefan and Weichenthal, Michael and others},\n  journal={Journal of medical genetics},\n  volume={43},\n  number={1},\n  pages={12},\n  year={2006},\n  publisher={BMJ Publishing Group Ltd}\n}\n\n
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\n \n\n \n \n \n \n \n TagSNP selection based on pairwise LD criteria and power analysis in association studies.\n \n \n \n\n\n \n Gopalakrishnan, S.; and Qin, Z. S\n\n\n \n\n\n\n In Biocomputing 2006, pages 511–522. 2006.\n \n\n\n\n
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@incollection{gopalakrishnan2006tagsnp,\n  title={TagSNP selection based on pairwise LD criteria and power analysis in association studies},\n  author={Gopalakrishnan, Shyam and Qin, Zhaohui S},\n  booktitle={Biocomputing 2006},\n  pages={511--522},\n  year={2006}\n}\n\n
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\n  \n 2005\n \n \n (5)\n \n \n
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\n \n\n \n \n \n \n \n Structural comparison of metabolic networks in selected single cell organisms.\n \n \n \n\n\n \n Zhu, D.; and Qin, Z. S\n\n\n \n\n\n\n BMC bioinformatics, 6(1): 8. 2005.\n \n\n\n\n
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@article{zhu2005structural,\n  title={Structural comparison of metabolic networks in selected single cell organisms},\n  author={Zhu, Dongxiao and Qin, Zhaohui S},\n  journal={BMC bioinformatics},\n  volume={6},\n  number={1},\n  pages={8},\n  year={2005},\n  publisher={BioMed Central}\n}\n\n
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\n \n\n \n \n \n \n \n High throughput screening of co-expressed gene pairs with controlled false discovery rate (FDR) and minimum acceptable strength (MAS).\n \n \n \n\n\n \n Zhu, D.; Hero, A. O; Qin, Z. S; and Swaroop, A.\n\n\n \n\n\n\n Journal of Computational Biology, 12(7): 1029–1045. 2005.\n \n\n\n\n
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@article{zhu2005high,\n  title={High throughput screening of co-expressed gene pairs with controlled false discovery rate (FDR) and minimum acceptable strength (MAS)},\n  author={Zhu, Dongxiao and Hero, Alfred O and Qin, Zhaohui S and Swaroop, Anand},\n  journal={Journal of Computational Biology},\n  volume={12},\n  number={7},\n  pages={1029--1045},\n  year={2005},\n  publisher={Mary Ann Liebert, Inc. 2 Madison Avenue Larchmont, NY 10538 USA}\n}\n\n
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\n \n\n \n \n \n \n \n Protein tyrosine phosphatase gene PTPN22 polymorphism in psoriasis: lack of evidence for association.\n \n \n \n\n\n \n Nistor, I.; Nair, R. P; Stuart, P.; Hiremagalore, R.; Thompson, R. A; Jenisch, S.; Weichenthal, M.; Abecasis, G. R; Qin, Z. S; Christophers, E.; and others\n\n\n \n\n\n\n Journal of General Internal Medicine, 20(5): 395–396. 2005.\n \n\n\n\n
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@article{nistor2005protein,\n  title={Protein tyrosine phosphatase gene PTPN22 polymorphism in psoriasis: lack of evidence for association},\n  author={Nistor, Ioana and Nair, Rajan P and Stuart, Philip and Hiremagalore, Ravi and Thompson, Rachel A and Jenisch, Stefan and Weichenthal, Michael and Abecasis, Gon{\\c{c}}alo R and Qin, Zhaohui S and Christophers, Enno and others},\n  journal={Journal of General Internal Medicine},\n  volume={20},\n  number={5},\n  pages={395--396},\n  year={2005},\n  publisher={Blackwell Science Inc Oxford, UK}\n}\n\n
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\n \n\n \n \n \n \n \n Lack of association of psoriasis with RUNX1 and RAPTOR polymorphisms in PSORS2 locus on chromosome 17.\n \n \n \n\n\n \n Nair, R; Stuart, P; Hiremagalore, R; Nistor, I; Thompson, R; Jenisch, S; Weichenthal, M; Christophers, E; Abecasis, G; Qin, Z; and others\n\n\n \n\n\n\n In JOURNAL OF INVESTIGATIVE DERMATOLOGY, volume 124, pages A79–A79, 2005. BLACKWELL PUBLISHING INC 350 MAIN ST, MALDEN, MA 02148 USA\n \n\n\n\n
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@inproceedings{nair2005lack,\n  title={Lack of association of psoriasis with RUNX1 and RAPTOR polymorphisms in PSORS2 locus on chromosome 17},\n  author={Nair, R and Stuart, P and Hiremagalore, R and Nistor, I and Thompson, R and Jenisch, S and Weichenthal, M and Christophers, E and Abecasis, G and Qin, Z and others},\n  booktitle={JOURNAL OF INVESTIGATIVE DERMATOLOGY},\n  volume={124},\n  number={4},\n  pages={A79--A79},\n  year={2005},\n  organization={BLACKWELL PUBLISHING INC 350 MAIN ST, MALDEN, MA 02148 USA}\n}\n\n
