Author

Aden O'Brien

Reed College

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 Systems Biology· 1

Signature Assays, Organisms & Methods

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Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:database / resource· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Organism:mouse· 1 Assay:protein sequence· 1

Frequent Co-Authors

Altaf BarelviiD· 2 shared Anna RitziD· 2 shared Iris JaniD· 2 shared Oliver Faulkner AndersoniD· 2 shared Adam ShedivyiD· 1 shared Ainsley Norman· 1 shared Akniyet NurboliD· 1 shared Anthony GitteriD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 40 mutual co-author links

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2 shared papersBioinformatics

Altaf BarelviORCID

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2 papers

Recent·Most cited

A Framework for Benchmarking Pathway Reconstruction Algorithms

Neha Talluri, Tristan Figueroa-Reid, Justin Hiemstra, Chris S. Magnano, Adam Shedivy, Nistha Panda, Yancheng Liu, Sumedha Sanjeev, Oliver Faulkner Anderson, Altaf Barelvi, Aden O'Brien, Olivia T Johnson, James A. Haddad, Spencer Halberg, Akniyet Nurbol, , Anthony Gitter

This paper benchmarks 14 pathway reconstruction algorithms across 822 datasets using a standardized framework to evaluate performance, similarity, and computational efficiency.

bioRxiv · Aug 9, 2026 · PreprintBioinformatics

ProteinWeaver: A Webtool to Visualize Ontology-Annotated Protein Networks

Oliver Faulkner Anderson, Altaf Barelvi, Aden O'Brien, Ainsley Norman, Iris Jan, Anna Ritz

ProteinWeaver visualizes protein networks in five model organisms, contextualizing proteins within biological processes using Gene Ontology terms and identifying network motifs and distances.

PLoS ONE · Sep 5, 2025Peer-reviewedSystems Biology