GitHub topics: transcription-factor-binding-site
Jumitti/TFinder
Python script to quickly extract promoter and terminator regions with the NCBI API. Search for the presence of individual pattern or transcription factor responsive elements with manual sequence (IUPAC) or JASPAR API.
Language: Python - Size: 60.7 MB - Last synced at: 4 days ago - Pushed at: 5 days ago - Stars: 16 - Forks: 17
chaolinzhanglab/PlotPWM.jl
Plot position weight matrices (PWM)
Language: Julia - Size: 860 KB - Last synced at: 5 days ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 0
Secret-Ambush/Identifying-Anchor-Residues-in-TFBS
Anchor Residue Identification for any TF
Language: HTML - Size: 85.8 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 1
bioinfodlsu/rice-pilaf
Published in GigaScience. Web app for post-GWAS/QTL analysis that performs a slew of novel bioinformatics analyses to cross-reference GWAS/QTL mapping results with a host of publicly available rice databases
Language: Python - Size: 13.2 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 1 - Forks: 1
MAGICS-LAB/DNABERT_2
[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
Language: Shell - Size: 847 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 289 - Forks: 66
benoukraflab/TFregulomeR Fork of Matthew-Dyer792/tfregulomer-dev
TFregulomeR reveals transcription factors’ context-specific features and functions
Language: R - Size: 7.33 MB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 5 - Forks: 0
kchu25/MOTIFs.jl
DNA Motif discovery that includes the discovery of flexible (long or gapped) motifs.
Language: Julia - Size: 2.4 MB - Last synced at: 5 days ago - Pushed at: over 1 year ago - Stars: 7 - Forks: 0
ANSES-Ploufragan/SIGffRid
Find two-boxes transcription factor binding sites (made for sigma factor binding sites) by comparing intergenic DNA regions upstream pairs of orthologous genes using statistical analyses
Language: Perl - Size: 3.53 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0
linquynus/TFregulomeR-dev
TFregulomeR reveals transcription factors’ context-specific features and functions
Language: R - Size: 7.36 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 2 - Forks: 3
benoukraflab/TFregulomeR-old
TFregulomeR reveals transcription factors’ context-specific features and functions
Language: R - Size: 7.26 MB - Last synced at: almost 2 years ago - Pushed at: about 3 years ago - Stars: 15 - Forks: 3
kchu25/UnfoldCDL.jl
Deep Unfolded Convolutional Dictionary Learning for motif discovery.
Language: Julia - Size: 250 KB - Last synced at: 5 days ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 1
uds-helms/MutaNET
Automated analysis tool for mutations in promoters, transcription factor binding sites, coding regions and protein domains in the context of gene regulatory networks.
Language: Python - Size: 333 MB - Last synced at: 5 months ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 1
dogmaticcentral/progesterone
Which ESR1 and PGR binding sites are functional?
Language: Python - Size: 10.6 MB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 1
lchmo444/TFBSinG
Prediction of the binding sites of multiple transcription factors in a whole genome
Language: Python - Size: 3.87 MB - Last synced at: about 2 years ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0
