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\n \n 2022\n \n \n (3)\n \n \n
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\n\n \n \n \n \n \n \n Modeling and measuring glucose diffusion and consumption by colorectal cancer spheroids in hanging drops using integrated biosensors.\n \n \n \n \n\n\n \n Rousset, N.; Sandoval, R. L.; Modena, M. M.; Hierlemann, A.; and Misun, P. M\n\n\n \n\n\n\n
Microsystems & nanoengineering, 8(1): 1–18. 2022.\n
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@article{rousset2022modeling,\n title={Modeling and measuring glucose diffusion and consumption by colorectal cancer spheroids in hanging drops using integrated biosensors},\n author={Rousset, Nassim and Sandoval, Rub{\\'e}n L{\\'o}pez and Modena, Mario Matteo and Hierlemann, Andreas and Misun, Patrick M},\n journal={Microsystems \\& nanoengineering},\n volume={8},\n number={1},\n pages={1--18},\n year={2022},\n publisher={Nature Publishing Group},\n doi = {10.1038/s41378-021-00348-w},\n URL = {https://doi.org/10.1038/s41378-021-00348-w},\n eprint = {https://doi.org/10.1038/s41378-021-00348-w}\n}\n\n
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\n\n \n \n \n \n \n \n Live cell microscopy: From image to insight.\n \n \n \n \n\n\n \n Cuny, A. P.; Schlottmann, F. P.; Ewald, J. C.; Pelet, S.; and Schmoller, K. M.\n\n\n \n\n\n\n
Biophysics Reviews, 3(2): 021302. 2022.\n
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@article{cuny2022live,\nauthor = {Cuny,Andreas P. and Schlottmann,Fabian P. and Ewald,Jennifer C. and Pelet,Serge and Schmoller,Kurt M. },\ntitle = {Live cell microscopy: From image to insight},\njournal = {Biophysics Reviews},\nvolume = {3},\nnumber = {2},\npages = {021302},\nyear = {2022},\npublisher={AIP Publishing LLC},\ndoi = {10.1063/5.0082799},\nURL = {https://doi.org/10.1063/5.0082799},\neprint = {https://doi.org/10.1063/5.0082799}\n}\n\n
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\n \n 2021\n \n \n (4)\n \n \n
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\n\n \n \n \n \n \n \n Permeation Studies across Symmetric and Asymmetric Membranes in Microdroplet Arrays.\n \n \n \n \n\n\n \n Bachler, S.; Ort, M.; Krämer, S. D; and Dittrich, P. S\n\n\n \n\n\n\n
Analytical chemistry, 93(12): 5137–5144. 2021.\n
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@article{bachler2021permeation,\n title={Permeation Studies across Symmetric and Asymmetric Membranes in Microdroplet Arrays},\n author={Bachler, Simon and Ort, Marion and Krämer, Stefanie D and Dittrich, Petra S},\n journal={Analytical chemistry},\n volume={93},\n number={12},\n pages={5137--5144},\n year={2021},\n publisher={ACS Publications},\n doi = {10.1021/acs.analchem.0c04939},\n URL = {https://doi.org/10.1021/acs.analchem.0c04939},\n eprint = {https://doi.org/10.1021/acs.analchem.0c04939}\n}\n\n
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\n\n \n \n \n \n \n \n Rapid prototyping and design of cybergenetic single-cell controllers.\n \n \n \n \n\n\n \n Kumar, S.; Rullan, M.; and Khammash, M.\n\n\n \n\n\n\n
Nature communications, 12(1): 1–13. 2021.\n
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@article{kumar2021rapid,\n title={Rapid prototyping and design of cybergenetic single-cell controllers},\n author={Kumar, Sant and Rullan, Marc and Khammash, Mustafa},\n journal={Nature communications},\n volume={12},\n number={1},\n pages={1--13},\n year={2021},\n publisher={Nature Publishing Group},\n doi = {10.1038/s41467-021-25754-6},\n URL = {https://doi.org/10.1038/s41467-021-25754-6},\n eprint = {https://doi.org/10.1038/s41467-021-25754-6}\n}\n\n
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\n\n \n \n \n \n \n \n Cell region fingerprints enable highly precise single-cell tracking and lineage reconstruction.\n \n \n \n \n\n\n \n Cuny, A. P; Ponti, A.; Kündig, T.; Rudolf, F.; and Stelling, J.\n\n\n \n\n\n\n
bioRxiv. 2021.\n
