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Among the several approaches taken by ENCODE to investigate the different aspects of transcript regulation, the mapping of chromatin modifications and transcription factor binding sites in selected human cell lines using ChIP-Seq [ 6, 7] is probably the most comprehensive.
Establishment of DNA methylation occurs on a locus-by-locus basis and both histone modifications and transcription at regulatory sequences dictate the placing and timing of methylation marks at specific genes.
The data show that both microarray designs are suitable for studies of histone modifications and transcription factor binding events in early Xenopus embryogenesis.
Correlation of histone modifications and transcription including and excluding virulence genes.
Cell-specific gene expression is controlled by epigenetic modifications and transcription factor binding.
Of these we distinguish Histones (and more particularly their post-translational modifications) and Transcription Factors (TFs).
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This complexity stems from molecular events on the level of gene integrity, epigenetic modification and transcription, stability of mRNA transcripts (e.g., by miRNAs), translation, protein activation (e.g., by phosphorylation), and cellular interactions, including within the tumor microenvironment.
To understand how this process executes an entire developmental pathway, we generated global gene expression, chromatin accessibility, histone modification, and transcription factor binding data from purified embryonic stem cell-derived cells representing six sequential stages of hematopoietic specification and differentiation.
Such regulatory RNAs participate in many mechanisms that regulate chromatin modification and transcription factor activity, and influence mRNA stability, processing, and translation, all of which are key factors in multiple aspects of differentiation and development, including hematopoiesis [91], [92], [93].
To investigate histone modification and transcription factor binding, we performed chromatin immunoprecipitation (ChIP) assays using a ChIP assay kit (Millipore, Billerica, MA, USA) according to the manufacturer's protocol.
The lysine acetyltransferase CREB binding protein (CBP) is required for chromatin modification and transcription at many gene promoters.
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