Liang Sun, Qianyi Ma, Chunhui Cai, Maryam Labaf, Ashish Jain, et al. "scDown: A Pipeline for Single-Cell RNA-Seq Downstream Analysis". [IJMS, 2025]
Aakanksha Jain, Benjamin M. Gyori, Sara Hakim, Ashish Jain, et al. Nociceptor-immune interactomes reveal insult-specific immune signatures of pain. [Nature Immunology, 2024]
Annapurna Saksena, Ashish Jain, Svetlana D Pack, Jung Kim, et al. Follicle center lymphoma (FCL) of the lower female genital tract (LFGT): a novel variant of primary cutaneous follicle center lymphoma (PCFCL). [The American journal of surgical pathology, 2023]
Ashish Jain, Mayank Tandon. "MAFDash: An easy-to-use dashboard builder for mutation data". [F1000 Research, 2022]
Regan Scott, Ha Vu, Ashish Jain, Khursheed Iqbal, Geetu Tuteja, Michael J. Soares. "Conservation at the uterine–placental interface". [PNAS, 2022]
Ashish Jain, Geetu Tuteja. "PlacentaCellEnrich: PlacentaCellEnrich: A tool to characterize gene sets using placenta cell-specific gene enrichment analysis". [Placenta, 2020]
Jiude Mao, Ashish Jain, et al. "Bisphenol A and Bisphenol S Disruptions of the Mouse Placenta and Potential Effects on the Placenta-Brain Axis". [PNAS, 2020]
Rebekah Starks, Anilisa Biswas, Ashish Jain, Geetu Tuteja. "Combined analysis of dissimilar promoter accessibility and gene expression profiles identifies tissue-specific genes and actively repressed networks". [Epigenetics & Chromatin, 2019]
Megan A. Sheridan, Ying Yang, Ashish Jain, et al. "Early onset preeclampsia in a model for human placental trophoblast". [PNAS, 2019]
Huy Nguyen, Ashish Jain, Oliver Eulenstein, Iddo Friedberg. "Tracing the Ancestry of Operons in Bacteria". [Bioinformatics, 2019]
Ashish Jain, Geetu Tuteja. "TissueEnrich: Tissue-specific gene enrichment analysis". [Bioinformatics, 2018]
Majd Abdulghani, Ashish Jain, Geetu Tuteja. "Genome-Wide Enhancer Identification in the Placenta". [Placenta, 2018]
Ashish Jain, Toshihiko Ezashi, R. Michael Roberts, Geetu Tuteja. "Deciphering transcriptional regulation in human embryonic stem cells specified towards a trophoblast fate". [Scientific Reports, 2017]
Ashish Jain, Thanh Nguyen, Jake Y. Chen. "SPINNER: Software to Rank and Compare Phenotype-specific Genes in Molecular Networks", Oral Presentation, MCBIOS Annual Conference, Little Rock, AR, USA, 2015.