| Name : R-DEET
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| Version : 1.0.12
| Vendor : obs://build_opensuse_org/devel:languages:R
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| Release : lp154.1.1
| Date : 2024-06-27 16:26:26
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| Group : Development/Libraries/Other
| Source RPM : R-DEET-1.0.12-lp154.1.1.src.rpm
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| Size : 2.07 MB
| |
| Packager : https://www_suse_com/
| |
| Summary : Differential Expression Enrichment Tool
|
Description :
Abstract of Manuscript. Differential gene expression analysis using RNA
sequencing (RNA-seq) data is a standard approach for making biological
discoveries. Ongoing large-scale efforts to process and normalize
publicly available gene expression data enable rapid and systematic
reanalysis. While several powerful tools systematically process RNA-seq
data, enabling their reanalysis, few resources systematically recompute
differentially expressed genes (DEGs) generated from individual
studies. We developed a robust differential expression analysis
pipeline to recompute 3162 human DEG lists from The Cancer Genome
Atlas, Genotype-Tissue Expression Consortium, and 142 studies within
the Sequence Read Archive. After measuring the accuracy of the
recomputed DEG lists, we built the Differential Expression Enrichment
Tool (DEET), which enables users to interact with the recomputed DEG
lists. DEET, available through CRAN and RShiny, systematically queries
which of the recomputed DEG lists share similar genes, pathways, and TF
targets to their own gene lists. DEET identifies relevant studies based
on shared results with the user’s gene lists, aiding in hypothesis
generation and data-driven literature review. Sokolowski, Dustin J., et
al. \"Differential Expression Enrichment Tool (DEET): an interactive
atlas of human differential gene expression.\" Nucleic Acids Research
Genomics and Bioinformatics (2023).
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RPM found in directory: /packages/linux-pbone/ftp5.gwdg.de/pub/opensuse/repositories/devel:/languages:/R:/autoCRAN/15.4/x86_64 |
