Online bias-aware disease module mining with ROBUST-Web

Suryadipto Sarkar; Marta Lucchetta; Andreas Maier; Mohamed M. Abdrabbou; Jan Baumbach; Markus List; Martin H. Schaefer; David B. Blumenthal

doi:10.1093/bioinformatics/btad345

Online bias-aware disease module mining with ROBUST-Web

Suryadipto Sarkar, Marta Lucchetta, Andreas Maier, Mohamed M. Abdrabbou, Jan Baumbach, Markus List, Martin H. Schaefer, David B. Blumenthal

Assistant Professorship of Data Science in Systems Biology

Research output: Contribution to journal › Article › peer-review

1 Scopus citations

Abstract

Summary: We present ROBUST-Web which implements our recently presented ROBUST disease module mining algorithm in a user-friendly web application. ROBUST-Web features seamless downstream disease module exploration via integrated gene set enrichment analysis, tissue expression annotation, and visualization of drug-protein and disease-gene links. Moreover, ROBUST-Web includes bias-aware edge costs for the underlying Steiner tree model as a new algorithmic feature, which allow to correct for study bias in protein-protein interaction networks and further improves the robustness of the computed modules.

Original language	English
Article number	btad345
Journal	Bioinformatics
Volume	35
Issue number	6
DOIs	https://doi.org/10.1093/bioinformatics/btad345
State	Published - 1 Jun 2023

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title = "Online bias-aware disease module mining with ROBUST-Web",

abstract = "Summary: We present ROBUST-Web which implements our recently presented ROBUST disease module mining algorithm in a user-friendly web application. ROBUST-Web features seamless downstream disease module exploration via integrated gene set enrichment analysis, tissue expression annotation, and visualization of drug-protein and disease-gene links. Moreover, ROBUST-Web includes bias-aware edge costs for the underlying Steiner tree model as a new algorithmic feature, which allow to correct for study bias in protein-protein interaction networks and further improves the robustness of the computed modules.",

author = "Suryadipto Sarkar and Marta Lucchetta and Andreas Maier and Abdrabbou, {Mohamed M.} and Jan Baumbach and Markus List and Schaefer, {Martin H.} and Blumenthal, {David B.}",

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AU - Lucchetta, Marta

AU - Maier, Andreas

AU - Abdrabbou, Mohamed M.

AU - Baumbach, Jan

AU - List, Markus

AU - Schaefer, Martin H.

AU - Blumenthal, David B.

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AB - Summary: We present ROBUST-Web which implements our recently presented ROBUST disease module mining algorithm in a user-friendly web application. ROBUST-Web features seamless downstream disease module exploration via integrated gene set enrichment analysis, tissue expression annotation, and visualization of drug-protein and disease-gene links. Moreover, ROBUST-Web includes bias-aware edge costs for the underlying Steiner tree model as a new algorithmic feature, which allow to correct for study bias in protein-protein interaction networks and further improves the robustness of the computed modules.

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Online bias-aware disease module mining with ROBUST-Web

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