Publications by authors named "Saptarshi Pyne"

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A network-based model of Aspergillus fumigatus elucidates regulators of development and defensive natural products of an opportunistic pathogen.
Cristobal Carrera Carriel, Spencer A Halberg-Spencer, Marina Kotvanova, Saptarshi Pyne, Sung Chul Park

Nucleic Acids Res· January 2026

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Uncovering Functional Gene Regulatory Networks in Bulk and Single-Cell Data through Robust Transcription Factor Activity Estimation and Model-Guided Experimental Validation.
Alireza Fotuhi Siahpirani, Sunnie Grace McCalla, Saptarshi Pyne, Caleb Dillingham, Rupa Sridharan

bioRxiv· July 2025

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Inference of cell type-specific gene regulatory networks on cell lineages from single cell omic datasets.
Shilu Zhang, Saptarshi Pyne, Stefan Pietrzak, Spencer Halberg, Sunnie Grace McCalla

Nat Commun· May 2023

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Identifying strengths and weaknesses of methods for computational network inference from single-cell RNA-seq data.
Sunnie Grace McCalla, Alireza Fotuhi Siahpirani, Jiaxin Li, Saptarshi Pyne, Matthew Stone

G3 (Bethesda)· March 2023

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Rapid Reconstruction of Time-varying Gene Regulatory Networks with Limited Main Memory.
Saptarshi Pyne, Ashish Anand

IEEE/ACM Trans Comput Biol Bioinform· January 2022

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Rapid Reconstruction of Time-Varying Gene Regulatory Networks.
Saptarshi Pyne, Alok Ranjan Kumar, Ashish Anand

IEEE/ACM Trans Comput Biol Bioinform· January 2021

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