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@article{cuny2021cell,\n title={Cell region fingerprints enable highly precise single-cell tracking and lineage reconstruction},\n author={Cuny, Andreas P and Ponti, Aaron and K{\\"u}ndig, Tomas and Rudolf, Fabian and Stelling, J{\\"o}rg},\n journal={bioRxiv},\n year={2021},\n publisher={Cold Spring Harbor Laboratory},\n doi = {10.1101/2021.10.26.465883},\n URL = {https://doi.org/10.1101/2021.10.26.465883},\n eprint = {https://doi.org/10.1101/2021.10.26.465883}\n}\n\n
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\n \n 2020\n \n \n (7)\n \n \n
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\n\n \n \n \n \n \n \n DeLTA: Automated cell segmentation, tracking, and lineage reconstruction using deep learning.\n \n \n \n \n\n\n \n Lugagne, J.; Lin, H.; and Dunlop, M. J\n\n\n \n\n\n\n
PLoS computational biology, 16(4): e1007673. 2020.\n
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@article{lugagne2020delta,\n title={DeLTA: Automated cell segmentation, tracking, and lineage reconstruction using deep learning},\n author={Lugagne, Jean-Baptiste and Lin, Haonan and Dunlop, Mary J},\n journal={PLoS computational biology},\n volume={16},\n number={4},\n pages={e1007673},\n year={2020},\n publisher={Public Library of Science San Francisco, CA USA},\n doi = {10.1371/journal.pcbi.1007673},\n URL = {https://doi.org/10.1371/journal.pcbi.1007673},\n eprint = {https://doi.org/10.1371/journal.pcbi.1007673}\n}\n\n
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\n\n \n \n \n \n \n \n Preventing photomorbidity in long-term multi-color fluorescence imaging of Saccharomyces cerevisiae and S. pombe.\n \n \n \n \n\n\n \n Schmidt, G. W; Cuny, A. P; and Rudolf, F.\n\n\n \n\n\n\n
G3: Genes, Genomes, Genetics, 10(12): 4373–4385. 2020.\n
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@article{schmidt2020preventing,\n title={Preventing photomorbidity in long-term multi-color fluorescence imaging of Saccharomyces cerevisiae and S. pombe},\n author={Schmidt, Gregor W and Cuny, Andreas P and Rudolf, Fabian},\n journal={G3: Genes, Genomes, Genetics},\n volume={10},\n number={12},\n pages={4373--4385},\n year={2020},\n publisher={Oxford University Press},\n doi = {10.1534/g3.120.401465},\n URL = {https://doi.org/10.1534/g3.120.401465},\n eprint = {https://doi.org/10.1534/g3.120.401465}\n}\n\n
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\n\n \n \n \n \n \n Biological patterning in networks of interacting cells.\n \n \n \n\n\n \n Perkins, M. L.\n\n\n \n\n\n\n Ph.D. Thesis, 2020.\n
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@phdthesis{perkins2020biological,\n title={Biological patterning in networks of interacting cells},\n author={Perkins, Melinda Liu},\n year={2020},\n publisher={University of California, Berkeley}\n}\n\n
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\n \n 2019\n \n \n (2)\n \n \n
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\n\n \n \n \n \n \n \n A simple and flexible computational framework for inferring sources of heterogeneity from single-cell dynamics.\n \n \n \n \n\n\n \n Dharmarajan, L.; Kaltenbach, H.; Rudolf, F.; and Stelling, J.\n\n\n \n\n\n\n
Cell systems, 8(1): 15–26. 2019.\n
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@article{dharmarajan2019simple,\n title={A simple and flexible computational framework for inferring sources of heterogeneity from single-cell dynamics},\n author={Dharmarajan, Lekshmi and Kaltenbach, Hans-Michael and Rudolf, Fabian and Stelling, Joerg},\n journal={Cell systems},\n volume={8},\n number={1},\n pages={15--26},\n year={2019},\n publisher={Elsevier},\n doi = {10.1016/j.cels.2018.12.007},\n URL = {https://doi.org/10.1016/j.cels.2018.12.007},\n eprint = {https://doi.org/10.1016/j.cels.2018.12.007}\n}\n\n
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\n \n 2018\n \n \n (4)\n \n \n
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\n\n \n \n \n \n \n \n The CellClamper: a convenient microfluidic device for time-lapse imaging of yeast.\n \n \n \n \n\n\n \n Schmidt, G. W; Frey, O.; and Rudolf, F.\n\n\n \n\n\n\n In
Genome Instability, pages 537–555. Springer, 2018.\n
