Author

Simon Peter Goedegebuure

Washington University in St. LouisORCID 0000-0001-7084-3378Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 3

Signature Assays, Organisms & Methods

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Organism:human· 3 Research Focus:differential expression· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:cell-cell communication· 1 Research Focus:drug response / drug discovery· 1 Research Focus:gene regulatory network inference· 1 Approach:graph neural network· 1

Frequent Co-Authors

David G. DeNardoiD· 2 shared Fuhai LiiD· 2 shared Philip PayneiD· 2 shared Ryan Courtney FieldsiD· 2 shared Amanda Zeng· 1 shared Anamika BasuiD· 1 shared Antoni RibasiD· 1 shared Christopher A. MilleriD· 1 shared

Activity by Year

2023-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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2 shared papersBioinformatics

David G. DeNardoORCID

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3 papers

Recent·Most cited

BioinformaticsiSciencePeer-reviewedFeb 6, 2025

M3NetFlow: A novel multi-scale multi-hop graph AI model for integrative multi-omic data analysis

Heming Zhang, Simon Peter Goedegebuure, Li Sheng Ding…·Fuhai Li

M3NetFlow is a multi-scale multi-hop graph model for multi-omic data analysis that ranks targets and infers signaling pathways, achieving high accuracy in drug response and Alzheimer's disease studies.

12 citations

humanmultiome

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BioinformaticsPLoS Computational BiologyPeer-reviewedJan 5, 2024

SC2MeNetDrug: A computational tool to uncover inter-cell signaling targets and identify relevant drugs based on single cell RNA-seq data

Jiarui Feng, Simon Peter Goedegebuure, Amanda Zeng…·Fuhai Li

SC2MeNetDrug is a tool that identifies cell-cell signaling targets and predicts drugs using scRNA-seq data to analyze disease microenvironments.

8 citations

humanscRNA-seq

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BioinformaticsScience ImmunologyPeer-reviewedApr 7, 2023

Computational prediction of MHC anchor locations guide neoantigen identification and prioritization

Huiming Xia, Joshua F. McMichael, Michelle Becker‐Hapak…·Malachi Griffith

The paper predicts MHC anchor positions for 328 HLA alleles and shows that incorporating these improves neoantigen identification by correcting misclassified candidates in tumor samples.

30 citations

humanbulk RNA-seq

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