Author

Nina C. Nishiyama

University of North Carolina at Chapel HillORCID 0000-0003-2731-1987Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genomics· 3 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 4 Research Focus:differential expression· 3 Organism:human· 3 Approach:statistical model· 3 Research Focus:gene regulatory network inference· 2 Research Focus:benchmarking· 1 Assay:DNA methylation· 1 Approach:machine learning (classical)· 1

Frequent Co-Authors

Caroline Beasley· 3 shared Grace LianiD· 3 shared Matthew R. SchaneriD· 3 shared Meaghan M. Kennedy NgiD· 3 shared Shehzad Z. SheikhiD· 3 shared Terrence S. FureyiD· 3 shared Gwen W. Lau· 2 shared Muneera Rehana KapadiaiD· 2 shared

Activity by Year

2021-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersGenomics

Caroline Beasley

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4 papers

Recent·Most cited

GenomicsScientific ReportsPeer-reviewedMay 25, 2026

Reference-guided Genome Assembly of Long Non-coding RNA Transcripts reveals Target Genes Associated With Crohn's Disease

Meaghan M. Kennedy Ng, Sophie Silverstein, Nina C. Nishiyama…·Terrence S. Furey

The paper identifies differentially expressed lncRNAs in Crohn's disease using genome-guided RNA-seq and links them to nearby protein-coding genes involved in immune response and tissue regeneration.

DOI 10.1038/s41598-026-54788-3

humanbulk RNA-seq

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GenomicsbioRxivPreprintOct 14, 2024

eQTL in diseased colon tissue identifies novel target genes associated with IBD

Nina C. Nishiyama, Sophie Silverstein, Kimberly Darlington…·Terrence S. Furey

The paper identifies novel target genes associated with IBD by analyzing eQTL in diseased colon tissue and comparing them to non-IBD eQTL.

DOI 10.1101/2024.10.14.618229

humanbulk RNA-seq

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BioinformaticsScientific ReportsPeer-reviewedFeb 1, 2024

Linking Gene Expression to Clinical Outcomes in Pediatric Crohn's Disease Using Machine Learning

Kevin A. Chen, Nina C. Nishiyama, Meaghan M. Kennedy Ng…·Shehzad Z. Sheikh

The paper uses machine learning to predict clinical outcomes in pediatric Crohn's disease by analyzing gene expression from ileal and colonic tissues.

10 citations

humanbulk RNA-seq

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GenomicsPrecision Clinical MedicinePeer-reviewedMay 17, 2021

Spaceflight decelerates the epigenetic clock orchestrated with a global alteration in DNA methylome and transcriptome in the mouse retina

Zhong Chen, Seta Stanbouly, Nina C. Nishiyama…·Charles Wang

This study shows spaceflight alters the DNA methylome and transcriptome in mouse retinas, slowing the epigenetic clock and affecting disease-related pathways.

18 citations

mouseDNA methylation

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