Tag: JASPAR

Human hg38 chr7:73,678,750-73,740,129 UCSC Genome Browser v435

Use drop-down controls below and press refresh to alter tracks displayed.Tracks with lots of items will automatically be displayed in more compact modes.    Custom Tracks H3K27ac Meta NeuN SCZhidedensesquishpackfull H3K27ac NeuN SCZ del_CRDhidedensesquishpackfull H3K27ac NeuN SCZ del_CRD_del_peakshidedensesquishpackfull H3K27ac Tissuehidedensesquishpackfull H3K27ac Tissue BDhidedensesquishpackfull H3K27ac Tissue BD del_CRDhidedensesquishpackfull H3K27ac Tissue BD…

Continue Reading Human hg38 chr7:73,678,750-73,740,129 UCSC Genome Browser v435

FBXO9 Mediates the Cancer-Promoting Effects of ZNF143 by Degrading FBXW7 and Facilitates Drug Resistance in Hepatocellular Carcinoma

doi: 10.3389/fonc.2022.930220. eCollection 2022. Zhenyu Wang  1 , Xiaoxia Chen  1   2 , Lianer Zhou  1 , Xinge Zhao  1 , Chao Ge  1 , Fangyu Zhao  1 , Haiyang Xie  3 , Taoyang Chen  4 , Hua Tian  1 , Hong Li  1 , Jinjun Li  1 Affiliations Expand Affiliations 1 State Key Laboratory of Oncogenes and Related…

Continue Reading FBXO9 Mediates the Cancer-Promoting Effects of ZNF143 by Degrading FBXW7 and Facilitates Drug Resistance in Hepatocellular Carcinoma

Workflow Platforms for Systems Genetics

Workflow Platforms for Systems Genetics eQTL Platforms eQTL Viewer Mouse Genome Informatics: Phenotypes, Alleles & Disease Models PhenoGen Informatics (CO U) eXtensible Genotype And Phenotype platform (XGAP) MOLGENIS & MetaNetwork, Swertz & Jansen, U Groningen Weighted Gene Co-expression Network Analysis (WGCNA), Horvath, UCLA iPlant Sage Bionetworks Repository: Synapse GenomeSpace Institute…

Continue Reading Workflow Platforms for Systems Genetics

SNP2TFBS

SNP2TFBS Viewing variants that affect TF binding – Results – SNP identifier Chrom id (Feb 2009 GRCh37/hg19) SNP position NB. of TF factors rs1800629   dbSNP NC_000006.11 (chr6) 31543031 1 TF name  PWM score on Ref PWM score on Alt Score difference Low Score Thr High Score Thr MZF1_1-4  1024  ….

Continue Reading SNP2TFBS

Bioconductor – MotIV

    This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see MotIV. Motif Identification and Validation Bioconductor version: 3.4 This package makes use of STAMP for comparing a set of motifs to a given database (e.g. JASPAR). It can also be used to visualize…

Continue Reading Bioconductor – MotIV

Problem with HOMER -find

Problem with HOMER -find <motif file> 0 I am trying to search for specific motifs in my set of promoters. It should be possible with the option -find *.motif I know that there are for sure some occurrences because I have found them with search function in Notepad. However HOMER…

Continue Reading Problem with HOMER -find