Differential expression and KEGG GSEA analysis of NEQC-normalized Illumina microarray data comparing E. coli infection vs mock samples, using limma and clusterProfiler.
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Aug 9, 2026 - R
#
gsea
Here are 145 public repositories matching this topic...
Computational analysis of multiple myeloma progression — 7-method cross-validation (DEG, GSEA, ML, deep learning, clustering) on 859 patients achieving 93.8% classification accuracy
python bioinformatics scikit-learn computational-biology pytorch cancer-genomics survival-analysis gsea multiple-myeloma rag shap
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Mar 4, 2026 - Jupyter Notebook
Code for integrating transcriptomics, methylation, and proteomics data using DIABLO
r svm lasso methylation xgboost bioconductor diablo illumina integrative-analysis biomarkers gsea 450k multiomics shap betavalue rppa
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Jun 14, 2025 - R
RNA-seq time course analysis pipeline: DESeq2 → GSEA → Pathview → interactive HTML report
bioinformatics rna-seq snakemake deseq2 transcriptomics gene-set-enrichment differential-expression gsea pathway-enrichment time-course tf-enrichment
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Jun 25, 2026 - R
A version of Single Sample GSEA adapted to the sparsity of single cell RNA-seq data
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Aug 21, 2025 - Python
Reproducible Nextflow DSL2 pipeline for gene set enrichment analysis using DESeq2, fgsea, Docker, and publication-quality visualization.
docker bioinformatics rna-seq nextflow bioconductor deseq2 pathway-analysis gsea gene-set-enrichment-analysis fgsea
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Aug 15, 2026 - Nextflow
Gene expression analysis to identify biomarkers for early lung cancer detection (SCLC & NSCLC)
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Oct 27, 2025 - R
The Tasmanian devil is endangered due to Devil Facial Tumour Disease (DFTD), a contagious cancer with no current treatment. Previous study has investigated the anticancer properties of Tasmanian devil cathelicidins. This report intends to reproduce the enrichment analysis results of the study and further analyze their data.
bioinformatics rna-seq r cancer gene-expression gene-ontology edger limma gsea multidimensional-scaling gene-set-enrichment-analysis tasmanian-devil edaseq
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Aug 6, 2024 - TeX
R-based machine learning workflows for cancer transcriptomics, including random forest classification, feature selection, molecular clustering and pathway analysis.
machine-learning bioinformatics r random-forest computational-biology gene-expression cancer-genomics unsupervised-learning transcriptomics nmf gsea
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Aug 23, 2026
DNA damage and repair transcriptomics integrating DESeq2, race/disease contrasts, metabolism/immunology panels, ashr shrinkage, and GO/KEGG/Reactome enrichment
bioinformatics rna-seq r computational-biology deseq2 transcriptomics kegg reactome gsea cancer-biology dna-damage-response
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Aug 5, 2026 - R
Downstream Analysis of RNA-Seq Results in R: GSEA, PPI Networks, and Biological Interpretation
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Feb 20, 2025 - HTML
Reproducible R/Bioconductor GSEA analysis of immune activation signatures linked to DNA origami nanostructure design.
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Jun 12, 2026 - R
DGE and GSEA analysis of TB biomarkers from cfRNA-seq data
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Aug 9, 2026 - R
Investigating the transcriptomic architecture and functional landscape of NAA15-associated Neurodevelopmental Disorders (NDD) through comparative gene expression profiling.
rna-seq genomics gene-expression deseq2 autism transcriptomics differential-expression r-programming precision-medicine gsea neurogenomics bioinf ndd neurodevelopmental-disorders functional-enrichment-analysis bioco naa15
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Mar 2, 2026 - R
ggg is a cutting-edge development framework designed for ultra-fast data processing and analysis. With advanced features and a user-friendly interface, ggg empowers developers to create efficient and robust applications for a wide range of industries.
website ggplot2 gwas graph genetics rstats plotting dateutil pathofexile date-parser gsea ggplot-extension dateparser dateutil-python
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Feb 22, 2026
Reproducible omics pipelines: AD brain snRNA-seq pseudobulk DE (GSE129308) · PyTorch cell-type classifier (donor-level split, acc 0.997) · 5XFAD ferroptosis RNA-seq + GSEA · citation auditor · GEO download tools · gut microbiome | 可复现生信项目集（兰州大学）
bioinformatics rna-seq reproducible-research geo pytorch deseq2 scrna-seq microbiome single-cell alzheimers-disease gsea scanpy
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Sep 4, 2026 - Python
RNA-seq differential expression and functional enrichment analysis of GSE341745 using R and edgeR
bioinformatics r gene-expression rna-seq-analysis pathway-analysis differential-expression edger gsea
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Sep 5, 2026 - R
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