Gsea-msigdb.org

Gsea-msigdb.org
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Last updated on 2024/08/17

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We found Websites Listing below when search with gsea-msigdb.org on Search Engine

Gene Set: chr8p21 - gsea-msigdb.org

GSEA Home; Downloads; Molecular Signatures Database; Documentation; Contact; Team; MSigDB Home; About Collections; Browse Gene Sets; Search Gene Sets; Investigate Gene Sets; View Gene Families ; Help; Gene Set: chr8p21 Standard name: chr8p21: Systematic name: M12581: Brief description: Ensembl 103 genes in cytogenetic band chr8p21: Full description …

Gsea-msigdb.org

DA: 19 PA: 26 MOZ Rank: 45

MSigDB v7.5.1 Release Notes - Broad Institute

This page describes the changes made to the gene set collections for Release 7.5.x of the Molecular Signatures Database (MSigDB). This release contains updates to: C1, GO, HPO, and Reactome, as well as the addition of curated sets to C8 and user submitted sets to C2:CGP. This update incorporates the removal of clone based gene IDs introduced in ...

Software.broadinstitute.org

DA: 27 PA: 50 MOZ Rank: 92

msigdb: The molecular signatures database (MSigDB) in R

2 Download data from the msigdb R package. This ExperimentHub package processes the latest version of the MSigDB database into R objects that can be queried using the GSEABase R/Bioconductor package. The entire database is stored in a GeneSetCollection object which in turn stores each signature as a GeneSet object. All empty gene expression …

Bioconductor.org

DA: 16 PA: 50 MOZ Rank: 89

MSigDB v7.2 Release Notes - GeneSetEnrichmentAnalysisWiki

GSEA Home | Downloads | Molecular Signatures Database | Documentation | Contact. This page describes the changes made to the gene set collections for Release 7.2 of the Molecular Signatures Database (MSigDB). This release includes a substantial reorganization of C5 to accommodate the addition of the Human Phenotype Ontology, the addition of gene sets …

Software.broadinstitute.org

DA: 27 PA: 50 MOZ Rank: 92

MSigDB v7.3 Release Notes - GeneSetEnrichmentAnalysisWiki

GSEA Home | Downloads | Molecular Signatures Database | Documentation | Contact. This page describes the changes made to the gene set collections for Release 7.3 of the Molecular Signatures Database (MSigDB). This release includes a reorganization of C7 to accommodate the addition of vaccination response gene sets provided by the Human …

Software.broadinstitute.org

DA: 27 PA: 50 MOZ Rank: 93

msigdbr: MSigDB Gene Sets for Multiple Organisms in a Tidy Data …

2 msigdbr R topics documented: msigdbr . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .2 msigdbr_collections ...

Cran.microsoft.com

DA: 18 PA: 50 MOZ Rank: 76

Index of /gsea-msigdb/gsea/software/snapshot - Broad Institute

For Windows [*_snapshot-installer.exe] Download and run the installer. A shortcut will be created on the desktop; double-click it to run the application. 64-bit Windows is required.

Data.broadinstitute.org

DA: 23 PA: 36 MOZ Rank: 65

MSigDB v7.1 Release Notes - GeneSetEnrichmentAnalysisWiki

Alternatively MSigDB 7.1 provides CHIP files designed to be used with the GSEA Collapse/Remap dataset feature which may be used to re-annotate the dataset. Gene annotations supplied in the MSigDB 7.1 release are derived from Ensembl version 99 corresponding to GENCODE release 33 and reflect the HGNC Gene Symbols as of the GENCODE 33 freeze …

Software.broadinstitute.org

DA: 27 PA: 50 MOZ Rank: 96

GeneSetEnrichmentAnalysisWiki - Broad Institute

Current release of the Molecular Signatures Database (v7.4 MSigDB) contains 32,284 gene sets for use with GSEA. For information about MSigDB and the gene sets, see the MSigDB web site . Please note that gene sets can change or become deprecated in subsequent releases of MSigDB.

