然后,我们通过Fisher精确检验(受pval参数限制)筛选潜在的受体-TF,TF-Target基因相互作用。(构建这个网络信息,很重要)。 pval <- 0.05 logfc <- 0.15 LigRecLib <- "./database/LigRec.txt" TFTarLib <- "./database/TFTargetGene.txt" RecTFLib <- "./database/RecTF.txt" Construction of Multi-layer...
Besides queries for TF-target gene interactions in developmental stages, the DB provides a graphical representation of downloadable target gene regulatory sequences with locations of the transcriptional start sites and TF-binding sites. The LymphTF-DB can be accessed freely on the web at http://...
Besides queries for TF-target gene interactions in developmental stages, the DB provides a graphical representation of downloadable target gene regulatory sequences with locations of the transcriptional start sites and TF-binding sites. The LymphTF-DB can be accessed freely on the web at http://...
(TRE). Here we introduce tfTarget, a unified framework that identifies the "TF -> TRE -> target gene" networks that are differential regulated between two conditions, e.g. experimental vs. control, using PRO-seq/GRO-seq/ChRO-seq data as the input. The package provies a convenient ...
wDBTF: an integrated database resource for studying wheat transcription factor familiesSwine influenza A virusTerminalia chebula RetzhypothesisBackgroundTranscription factors (TFs) regulate gene expression by interacting with promoters of their target genes and are classified into families based on their DNA...
With this classification, we hope to provide a basis for deciphering protein–DNA recognition codes; moreover, it can be used for constructing expanded transcriptional networks by inferring additional TF-target gene relations. 展开 关键词: DATABASE RECOGNITION EXPRESSION SEQUENCES SYSTEM ...
Isabelle Romeuf1, Dominique Tessier2, Mireille Dardevet1, Gérard Branlard1, Gilles Charmet1, Catherine Ravel1* Abstract Background: Transcription factors (TFs) regulate gene expression by interacting with promoters of their target genes and are classified into families based on their DNA-binding ...
Transcription factors (TFs) regulate gene expression by interacting with promoters of their target genes and are classified into families based on their DNA-binding domains. Genes coding for TFs have been identified in the sequences of model plant genomes. The rice (Oryza sativa spp. japonica) ge...
Target gene. Edge weight. zcat data-raw/regulatorycircuits/FANTOM5_individual_networks/394_individual_networks/synoviocyte.txt.gz|head RAX PPP2R2A 1.79016453E-3 MYCN RHOA 1.81311653E-2 TFAP2 RRM1 7.13096624E-3 PRDM4 KPNA2 1.61069158E-2 FOXB1 SCARF2 1.78696733E-3 ATF4 NDUFA11 1.53625527E-3...
miRTarBase: a database curates experimentally validated microRNA–target interactions MicroRNAs (miRNAs), i.e. small non-coding RNA molecules (鈭 22鈥塶t), can bind to one or more target sites on a gene transcript to negatively regulate prote... SD Hsu,FM Lin,WY Wu,... - 《Nucleic Aci...