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@incollection{schmidt2018cellclamper,\n title={The CellClamper: a convenient microfluidic device for time-lapse imaging of yeast},\n author={Schmidt, Gregor W and Frey, Olivier and Rudolf, Fabian},\n booktitle={Genome Instability},\n pages={537--555},\n year={2018},\n publisher={Springer},\n doi = {10.1007/978-1-4939-7306-4_36},\n URL = {https://doi.org/10.1007/978-1-4939-7306-4_36},\n eprint = {https://doi.org/10.1007/978-1-4939-7306-4_36}\n}\n\n
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\n\n \n \n \n \n \n \n Fabrication and operation of microfluidic hanging-drop networks.\n \n \n \n \n\n\n \n Misun, P. M; Birchler, A. K; Lang, M.; Hierlemann, A.; and Frey, O.\n\n\n \n\n\n\n In
Cell-Based Microarrays, pages 183–202. Springer, 2018.\n
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@incollection{misun2018fabrication,\n title={Fabrication and operation of microfluidic hanging-drop networks},\n author={Misun, Patrick M and Birchler, Axel K and Lang, Moritz and Hierlemann, Andreas and Frey, Olivier},\n booktitle={Cell-Based Microarrays},\n pages={183--202},\n year={2018},\n publisher={Springer},\n doi = {10.1007/978-1-4939-7792-5_15},\n URL = {https://doi.org/10.1007/978-1-4939-7792-5_15},\n eprint = {https://doi.org/10.1007/978-1-4939-7792-5_15}\n}\n\n
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\n \n 2017\n \n \n (3)\n \n \n
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\n\n \n \n \n \n \n \n Optogenetic single-cell control of transcription achieves mrna tunability and reduced variability.\n \n \n \n \n\n\n \n Rullan, M.; Benzinger, D.; Schmidt, G. W; Gupta, A.; Milias-Argeitis, A.; and Khammash, M.\n\n\n \n\n\n\n
BioRxiv,142893. 2017.\n
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@article{rullan2017optogenetic,\n title={Optogenetic single-cell control of transcription achieves mrna tunability and reduced variability},\n author={Rullan, Marc and Benzinger, Dirk and Schmidt, Gregor W and Gupta, Ankit and Milias-Argeitis, Andreas and Khammash, Mustafa},\n journal={BioRxiv},\n pages={142893},\n year={2017},\n publisher={Cold Spring Harbor Laboratory},\n doi = {10.1016/j.molcel.2018.04.012},\n URL = {https://doi.org/10.1016/j.molcel.2018.04.012},\n eprint = {https://doi.org/10.1016/j.molcel.2018.04.012}\n}\n\n
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\n\n \n \n \n \n \n 3D High-content screening of organoids for drug discovery.\n \n \n \n\n\n \n Li, L; and LaBarbera, D.\n\n\n \n\n\n\n . 2017.\n
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@article{li20173d,\n title={3D High-content screening of organoids for drug discovery},\n author={Li, L and LaBarbera, DV},\n year={2017},\n publisher={Elsevier}\n}\n\n
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\n\n \n \n \n \n \n \n Microfluidic hydrogel hanging-drop network for high-resolution microscopy of 3D microtissues.\n \n \n \n \n\n\n \n Aeby, E. A; Misun, P. M; Müller, M.; Renggli, K.; Hierlemann, A.; and Frey, O.\n\n\n \n\n\n\n In
2017 19th International Conference on Solid-State Sensors, Actuators and Microsystems (TRANSDUCERS), pages 269–272, 2017. IEEE\n
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@inproceedings{aeby2017microfluidic,\n title={Microfluidic hydrogel hanging-drop network for high-resolution microscopy of 3D microtissues},\n author={Aeby, Elise A and Misun, Patrick M and M{\\"u}ller, Marius and Renggli, Kasper and Hierlemann, Andreas and Frey, Olivier},\n booktitle={2017 19th International Conference on Solid-State Sensors, Actuators and Microsystems (TRANSDUCERS)},\n pages={269--272},\n year={2017},\n organization={IEEE},\n doi = {10.1002/adbi.201800054},\n URL = {https://doi.org/10.1002/adbi.201800054},\n eprint = {https://doi.org/10.1002/adbi.201800054}\n}\n\n
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\n \n 2016\n \n \n (2)\n \n \n
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\n\n \n \n \n \n \n \n Challenges in long-term imaging and quantification of single-cell dynamics.\n \n \n \n \n\n\n \n Skylaki, S.; Hilsenbeck, O.; and Schroeder, T.\n\n\n \n\n\n\n
