Author

Eliah R. Shamir

GenentechORCID 0000-0002-2417-3294Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Cell Biology· 1 Genomics· 1 Pathology· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 2 Approach:deep learning· 2 Organism:human· 2 Organism:mouse· 2 Assay:ATAC-seq· 1 Research Focus:cell-cell communication· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Adrian M. Filip· 1 shared Avantika LaliD· 1 shared Barbora LavickovaiD· 1 shared Bilgenaz StolliD· 1 shared Charles A. HavnariD· 1 shared Christian W. SiebeliD· 1 shared David Garfield· 1 shared Elisa D’ArcangeloiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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1 shared paperPathology

Adrian M. Filip

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

Deep learning design and in vivo validation of Müller glia-specific cis-regulatory elements

Oriol Fornés, Kyung Duk Koh, Rebecca M. Marton, Jiapei Chen, Kevin A. Marroquin, Gyeong Jin Kang, Avantika Lal, Sören Müller, Gökçen Eraslan, Eliah R. Shamir, Pratiksha I. Thakore, Heinrich Jasper, David Garfield

The paper designs Müller glia-specific cis-regulatory elements using deep learning and validates their function in vivo.

bioRxiv · Jul 21, 2026 · PreprintGenomics

High-throughput histopathology for complex in vitro models

Marius F. Harter, Elisa D’Arcangelo, Julien Aubert, Barbora Lavickova, Charles A. Havnar, Bilgenaz Stoll, Irineja Cubela, Adrian M. Filip, Laura Gaspa-Toneu, Julian Scherer, Evdoxia Karagkiozi, Jean-Samuel Dupré, Rubén López-Sandoval, Rebecca Hsia, Leah M. Norona, , Nikolche Gjorevski

This paper introduces a high-throughput histopathology workflow for complex in vitro models using 3D-printed histomolds, enabling efficient processing and analysis of multiple samples.

Cell Reports Methods · Apr 23, 2026Peer-reviewedPathology

Acute Pericentral Liver Injury Induces a Novel Transient Hepatocyte Population

Syeda Nayab Fatima Abidi, Kerstin Seidel, Ginny Xiaohe Li, Matthew Fernandez, Robert Piskol, Eliah R. Shamir, Christian W. Siebel, Louis Vermeulen

The paper identifies a novel transient SOX9+ pericentral hepatocyte population in acute liver injury that mediates early tissue repair and immune modulation.

bioRxiv · Sep 17, 2025 · PreprintCell Biology