Author

J. L. Muhlich

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Cell Biology· 2 Immunology· 1 Pathology· 1 Scientific Communication & Education· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 3 Assay:spatial transcriptomics· 3 Research Focus:cell-cell communication· 2 Approach:deep learning· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Assay:imaging· 2 Research Focus:software / tool· 2

Frequent Co-Authors

P. K. Sorger· 4 shared S. Santagata· 4 shared H. Pfister· 3 shared J. Hoffer· 3 shared R. Krueger· 3 shared G. J. Baker· 2 shared J.-R. Lin· 2 shared S. Warchol· 2 shared

Activity by Year

2019-2024 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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4 shared papersCell Biology

P. K. Sorger

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Author profile →

5 papers

Recent·Most cited

psudo: Exploring Multi-Channel Biomedical Image Data with Spatially and Perceptually Optimized Pseudocoloring

S. Warchol, J. Troidl, J. L. Muhlich, R. Krueger, J. Hoffer, T. Lin, J. Beyer, E. Glassman, P. K. Sorger, H. Pfister

psudo is an interactive system that optimizes pseudocolor palettes for multichannel biomedical images to enhance perceptual distinction and reduce color confusion in overlapping channels.

bioRxiv · Apr 11, 2024Cell Biology

Quality Control for Single Cell Analysis of High-plex Tissue Profiles using CyLinter

G. J. Baker, E. Novikov, Z. Zhao, T. Vallius, J. A. Davis, J.-R. Lin, J. L. Muhlich, E. A. Mittendorf, S. Santagata, J. L. Guerriero, P. K. Sorger

This paper introduces CyLinter, a quality control tool that removes imaging artefacts from high-plex spatial profiling data, improving single-cell analysis of archival tumor specimens.

bioRxiv · Nov 1, 2023Pathology

Visinity: Visual Spatial Neighborhood Analysis for Multiplexed Tissue Imaging Data

S. Warchol, R. Krueger, A. J. Nirmal, G. Gaglia, J. Jessup, C. C. Ritch, J. Hoffer, J. L. Muhlich, M. Burger, T. L. Jacks, S. Santagata, P. K. Sorger, H. Pfister

Visinity analyzes spatial cell interactions in multiplexed tissue images to identify biological processes and immune-tumor interactions.

bioRxiv · May 9, 2022Cell Biology

Online narrative guides for illuminating tissue atlas data and digital pathology images

R. Rashid, Y.-A. Chen, J. Hoffer, J. L. Muhlich, J.-R. Lin, R. Krueger, H. Pfister, R. Mitchell, S. Santagata, P. Sorger

The paper discusses the need for interactive guides to help interpret complex tissue atlas data and digital pathology images, using Minerva software as an example.

bioRxiv · Mar 27, 2020 · PreprintScientific Communication & Education

Systemic immune response profiling with SYLARAS implicates a role for CD45R/B220+ CD8+ T cells in glioblastoma immunology

G. J. Baker, J. L. Muhlich, S. K. Palaniappan, J. K. Moore, S. H. Davis, S. Santagata, P. K. Sorger

The paper introduces SYLARAS, a tool for immune response profiling, and shows CD45R/B220+ CD8+ T cells are depleted in circulation and accumulate in glioblastoma tumors in mice, with similar cells found in human GBM.

bioRxiv · Oct 22, 2019 · PreprintImmunology