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...
Incubates which include candidate agents which alter transcription factor binding deviate from control incubates in terms of label signal - typically, binding is disrupted and the signal is diminished. In a preferred embodiment, the entire process is performed by a computer-controllable electromechanical ...
Pluripotent stem cells provide a powerful system to dissect the underlying molecular dynamics that regulate cell fate changes during mammalian development. Here we report the integrative analysis of genome-wide binding data for 38 transcription factors w
Transcription factor binding to DNA is vital for gene regulation. Here, the authors determine the kinetics of DNA binding for RBPJ in living cells. They find that the binding is kinetically rather than thermodynamically stable evident from the effective binding energy landscape. ...
In Wiki format, factorbook is a transcription factor (TF)-centric repository of all ENCODE ChIP-seq datasets on TF-binding regions, as well as the rich analysis results of these data. In the first release, factorbook contains 457 ChIP-seq datasets on 119 TFs in a number of human cell ...
This process can be described as a complex "network" of interactions, connecting binding sites of regulatory proteins (transcription factors, TFs) to regulatory DNA regions of their target genes [1]. Achieving an understanding of the evolutionary forces that shape the architecture of this network ...
First, TADs can recruit general transcription factors either directly or through coactivators; for example, binding to TBP, TFIIB, TFIID, TFIIF, and TFIIH have all been documented. Second, TADs may alter the conformation of either the general transcription factor and/or the DNA. Finally, TADs...
Different Domains of the Transcription Factor ELF3 Are Required in a Promoter-specific Manner and Multiple Domains Control Its Binding to DNA 来自 掌桥科研 喜欢 0 阅读量: 55 作者:JL Kopp,PJ Wilder,M Desler,L Kinarsky,A Rizzino 摘要: Elf3 is an epithelially restricted member of the ETS ...
Transposase-Accessible Chromatin followed by sequencing (ATAC-seq) is a simple protocol for detection of open chromatin. Computational footprinting, the search for regions with depletion of cleavage events due to transcription factor binding, is poorly u
These studies indicate that the COUP box transcription factor interacts with specific base residues in the major groove of the DNA helix. In addition, we have purlfied the S300-II factor over 100,000-fold. The polypeptide possessing functional transcriptional activity has been identified by SDS-...