Author

Payman Nickchi

Institute for Research in Fundamental SciencesORCID 0000-0003-0477-7987Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Systems Biology· 2 Bioinformatics· 1 Genetics· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Approach:benchmark study· 1 Research Focus:database / resource· 1 Research Focus:drug response / drug discovery· 1 Research Focus:fine-mapping· 1 Assay:GWAS summary statistics· 1 Organism:human· 1 Research Focus:protein design· 1

Frequent Co-Authors

Mohieddin JafariiD· 3 shared Mehdi MirzaieiD· 2 shared Abdollah Safari· 1 shared Amir Reza ArefiD· 1 shared Charith Karunarathna· 1 shared Farnaz BarnehiD· 1 shared Fatemeh GoshadrouiD· 1 shared Hala ArariD· 1 shared

Activity by Year

2018-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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3 shared papersSystems Biology

Mohieddin JafariORCID

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4 papers

Recent·Most cited

BioinformaticsbioRxivPreprintNov 3, 2025

SOORENA: Self-lOOp containing or autoREgulatory Nodes in biological network Analysis

Hala Arar, Jehad Aldahdooh, Payman Nickchi, Mohieddin Jafari

SOORENA identifies autoregulatory mechanisms in biological networks by analyzing PubMed abstracts, finding 97,657 protein-specific records and generating a curated database.

DOI 10.1101/2025.11.03.685842

transformer / foundation modeldatabase / resource

𝕏 PostBluesky

GeneticsGenetic EpidemiologyPeer-reviewedSep 1, 2022

An exploration of linkage fine-mapping on sequences from case-control studies

Payman Nickchi, Charith Karunarathna, Jinko Graham

This paper explores sequence-based linkage analysis for fine-mapping disease traits, showing improved localization compared to genotypic-association methods for rare variants.

1 citation

GWAS summary statisticsstatistical model

𝕏 PostBluesky

Systems BiologyBMC BioinformaticsPeer-reviewedFeb 12, 2019

IMMAN: an R/Bioconductor package for Interolog protein network reconstruction, Mapping and Mining ANalysis

Minoo Ashtiani, Payman Nickchi, Soheil Jahangiri…·Mohieddin Jafari

IMMAN is an R/Bioconductor package that reconstructs interolog protein networks by integrating PPINs and enables conservation analysis across species for protein function prediction.

2 citations

protein sequencestatistical model

𝕏 PostBluesky

Systems BiologyBriefings in BioinformaticsPeer-reviewedMar 23, 2018

A Rational Drug Combination Design to Inhibit Epithelial-Mesenchymal Transition in a Three-Dimensional Microenvironment

Farnaz Barneh, Mehdi Mirzaie, Payman Nickchi…·Mohieddin Jafari

The paper designs a drug combination to inhibit EMT in a 3D microenvironment by targeting histone deacetylases, SRC, and IKBK, showing effectiveness in a microfluidic model.

20 citations

humanproteomics

𝕏 PostBluesky