Author

Pradeep Varathan

Indiana University – Purdue University Indianapolis

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Genetic & Genomic Medicine· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

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Organism:human· 3 Assay:bulk RNA-seq· 2 Approach:deep learning· 2 Research Focus:gene regulatory network inference· 2 Assay:GWAS summary statistics· 2 Assay:protein sequence· 2 Research Focus:benchmarking· 1 Research Focus:differential expression· 1

Frequent Co-Authors

Andrew J. SaykiniD· 3 shared Jingwen YaniD· 3 shared Kwangsik T. NhoiD· 3 shared Linhui XieiD· 3 shared Bing HeiD· 2 shared Paul SalamaiD· 2 shared Shannon L. RisacheriD· 1 shared Yash RajiD· 1 shared

Activity by Year

2020-2023 · peak 1/yr

Co-Author Collaboration Network

8 top collaborators · 28 mutual co-author links

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3 shared papersGenetic & Genomic Medicine

Andrew J. SaykinORCID

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3 papers

Recent·Most cited

Deciphering the tissue-specific functional effect of Alzheimer risk SNPs with deep genome annotation

Pradeep Varathan, Linhui Xie, Bing He, Andrew J. Saykin, Kwangsik T. Nho, Jingwen Yan

This study investigates how Alzheimer's risk SNPs affect chromatin functions and how their genomic context influences these effects.

medRxiv · Oct 23, 2023 · PreprintGenetic & Genomic Medicine

Deep trans-omic network fusion reveals altered synaptic network in Alzheimer's Disease

Linhui Xie, Yash Raj, Pradeep Varathan, Bing He, Kwangsik T. Nho, Shannon L. Risacher, Paul Salama, Andrew J. Saykin, Jingwen Yan

The paper introduces MoFNet, a deep neural network that integrates multi-omic data to identify functional subnetworks associated with Alzheimer's Disease, showing replication in an independent cohort.

bioRxiv · May 2, 2022 · PreprintSystems Biology

Identification of functionally connected multi-omic biomarkers for Alzheimer’s Disease using modularity-constrained Lasso

Linhui Xie, Pradeep Varathan, Kwangsik T. Nho, Andrew J. Saykin, Paul Salama, Jingwen Yan

The paper identifies a functionally connected subnetwork of 276 multi-omic biomarkers for Alzheimer’s Disease using a modularity-constrained Lasso model applied to the ROS/MAP cohort.

PLoS ONE · Jun 17, 2020Peer-reviewedBioinformatics