Author

Chris McIntosh

University Health NetworkORCID 0000-0003-1371-1250Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:gene regulatory network inference· 2 Assay:imaging· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Research Focus:differential expression· 1 Research Focus:dimensionality reduction· 1

Frequent Co-Authors

Gregory W. SchwartziD· 2 shared Alexander T. BahcheliiD· 1 shared Diogo Vieira da Silva PellegrinaiD· 1 shared Jeffrey C. ToiD· 1 shared Jüri ReimandiD· 1 shared Jyoti MishraiD· 1 shared Kevin C.L. ChengiD· 1 shared Kissy Guevara‐HoyeriD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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2 shared papersBioinformatics

Gregory W. SchwartzORCID

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3 papers

Recent·Most cited

BioinformaticsbioRxivPreprintAug 17, 2026

Longitudinal whole transcriptomic profiling of live cells through domain adaptation

Zhifei Dong, Shreya Mishra, Maha Mohamed Tageldein…·Gregory W. Schwartz

PENNE infers whole-transcriptomic profiles from live-cell images using domain adaptation, capturing temporal gene dynamics and cell-type markers.

DOI 10.64898/2026.08.07.743564

spatial transcriptomicsimaging

𝕏 PostBluesky

Cancer BiologyMolecular Cancer ResearchPeer-reviewedSep 3, 2025

Combinations of genomic alterations and immune microenvironmental features associate with patient survival in multiple cancer types

Masroor Bayati, Zoe P. Klein, Alexander T. Bahcheli…·Jüri Reimand

The paper identifies immunogenomic interactions across 13 cancer types using a multi-omics framework, linking genomic alterations and immune features to patient survival.

3 citations

humanwhole-exome sequencing

𝕏 PostBluesky

BioinformaticsbioRxivPreprintAug 27, 2025

SPAGHETTI leverages massive H\&E morphological models for phase contrast microscopy images with a generative deep learning approach

Zhi Dong, Chris McIntosh, Gregory W. Schwartz

SPAGHETTI translates phase contrast microscopy images into H&E-like images to improve cell segmentation and analysis using existing deep learning models.

DOI 10.1101/2025.08.27.672636

imagingdeep learning

𝕏 PostBluesky