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Biorxiv : the Preprint Server for Biology|August 1, 2026
FERRET: Framework to Evaluate Robustness in Regulatory Networks Using Heterogeneous Cell TypesTara Eicher, John QuackenbushBiorxiv : the Preprint Server for Biology|June 12, 2026
Genomic, Transcriptomic, and Regulomic Analyses Do Not Support Profound Autism as a Distinct Biological CategoryTara Eicher, Ari Ne'eman, John QuackenbushBiorxiv : the Preprint Server for Biology|April 8, 2025
BLOBFISH: Bipartite Limited Subnetworks from Multiple Observations using Breadth-First Search with Constrained HopsTara Eicher, Marouen Ben Guebila, John QuackenbushBMC Bioinformatics|January 31, 2021
Self-organizing maps with variable neighborhoods facilitate learning of chromatin accessibility signal shapes associated with regulatory elementsTara Eicher, Jany Chan, Han Luu, et al.BMC Bioinformatics|December 22, 2019
Challenges in proteogenomics: a comparison of analysis methods with the case study of the DREAM proteogenomics sub-challengeTara Eicher, Andrew Patt, Esko Kautto, et al.Bioinformatics Advances|March 16, 2023
IntLIM 2.0: identifying multi-omic relationships dependent on discrete or continuous phenotypic measurementsTara Eicher, Kyle D Spencer, Jalal K Siddiqui, et al.Bioinformatics (Oxford, England)|November 14, 2022
RaMP-DB 2.0: a renovated knowledgebase for deriving biological and chemical insight from metabolites, proteins, and genesJohn Braisted, Andrew Patt, Cole Tindall, et al.Metabolites|May 21, 2020
Metabolomics and Multi-Omics Integration: A Survey of Computational Methods and ResourcesTara Eicher, Garrett Kinnebrew, Andrew Patt, et al.Medrxiv : the Preprint Server for Health Sciences|February 6, 2026
Gene regulatory network analysis identifies dysregulation of hypoxia pathways as contributing to glioblastoma multiforme treatment resistance in femalesTomisin Adebari, Viola Fanfani, Marouen Ben Guebila, et al.Biology of Sex Differences|May 22, 2026
Gene regulatory network analysis identifies dysregulation of hypoxia pathways as contributing to glioblastoma treatment resistance in femalesTomisin Adebari, Viola Fanfani, Marouen Ben Guebila, et al.Pageof 2