Author

Patrick Joseph Grohar

Children's Hospital of PhiladelphiaORCID 0000-0002-1071-4563Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Cancer Biology· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Research Focus:differential expression· 3 Organism:human· 3 Research Focus:cell type annotation· 2 Research Focus:gene regulatory network inference· 2 Assay:ChIP-seq· 1 Approach:deep learning· 1 Research Focus:dimensionality reduction· 1

Frequent Co-Authors

Alina Ritter· 1 shared Alyaa Al‐IbraheemiiD· 1 shared Ana BanitoiD· 1 shared Ariel McShaneiD· 1 shared Armin JaroschiD· 1 shared Ayesha BatooliD· 1 shared Azhar Orynbek· 1 shared Benjamin Friedrich Berthold MayeriD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 14 mutual co-author links

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1 shared paperCancer Biology

Alina Ritter

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3 papers

Recent·Most cited

Characterizing nascent readthrough transcripts in human cells

Ariel McShane, Ishwarya Venkata Narayanan, Michelle T Paulsen, Hailey Blinkiewicz, Mario Ashaka, Brian Magnuson, Karan Bedi, Nina Yang, Jayendra Prasad, Jefferey N Dudley, Sethuramasundaram Pitchiaya, Emily Seiden, Patrick Grohar, Erez Lieberman Aiden, Thomas E Wilson, Mats Ljungman

The paper identifies widespread readthrough transcription in human cells and shows that depletion of specific factors increases its extent.

bioRxiv · Nov 3, 2026 · PreprintMolecular Biology

Leveraging Large Language Models to Extract Prognostic Pathology Features in Ewing Sarcoma

Jingwei Huang, Ayesha Batool, Zifan Gu, Zhuo Zhao, Bo Yao, Jennifer O. Black, Jessica L. Davis, Alyaa Al‐Ibraheemi, Steven DuBois, Donald A. Barkauskas, Subhash Ramakrishnan, David Hall, Patrick Joseph Grohar, Yang Xie, Guanghua Xiao, Patrick J. Leavey

This paper uses large language models to extract prognostic histologic features from Ewing sarcoma pathology reports, identifying NSE and S100 as significant biomarkers.

bioRxiv · Mar 19, 2026 · PreprintBioinformatics

Super-enhancer-driven CACNA2D2 is an EWSR1::WT1 signature gene encoding a diagnostic marker for desmoplastic small round cell tumor (DSRCT)

Florian H. Geyer, Alina Ritter, Seneca S. Kinn-Gurzo, Tobias Faehling, Jing Li, Armin Jarosch, C. Duong-Ngo, Endrit Vinca, Karim Aljakouch, Azhar Orynbek, Shunya Ohmura, T. Kirchner, Roland Imle, Laura Romero‐Pérez, Juan Díaz‐Martín, , Florencia Cidre‐Aranaz

The paper identifies CACNA2D2 as a super-enhancer-driven target of EWSR1::WT1 and demonstrates its utility as a diagnostic biomarker for DSRCT.

癌症：英文版 · Mar 15, 2025Peer-reviewedCancer Biology