Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Papers: 10.1186/s40246-019-0226-2

https://doi.org/10.1186/s40246-019-0226-2

Size matters: how sample size affects the reproducibility and specificity of gene set analysis

Cited by: 28
Author(s): Farhad Maleki, Katie Ovens, Ian McQuillan, Anthony Kusalik
Published: about 5 years ago

Software Mentions 10

bioconductor: affy
Methods for Affymetrix Oligonucleotide Arrays
Papers that mentioned: 989
bioconductor: ArrayExpress
Access the ArrayExpress Collection at EMBL-EBI Biostudies and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet
Papers that mentioned: 1,962
bioconductor: gage
Generally Applicable Gene-set Enrichment for Pathway Analysis
Papers that mentioned: 45
bioconductor: GEOquery
Get data from NCBI Gene Expression Omnibus (GEO)
Papers that mentioned: 328
bioconductor: GSVA
Gene Set Variation Analysis for microarray and RNA-seq data
Papers that mentioned: 893
bioconductor: limma
Linear Models for Microarray Data
Papers that mentioned: 7,776
bioconductor: PADOG
Pathway Analysis with Down-weighting of Overlapping Genes (PADOG)
Papers that mentioned: 19
cran: WGCNA
Weighted Correlation Network Analysis
Papers that mentioned: 3,479
pypi: GSVA
Python CLI and module for running the GSVA R bioconductor package with Python Pandas inputs and outputs.
Papers that mentioned: 893
pypi: stats
Calculator-style statistical functions
Papers that mentioned: 3,105