Jeremy Muhlich

12 papers Journal 12
YearRankTypeTitle / Venue / Authors
2026 J jnl
SEAL: Spatially-resolved Embedding Analysis with Linked Imaging Data.
IEEE Trans. Vis. Comput. Graph.
Simon Warchol, Grace Guo, Johannes Knittel, Dan Freeman, Usha Shalla, Jeremy Muhlich, Peter K. Sorger, Hanspeter Pfister
2024 J jnl
psudo: Exploring Multi-Channel Biomedical Image Data with Spatially and Perceptually Optimized Pseudocoloring.
Comput. Graph. Forum
Simon Warchol, Jakob Troidl, Jeremy Muhlich, Robert Krüger, John Hoffer, Tica Lin, Johanna Beyer, Elena L. Glassman, Peter K. Sorger, Hanspeter Pfister
2023 J jnl
Visinity: Visual Spatial Neighborhood Analysis for Multiplexed Tissue Imaging Data.
IEEE Trans. Vis. Comput. Graph.
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
2022 J jnl
Scope2Screen: Focus+Context Techniques for Pathology Tumor Assessment in Multivariate Image Data.
IEEE Trans. Vis. Comput. Graph.
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
2022 J jnl
Stitching and registering highly multiplexed whole-slide images of tissues and tumors using ASHLAR.
Bioinform.
Jeremy Muhlich, Yu-An Chen, Clarence Han-Wei Yapp, Douglas Russell, Sandro Santagata, Peter K. Sorger
2021 J jnl
Scope2Screen: Focus+Context Techniques for Pathology Tumor Assessment in Multivariate Image Data.
CoRR
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
2020 J jnl
Minerva: a light-weight, narrative image browser for multiplexed tissue images.
J. Open Source Softw.
John Hoffer, Rumana Rashid, Jeremy Muhlich, Yu-An Chen, Douglas Russell, Juha Ruokonen, Robert Krüger, Hanspeter Pfister, Sandro Santagata, Peter K. Sorger
2020 J jnl
piNET: a versatile web platform for downstream analysis and visualization of proteomics data.
Nucleic Acids Res.
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
2014 J jnl
LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures.
Nucleic Acids Res.
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
2010 J jnl
Screensaver: an open source lab information management system (LIMS) for high throughput screening facilities.
BMC Bioinform.
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
2009 J jnl
Fuzzy Logic Analysis of Kinase Pathway Crosstalk in TNF/EGF/Insulin-Induced Signaling.
PLoS Comput. Biol.
Bree B. Aldridge, Julio Saez-Rodriguez, Jeremy Muhlich, Peter K. Sorger, Douglas A. Lauffenburger
2008 J jnl
Flexible informatics for linking experimental data to mathematical models via
Bioinform.
Julio Saez-Rodriguez, Arthur Goldsipe, Jeremy Muhlich, Leonidas G. Alexopoulos, Bjorn Millard, Douglas A. Lauffenburger, Peter K. Sorger