MSigDB gene sets for multiple organisms in a tidy data format
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Mar 12, 2026 - R
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msigdb
Here are 15 public repositories matching this topic...
BioBombe: Sequentially compressed gene expression features enhances biological signatures
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Jul 1, 2024 - Jupyter Notebook
Julia implementation of the next generation GSEA 🏔️
cli bioinformatics gene julia computational-biology rna command-line-tool single-cell gene-set-enrichment msigdb command-line-interface gsea gene-set-analysis gene-set
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May 11, 2026 - Julia
Molecular Signatures Database (MSigDB) in a tidy data frame
r genomics tidy-data tidyverse genes r-package geneset-enrichment msigdb geneontology gsea genesets reference-data genomics-data
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May 12, 2026 - R
Generate Novel Insights from Gene Correlation Data
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Jun 27, 2022 - R
Molecular Signatures Database as a list
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Apr 5, 2023 - R
R package for the RNA Centric Annotation System (RCAS)
go reporting bioconductor rna interactive-plots msigdb modification protein-rna-interactions par-clip motif-discovery coverage-distribution cage
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Feb 4, 2024 - R
Snakemake workflow designed to annotate VCF files withe SnpEff / SniSift
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Feb 18, 2021 - Python
Integration of pathway-related information from MSigDB in BEL
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Nov 18, 2020 - Python
SpatialTranscriptFormer: A biologically-informed transformer architecture for spatial transcriptomics. Features Quad-Flow Interaction (P↔P, P↔H, H→P, H↔H) and a pathway bottleneck using MSigDB Hallmarks. Integrated with pathology foundation models (CTransPath/Phikon).
bioinformatics deep-learning computational-biology gene-expression pytorch transformer transcriptomics msigdb histology digital-pathology pathology explainable-ai multimodal spatial-transcriptomics biological-pathways foundation-models
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Jun 27, 2026 - Python
RNA-seq Preprocessing for GSEA
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Aug 2, 2020 - R
TCGA.SampleSelection wrapper module for GenePattern.
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Jan 3, 2024 - R
An in-silico transcriptomic pipeline employing single-sample Gene Set Enrichment Analysis (ssGSEA) to quantify and characterize MSigDB Hallmark pathway-level host responses to acute and chronic HIV-1 infection
bioinformatics genomics systems-biology transcriptomics gene-set-enrichment msigdb pathway-analysis virology computational-immunology t-cells hiv-1 microarray-analysis ssgsea host-pathogen-interactions r-pipeline
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Apr 11, 2026 - R
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