Author

Sachin Mathur

Sanofi (France)ORCID 0009-0008-9899-0458Unclaimed ORCID profile · follow to get notified of new preprints

Additional preprints under this name without ORCID

Sachin Mathur1 paper · Singapore General Hospital

Biology Disciplines

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Bioinformatics· 3

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Organism:human· 2 Research Focus:trajectory inference· 2 Approach:deep learning· 1 Research Focus:gene regulatory network inference· 1 Approach:large language model· 1 Assay:scRNA-seq· 1 Approach:variational autoencoder· 1

Frequent Co-Authors

Peyman PassbaniD· 3 shared Ziv Bar‐JosephiD· 2 shared Alexander KaganiD· 1 shared Andre Kurlovs· 1 shared Arnau Giribet· 1 shared C. Zhang· 1 shared David M. HabieliD· 1 shared Euxhen HasanajiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 25 mutual co-author links

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3 shared papersBioinformatics

Peyman PassbanORCID

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3 papers

Recent·Most cited

BioinformaticsBioinformaticsPeer-reviewedAug 27, 2026

Finetuning Foundation Models for Temporal Clinical Transcriptomics Data

Sachin Mathur, Alexander Kagan, Peyman Passban…·Ziv Bar‐Joseph

The paper finetunes gene embeddings from foundation models for temporal clinical transcriptomics data, improving gene network analysis and detection of disease progression and drug response mechanisms.

DOI 10.1093/bioinformatics/btag640

humanbulk RNA-seq

𝕏 PostBluesky

BioinformaticsbioRxivPreprintDec 11, 2025

Identification of Patient Trajectories in Timeseries Clinical Transcriptomics Data

Yixin Chen, Peyman Passban, Mahesh Raundhal…·Sachin Mathur

The paper introduces a classification-guided autoencoder to analyze longitudinal transcriptomics data and identify patient trajectories in clinical trials.

DOI 10.64898/2025.12.04.692308

humanbulk RNA-seq

𝕏 PostBluesky

BioinformaticsBioinformaticsPeer-reviewedMar 29, 2025

PyEvoCell: An LLM- Augmented Single Cell Trajectory Analysis Dashboard

Sachin Mathur, Mathieu Beauvais, Arnau Giribet…·Peyman Passban

PyEvoCell uses an LLM to aid in interpreting single-cell trajectory analysis by suggesting lineages, performing differential expression analysis, and validating hypotheses with PubMed citations.

4 citations

scRNA-seqlarge language model

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