PscanR - Motif Enrichment Analysis of Regulatory DNA Sequences
R implementation of the 'Pscan' algorithm for motif enrichment analysis in regulatory DNA sequences, based on Zambelli et al. (2009) <doi:10.1093/nar/gkp464>. 'PscanR' scans a set of DNA sequences (e.g., promoters) from co-regulated or co-expressed genes, using transcription factor binding motifs from databases such as JASPAR. It identifies significantly enriched motifs, providing thus hints on which transcription factors could be common regulators of the genes studied, together with the location of their candidate binding sites in the sequences.
Last updated
sequencematchingtranscriptiongeneregulationmotifannotation
4.30 score 7 scriptsPscanRBackgrounds - Precomputed Promoter Backgrounds for PscanR
Provides ExperimentHub metadata and documentation for the promoter-background score distributions used by PscanR transcription factor binding motif enrichment analyses. Each of the 105 backgrounds is a separate ExperimentHub resource, covering the JASPAR 2020, 2022 and 2024 CORE collections, seven genome assemblies of five organisms, and five promoter windows. The files are hosted on Zenodo, one record per JASPAR release, and archived together in a version-specific Zenodo record.
Last updated
experimenthubgenomehomo_sapiens_datamus_musculus_datadrosophila_melanogaster_datasaccharomyces_cerevisiae_dataarabidopsis_thaliana_data
3.00 score