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@article{international2005haplotype,\n  title={A haplotype map of the human genome},\n  author={International HapMap Consortium and others},\n  journal={Nature},\n  volume={437},\n  number={7063},\n  pages={1299},\n  year={2005},\n  publisher={NIH Public Access}\n}\n\n
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@article{zhang2004haplotype,\n  title={Haplotype block partitioning and tag SNP selection using genotype data and their applications to association studies},\n  author={Zhang, Kui and Qin, Zhaohui S and Liu, Jun S and Chen, Ting and Waterman, Michael S and Sun, Fengzhu},\n  journal={Genome Research},\n  volume={14},\n  number={5},\n  pages={908--916},\n  year={2004},\n  publisher={Cold Spring Harbor Lab}\n}\n\n
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@article{zhang2004hapblock,\n  title={HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms},\n  author={Zhang, Kui and Qin, Zhaohui and Chen, Ting and Liu, Jun S and Waterman, Michael S and Sun, Fengzhu},\n  journal={Bioinformatics},\n  volume={21},\n  number={1},\n  pages={131--134},\n  year={2004},\n  publisher={Oxford University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Statistical resynchronization and Bayesian detection of periodically expressed genes.\n \n \n \n\n\n \n Lu, X.; Zhang, W.; Qin, Z. S; Kwast, K. E; and Liu, J. S\n\n\n \n\n\n\n Nucleic acids research, 32(2): 447–455. 2004.\n \n\n\n\n
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@article{lu2004statistical,\n  title={Statistical resynchronization and Bayesian detection of periodically expressed genes},\n  author={Lu, Xin and Zhang, Wen and Qin, Zhaohui S and Kwast, Kurt E and Liu, Jun S},\n  journal={Nucleic acids research},\n  volume={32},\n  number={2},\n  pages={447--455},\n  year={2004},\n  publisher={Oxford Univ Press}\n}\n\n
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@article{kang2004incorporating,\n  title={Incorporating genotyping uncertainty in haplotype inference for single-nucleotide polymorphisms},\n  author={Kang, Hosung and Qin, Zhaohui S and Niu, Tianhua and Liu, Jun S},\n  journal={The American Journal of Human Genetics},\n  volume={74},\n  number={3},\n  pages={495--510},\n  year={2004},\n  publisher={Cell Press}\n}\n\n
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@article{qin2003identification,\n  title={Identification of co-regulated genes through Bayesian clustering of predicted regulatory binding sites},\n  author={Qin, Zhaohui S and McCue, Lee Ann and Thompson, William and Mayerhofer, Linda and Lawrence, Charles E and Liu, Jun S and others},\n  journal={Nature biotechnology},\n  volume={21},\n  number={4},\n  pages={435--439},\n  year={2003}\n}\n\n
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@inproceedings{lu2003statistical,\n  title={Statistical resynchronization and detection of periodic transcripts},\n  author={Lu, Xin and Zhang, Wen and Qin, Zhaohui S and Liu, Jun S},\n  booktitle={Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003},\n  pages={394--395},\n  year={2003},\n  organization={IEEE}\n}\n\n
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\n \n\n \n \n \n \n \n Scale mixture models with applications to Bayesian inference.\n \n \n \n\n\n \n Qin, Z. S; Damien, P.; and Walker, S.\n\n\n \n\n\n\n In AIP Conference Proceedings, volume 690, pages 394–395, 2003. AIP\n \n\n\n\n
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@inproceedings{qin2003scale,\n  title={Scale mixture models with applications to Bayesian inference},\n  author={Qin, Zhaohui S and Damien, Paul and Walker, Stephen},\n  booktitle={AIP Conference Proceedings},\n  volume={690},\n  number={1},\n  pages={394--395},\n  year={2003},\n  organization={AIP}\n}\n\n
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@inproceedings{zhang2003haplotype,\n  title={Haplotype block partitioning and tag SNP selection using genotype data.},\n  author={Zhang, K and Qin, ZS and Liu, JS and Chen, T and Waterman, MS and Sun, F},\n  booktitle={AMERICAN JOURNAL OF HUMAN GENETICS},\n  volume={73},\n  number={5},\n  pages={422--422},\n  year={2003},\n  organization={UNIV CHICAGO PRESS 1427 E 60TH ST, CHICAGO, IL 60637-2954 USA}\n}\n\n
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@article{niu2002bayesian,\n  title={Bayesian haplotype inference for multiple linked single-nucleotide polymorphisms},\n  author={Niu, Tianhua and Qin, Zhaohui S and Xu, Xiping and Liu, Jun S},\n  journal={The American Journal of Human Genetics},\n  volume={70},\n  number={1},\n  pages={157--169},\n  year={2002},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Partition-ligation–expectation-maximization algorithm for haplotype inference with single-nucleotide polymorphisms.\n \n \n \n\n\n \n Qin, Z. S; Niu, T.; and Liu, J. S\n\n\n \n\n\n\n American journal of human genetics, 71(5): 1242. 2002.\n \n\n\n\n
