In shwetagopaul92/txregquery: Query txregnet data
Lee, Rinaldi et al. Science 2002: TxRegNet for S. cerevisiae
- Condition/phenotype: stage $G_1, S, G_2, M$, budding
- Blue boxes: upregulated genes
- Ovals/Arcs: transcription factors and their periods of influence
Maurano, Humbert et al. Science 2012: "Common (human) disease network"
- Disease:DNA -- GWAS SNPs in FIMO-identified binding sites
- Sequence for motif finding: hg19-alt -- all SNP sites coded as alternate allele
, with GWAS SNPs that disrupt FIMO-identified binding sites (BSgenome has a method for SNP-injection)
- *New challenge*: from sequence-derived TFBS, epigenomically defined regulatory regions (tissue-specific), tissue-specific (GTEX) eQTL, derive regulatory networks to help interpret local COPD GWAS
shwetagopaul92/txregquery documentation built on May 14, 2019, 7:43 a.m.
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Lee, Rinaldi et al. Science 2002: TxRegNet for S. cerevisiae
- Condition/phenotype: stage $G_1, S, G_2, M$, budding
- Blue boxes: upregulated genes
- Ovals/Arcs: transcription factors and their periods of influence
Maurano, Humbert et al. Science 2012: "Common (human) disease network"
- Disease:DNA -- GWAS SNPs in FIMO-identified binding sites
- Sequence for motif finding: hg19-alt -- all SNP sites coded as alternate allele
, with GWAS SNPs that disrupt FIMO-identified binding sites (BSgenome has a method for SNP-injection)
- *New challenge*: from sequence-derived TFBS, epigenomically defined regulatory regions (tissue-specific), tissue-specific (GTEX) eQTL, derive regulatory networks to help interpret local COPD GWAS
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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