Nature Biotechnology, 34(11): 1137–1144. 2016.\n
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@article{skylaki2016challenges,\n title={Challenges in long-term imaging and quantification of single-cell dynamics},\n author={Skylaki, Stavroula and Hilsenbeck, Oliver and Schroeder, Timm},\n journal={Nature Biotechnology},\n volume={34},\n number={11},\n pages={1137--1144},\n year={2016},\n publisher={Nature Publishing Group},\n doi = {10.1038/nbt.3713},\n URL = {https://doi.org/10.1038/nbt.3713},\n eprint = {https://doi.org/10.1038/nbt.3713}\n}\n\n
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\n\n \n \n \n \n \n \n A shuttle vector series for precise genetic engineering of Saccharomyces cerevisiae.\n \n \n \n \n\n\n \n Gnügge, R.; Liphardt, T.; and Rudolf, F.\n\n\n \n\n\n\n
Yeast, 33(3): 83–98. 2016.\n
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@article{gnugge2016shuttle,\n title={A shuttle vector series for precise genetic engineering of Saccharomyces cerevisiae},\n author={Gn{\\"u}gge, Robert and Liphardt, Thomas and Rudolf, Fabian},\n journal={Yeast},\n volume={33},\n number={3},\n pages={83--98},\n year={2016},\n publisher={Wiley Online Library},\n doi = {10.1002/yea.3144},\n URL = {https://doi.org/10.1002/yea.3144},\n eprint = {https://doi.org/10.1002/yea.3144}\n}\n\n
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\n \n 2015\n \n \n (1)\n \n \n
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\n\n \n \n \n \n \n \n Engineering of synthetic gene regulatory networks in Saccharomyces cerevisiae.\n \n \n \n \n\n\n \n Gnügge, R. J.\n\n\n \n\n\n\n Ph.D. Thesis, ETH Zurich, 2015.\n
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Paper\n \n \n\n \n \n doi\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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@phdthesis{gnugge2015engineering,\n title={Engineering of synthetic gene regulatory networks in Saccharomyces cerevisiae},\n author={Gn{\\"u}gge, Robert Julius},\n year={2015},\n school={ETH Zurich},\n doi = {10.3929/ethz-a-010603388},\n URL = {https://doi.org/10.3929/ethz-a-010603388},\n eprint = {https://doi.org/10.3929/ethz-a-010603388}\n}\n\n
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\n \n 2013\n \n \n (2)\n \n \n
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\n\n \n \n \n \n \n \n Probing cellular processes by long-term live imaging–historic problems and current solutions.\n \n \n \n \n\n\n \n Coutu, D. L; and Schroeder, T.\n\n\n \n\n\n\n
Journal of cell science, 126(17): 3805–3815. 2013.\n
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@article{coutu2013probing,\n title={Probing cellular processes by long-term live imaging--historic problems and current solutions},\n author={Coutu, Daniel L and Schroeder, Timm},\n journal={Journal of cell science},\n volume={126},\n number={17},\n pages={3805--3815},\n year={2013},\n publisher={The Company of Biologists Bidder Building, 140 Cowley Road, Cambridge},\n doi = {10.1242/jcs.118349},\n URL = {https://doi.org/10.1242/jcs.118349},\n eprint = {https://doi.org/10.1242/jcs.118349}\n}\n\n
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\n\n \n \n \n \n \n \n Implementation of a closed-loop microscopy pipeline to stitch and segment images of growing cell populations.\n \n \n \n \n\n\n \n Kumar, S. K. S.\n\n\n \n\n\n\n Master's thesis, ETH Zurich, 2013.\n
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@mastersthesis{kumar2013implementation,\n title={Implementation of a closed-loop microscopy pipeline to stitch and segment images of growing cell populations},\n author={Kumar, Sri Krishna Suresh},\n year={2013},\n school={ETH Zurich},\n doi = {10.3929/ethz-a-009935780},\n URL = {https://doi.org/10.3929/ethz-a-009935780},\n eprint = {https://doi.org/10.3929/ethz-a-009935780}\n}\n\n
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\n\n \n\n \n\n \n link\n \n \n\n bibtex\n \n\n \n\n \n \n \n 9 downloads\n \n \n\n \n \n \n \n \n \n \n\n \n \n \n\n\n\n
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