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@article{qin2002partition,\n  title={Partition-ligation--expectation-maximization algorithm for haplotype inference with single-nucleotide polymorphisms},\n  author={Qin, Zhaohui S and Niu, Tianhua and Liu, Jun S},\n  journal={American journal of human genetics},\n  volume={71},\n  number={5},\n  pages={1242},\n  year={2002},\n  publisher={Elsevier}\n}\n\n
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@inproceedings{niu2002haplotype,\n  title={Haplotype inference and its application in linkage disequilibrium mapping},\n  author={Niu, Tianhua and Lu, Xin and Kang, Hosung and Qin, Zhaohui S and Liu, Jun S},\n  booktitle={RECOMB Workshop on Computational Methods for SNPs and Haplotype Inference},\n  pages={48--61},\n  year={2002},\n  organization={Springer, Berlin, Heidelberg}\n}\n\n
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\n \n\n \n \n \n \n \n Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data.\n \n \n \n\n\n \n Zhang, K.; Chen, T.; Waterman, M. S; Qin, Z. S; Liu, J. S; and Sun, F.\n\n\n \n\n\n\n In RECOMB Workshop on Computational Methods for SNPs and Haplotype Inference, pages 96–112, 2002. Springer, Berlin, Heidelberg\n \n\n\n\n
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@inproceedings{zhang2002dynamic,\n  title={Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data},\n  author={Zhang, Kui and Chen, Ting and Waterman, Michael S and Qin, Zhaohui S and Liu, Jun S and Sun, Fengzhu},\n  booktitle={RECOMB Workshop on Computational Methods for SNPs and Haplotype Inference},\n  pages={96--112},\n  year={2002},\n  organization={Springer, Berlin, Heidelberg}\n}\n\n
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\n \n\n \n \n \n \n \n Bayesian classification for genome-wide control using multiple unlinked haplotype blocks.\n \n \n \n\n\n \n Niu, T; Qin, Z.; and Liu, J.\n\n\n \n\n\n\n In AMERICAN JOURNAL OF HUMAN GENETICS, volume 71, pages 578–578, 2002. UNIV CHICAGO PRESS 1427 E 60TH ST, CHICAGO, IL 60637-2954 USA\n \n\n\n\n
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@inproceedings{niu2002bayesian,\n  title={Bayesian classification for genome-wide control using multiple unlinked haplotype blocks.},\n  author={Niu, T and Qin, ZS and Liu, JS},\n  booktitle={AMERICAN JOURNAL OF HUMAN GENETICS},\n  volume={71},\n  number={4},\n  pages={578--578},\n  year={2002},\n  organization={UNIV CHICAGO PRESS 1427 E 60TH ST, CHICAGO, IL 60637-2954 USA}\n}\n\n
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\n \n\n \n \n \n \n \n Letters to the Editor-Partition-Ligation-Expectation-Maximization Algorithm for Haplotype Inference with Single-Nucleotide Polymorphisms.\n \n \n \n\n\n \n Qin, Z. S; Niu, T.; and Liu, J. S\n\n\n \n\n\n\n American Journal of Human Genetics, 71(5): 1242–1246. 2002.\n \n\n\n\n
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@article{qin2002letters,\n  title={Letters to the Editor-Partition-Ligation-Expectation-Maximization Algorithm for Haplotype Inference with Single-Nucleotide Polymorphisms},\n  author={Qin, Zhaohui S and Niu, Tianhua and Liu, Jun S},\n  journal={American Journal of Human Genetics},\n  volume={71},\n  number={5},\n  pages={1242--1246},\n  year={2002},\n  publisher={Chicago: University of Chicago Press, 1949-}\n}\n\n
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@article{qin2001multipoint,\n  title={Multipoint Metropolis method with application to hybrid Monte Carlo},\n  author={Qin, Zhaohui S and Liu, Jun S},\n  journal={Journal of Computational Physics},\n  volume={172},\n  number={2},\n  pages={827--840},\n  year={2001},\n  publisher={Academic Press}\n}\n\n
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@article{chen2001exploring,\n  title={Exploring hybrid monte carlo in bayesian computation},\n  author={Chen, Lingyu and Qin, Zhaohui and Liu, Jun S},\n  journal={sigma},\n  volume={2},\n  pages={2--5},\n  year={2001}\n}\n\n
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@article{singhand,\n  title={and Stephen Dalton},\n  author={Singh, Amar M and Sun, Yuhua and Li, Li and Zhang, Wenjuan and Wu, Tianming and Zhao, Shaying and Qin, Zhaohui}\n}\n\n
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