Software.broadinstitute.org

DA: 27 PA: 46 MOZ Rank: 81

MSigDB v7.0 Release Notes - GeneSetEnrichmentAnalysisWiki

As of MSigDB 7.0 the minimum size threshold for inclusion of a gene set in an MSigDB collection has been reduced to 5 unique gene symbols. This global filter threshold was previously set at 10 unique symbols. This change primarily affects gene sets in the C5:G0 and C2:CP:Reactome collections. This does not affect the default thresholds in the GSEA application.

Software.broadinstitute.org

DA: 27 PA: 50 MOZ Rank: 98

GitHub - GSEA-MSigDB/GSEA_R: Updated implementation of the …

GSEA R Implementation v1.2 Revisions to the GSEA-P R Application (Subramanian and Tamayo et al 2005) Preliminary revisions to the original GSEA implementation in R to enable it to run on modern R distributions.

Github.com

DA: 10 PA: 19 MOZ Rank: 39

MSigDB - Database Commons - CNCB

The Molecular Signatures Database (MSigDB) is one of the most widely used repositories of such sets. We report the availability of a new version of the database, MSigDB 3.0, with over 6700 gene sets, a complete revision of the collection of canonical pathways and experimental signatures from publications, enhanced annotations and upgrades to the web …

Ngdc.cncb.ac.cn

DA: 15 PA: 33 MOZ Rank: 59

What is a good Enrichment Score? · Issue #55 · GSEA …

Hi Kai, We don't provide suggested cutoffs for the NES, it's entirely possible for relatively weak changes to have biological meaning. That said, what FDR you should use as a cutoff depends on what mode of GSEA you're running in, if you're running in Phenotype permutation mode, which recommends a minimum of seven samples per group, then the 0.25 …

Github.com

DA: 10 PA: 35 MOZ Rank: 57

GSEA | MSigDB | MSigDB Collections

The 17779 gene sets in the Molecular Signatures Database (MSigDB) are divided into 8 major collections, and several sub-collections. See the table below for a brief description of each, and the MSigDB Collections: Details and Acknowledgments page for more detailed descriptions. See also the MSigDB Statistics and the MSigDB Release Notes.

Btep.ccr.cancer.gov

DA: 19 PA: 47 MOZ Rank: 79

gsea-help - Google Groups

Gsea-help. Welcome to the gsea-help group. This is the official help and discussion forum for Gene Set Enrichment (GSEA) and Molecular Signature Database (MSigDB). Please post questions, bug reports, and suggestions here. If you're having a problem, try searching this list to see if your question has already been addressed.

Groups.google.com

DA: 17 PA: 12 MOZ Rank: 43

gsea-api · PyPI

MSigDB integration. Molecular Signatures Database (MSigDB) can be downloaded from the Broad Institute GSEA website.It provides expert-curated gene set collections, as well as curated subset of pathway databases (Reactome, KEGG, Biocarta, Gene Ontology) trimmed to remove redundant, overlapping and and otherwise little-value terms (if needed).

Pypi.org

DA: 8 PA: 18 MOZ Rank: 41

parameters .rpt not created when GSEA encounters Error #41

When GSEA Errors out (tested with many of the common “early” errors, wrong/no chip, invalid ranking metric for data, probably others) the .rpt file containing the GSEA run parameters is not produced but is listed on the error'ed run’s in... When GSEA Errors out (tested with many of the common “early” errors, wrong/no chip, invalid ranking metric for data, …

Github.com

DA: 10 PA: 35 MOZ Rank: 61

data.broadinstitute.org

BIOCARTA_MOUSE_RELA_PATHWAY https://data.broadinstitute.org/gsea-msigdb/msigdb/biocarta/mouse/m_relaPathway.gif Tnfrsf1a Tnf Chuk Fadd …

Data.broadinstitute.org

DA: 23 PA: 50 MOZ Rank: 33

Broad Institute

Data.broadinstitute.org

DA: 23 PA: 47 MOZ Rank: 88

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