从GO数据库里找:Transcription factors were identified using GO terms transcription factor activity (GO:0000989), and regulation of transcription, DNA dependent (GO:0006355). 最终合并三者得到一个完整的TF list 研究可以做得很浅,查查genecard数据库,从数据库里找找motif,用工具跑跑target gene,构建一下基因...
Detecting changes in the activity of a transcription factor (TF) in response to a perturbation provides insights into the underlying cellular process. Transcription Factor Enrichment Analysis (TFEA) is a robust and reliable computational method that detects positional motif enrichment associated with change...
One big challenge of such function analyses is the so-called transcriptome analysis, where expression profiles of all ORFs have been studied using microarrays (3). Since it is prob- able that genes with similar expression profiles are co-regulated by a common transcription factor, examination of ...
本文提介绍了scFAN(single-cell factor analysis network单细胞因子分析网络),这是一种深度学习模型,可以预测单个细胞中全基因组的转录因子结合网络。 scFAN包括对大量的数据进行“预训练模型”训练,然后使用DNA序列数据,汇总的相似scATAC-seq数据和可定位性数据的组合,将其用于预测单细胞水平上的转录因子结合。 scFAN...
Transcription factor activity at genomic loci was assayed using the Dual-Glo Luciferase Assay system (Promega). Mouse embryonic stem cells were seeded at a density of 1 × 105 cells cm−2 on 24-well plates that had been pre-coated with gelatin. For feeder-free culture conditions,...
We show how by combining the Connectivity Map (CMAP) with ChEA, we can rank pairs of compounds to be used to target specific transcription factor activity in cancer cells. The ChEA software and ChIP-X database is freely available online at: http://amp.pharm.mssm.edu/lib/chea.jsp. 展开 ...
Here, we explored the mechanisms involved in a drastic shift in sex-pheromone preference in the silkmoth Bombyx mori using spli mutants in which the genomic structure of the gene Bmacj6, which encodes a class IV POU domain transcription factor, is disrupted or its expression is repressed. B...
Transcription factor, molecule that controls the activity of a gene by determining whether the gene’s DNA is transcribed into RNA. Transcription factors control when, where, and how efficiently RNA polymerases, which catalyze the reactions that synthesi
Evidences for the involvement of an invertebrate goose-type lysozyme in disk abalone immunity: Cloning, expression analysis and antimicrobial activity The TFSEARCH server predicted a variety of transcription factor-binding sites in the 5'-flanking region of the abLysG gene, some of which are involved...
The transcription factor Aire mediates tissue-specific antigen expression in the thymus for T cell central tolerance induction. Here the authors show that Aire, via its CARD domain, forms multimers that can misdirect Aire to PML bodies leading to the loss of Aire transcriptional activity and induct...