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2020 – today
- 2024
[j11]Simon Warchol
, Jakob Troidl, Jeremy Muhlich, Robert Krüger, John Hoffer, Tica Lin, Johanna Beyer, Elena L. Glassman, Peter K. Sorger, Hanspeter Pfister:
psudo: Exploring Multi-Channel Biomedical Image Data with Spatially and Perceptually Optimized Pseudocoloring. Comput. Graph. Forum 43(3) (2024)- 2023
- [j10]Simon Warchol, Robert Krüger, Ajit Johnson Nirmal, Giorgio Gaglia, Jared Jessup, Cecily C. Ritch, John Hoffer, Jeremy Muhlich, Megan L. Burger, Tyler Jacks, Sandro Santagata, Peter K. Sorger, Hanspeter Pfister:
Visinity: Visual Spatial Neighborhood Analysis for Multiplexed Tissue Imaging Data. IEEE Trans. Vis. Comput. Graph. 29(1): 106-116 (2023) - 2022
- [j9]Jeremy Muhlich, Yu-An Chen, Clarence Han-Wei Yapp, Douglas Russell, Sandro Santagata, Peter K. Sorger:
Stitching and registering highly multiplexed whole-slide images of tissues and tumors using ASHLAR. Bioinform. 38(19): 4613-4621 (2022) - [j8]Jared Jessup, Robert Krüger, Simon Warchol, John Hoffer, Jeremy Muhlich, Cecily C. Ritch, Giorgio Gaglia, Shannon Coy, Yu-An Chen, Jia-Ren Lin, Sandro Santagata, Peter K. Sorger, Hanspeter Pfister:
Scope2Screen: Focus+Context Techniques for Pathology Tumor Assessment in Multivariate Image Data. IEEE Trans. Vis. Comput. Graph. 28(1): 259-269 (2022) - 2021
- [i1]Jared Jessup, Robert Krüger, Simon Warchol, John Hoffer, Jeremy Muhlich, Cecily C. Ritch, Giorgio Gaglia, Shannon Coy, Yu-An Chen, Jia-Ren Lin, Sandro Santagata, Peter K. Sorger, Hanspeter Pfister:
Scope2Screen: Focus+Context Techniques for Pathology Tumor Assessment in Multivariate Image Data. CoRR abs/2110.04875 (2021) - 2020
- [j7]John Hoffer, Rumana Rashid, Jeremy Muhlich, Yu-An Chen, Douglas Russell, Juha Ruokonen, Robert Krüger, Hanspeter Pfister, Sandro Santagata, Peter K. Sorger:
Minerva: a light-weight, narrative image browser for multiplexed tissue images. J. Open Source Softw. 5(54): 2579 (2020) - [j6]Behrouz Shamsaei, Szymon Chojnacki, Marcin Pilarczyk, Mehdi Fazel-Najafabadi, Wen Niu, Chuming Chen, Karen Ross, Andrea Matlock, Jeremy Muhlich, Somchai Chutipongtanate, Jie Zheng, John Turner, Dusica Vidovic, Jake Jaffe, Michael J. MacCoss, Cathy Wu, Ajay Pillai, Avi Ma'ayan, Stephan C. Schürer, Michal Kouril, Mario Medvedovic, Jarek Meller:
piNET: a versatile web platform for downstream analysis and visualization of proteomics data. Nucleic Acids Res. 48(Webserver-Issue): W85-W93 (2020)
2010 – 2019
- 2014
- [j5]Qiaonan Duan, Corey Flynn, Mario Niepel, Marc Hafner, Jeremy Muhlich, Nicolas F. Fernandez, Andrew D. Rouillard, Christopher M. Tan, Edward Y. Chen, Todd R. Golub, Peter K. Sorger, Aravind Subramanian, Avi Ma'ayan:
LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures. Nucleic Acids Res. 42(Webserver-Issue): 449-460 (2014) - 2010
- [j4]Andrew N. Tolopko, John P. Sullivan, Sean D. Erickson, David Wrobel, Su L. Chiang, Katrina Rudnicki, Stewart Rudnicki, Jennifer Nale, Laura M. Selfors, Dara Greenhouse, Jeremy Muhlich, Caroline E. Shamu:
Screensaver: an open source lab information management system (LIMS) for high throughput screening facilities. BMC Bioinform. 11: 260 (2010)
2000 – 2009
- 2009
- [j3]Bree B. Aldridge, Julio Saez-Rodriguez, Jeremy Muhlich, Peter K. Sorger, Douglas A. Lauffenburger:
Fuzzy Logic Analysis of Kinase Pathway Crosstalk in TNF/EGF/Insulin-Induced Signaling. PLoS Comput. Biol. 5(4) (2009) - 2008
- [j2]Julio Saez-Rodriguez, Arthur Goldsipe, Jeremy Muhlich, Leonidas G. Alexopoulos, Bjorn Millard, Douglas A. Lauffenburger, Peter K. Sorger:
Flexible informatics for linking experimental data to mathematical models via DataRail. Bioinform. 24(6): 840-847 (2008) - [j1]Kathleen Petri Seiler, Gregory A. George, Mary Pat Happ, Nicole E. Bodycombe, Hyman A. Carrinski, Stephanie Norton, Steve Brudz, John P. Sullivan, Jeremy Muhlich, Martin Serrano, Paul Ferraiolo, Nicola J. Tolliday, Stuart L. Schreiber, Paul A. Clemons:
ChemBank: a small-molecule screening and cheminformatics resource database. Nucleic Acids Res. 36(Database-Issue): 351-359 (2008)
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