XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli

XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli

Summary: XACT-seq (“crosslink between active-center and template sequencing”) is a technique for high-throughput, single-nucleotide resolution mapping of RNA polymerase (RNAP) active-center positions relative to the DNA template. XACT-seq overcomes limitations of approaches that rely on analysis of...

Full description

Bibliographic Details
Main Authors: Chirangini Pukhrambam, Irina O. Vvedenskaya, Bryce E. Nickels
Format: Article
Language:English
Published: Elsevier 2021-12-01
Series:STAR Protocols
Subjects:
Molecular Biology
Gene Expression
Protein Biochemistry
Online Access:http://www.sciencedirect.com/science/article/pii/S2666166721005645
id doaj-4c467370ecb443ceba0f0b5bbb52089f
record_format Article
spelling doaj-4c467370ecb443ceba0f0b5bbb52089f2021-10-09T04:41:32ZengElsevierSTAR Protocols2666-16672021-12-0124100858XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coliChirangini Pukhrambam0Irina O. Vvedenskaya1Bryce E. Nickels2Department of Genetics and Waksman Institute, Rutgers University, Piscataway, NJ 08854, USADepartment of Genetics and Waksman Institute, Rutgers University, Piscataway, NJ 08854, USADepartment of Genetics and Waksman Institute, Rutgers University, Piscataway, NJ 08854, USA; Corresponding authorSummary: XACT-seq (“crosslink between active-center and template sequencing”) is a technique for high-throughput, single-nucleotide resolution mapping of RNA polymerase (RNAP) active-center positions relative to the DNA template. XACT-seq overcomes limitations of approaches that rely on analysis of the RNA 3′ end (e.g., native elongating transcript sequencing) or that report RNAP positions with low resolution (e.g., ChIP-seq and ChIP-exo). XACT-seq can be used to map RNAP active-center positions in transcription initiation complexes, initially transcribing complexes, and transcription elongation complexes.For complete details on the use and execution of this protocol, please refer to Winkelman et al. (2020).http://www.sciencedirect.com/science/article/pii/S2666166721005645Molecular BiologyGene ExpressionProtein Biochemistry
collection DOAJ
language English
format Article
sources DOAJ
author Chirangini Pukhrambam
Irina O. Vvedenskaya
Bryce E. Nickels
spellingShingle Chirangini Pukhrambam
Irina O. Vvedenskaya
Bryce E. Nickels
XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli
STAR Protocols
Molecular Biology
Gene Expression
Protein Biochemistry
author_facet Chirangini Pukhrambam
Irina O. Vvedenskaya
Bryce E. Nickels
author_sort Chirangini Pukhrambam
title XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli
title_short XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli
title_full XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli
title_fullStr XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli
title_full_unstemmed XACT-seq: A photocrosslinking-based technique for detection of the RNA polymerase active-center position relative to DNA in Escherichia coli
title_sort xact-seq: a photocrosslinking-based technique for detection of the rna polymerase active-center position relative to dna in escherichia coli
publisher Elsevier
series STAR Protocols
issn 2666-1667
publishDate 2021-12-01
description Summary: XACT-seq (“crosslink between active-center and template sequencing”) is a technique for high-throughput, single-nucleotide resolution mapping of RNA polymerase (RNAP) active-center positions relative to the DNA template. XACT-seq overcomes limitations of approaches that rely on analysis of the RNA 3′ end (e.g., native elongating transcript sequencing) or that report RNAP positions with low resolution (e.g., ChIP-seq and ChIP-exo). XACT-seq can be used to map RNAP active-center positions in transcription initiation complexes, initially transcribing complexes, and transcription elongation complexes.For complete details on the use and execution of this protocol, please refer to Winkelman et al. (2020).
topic Molecular Biology
Gene Expression
Protein Biochemistry
url http://www.sciencedirect.com/science/article/pii/S2666166721005645
work_keys_str_mv AT chiranginipukhrambam xactseqaphotocrosslinkingbasedtechniquefordetectionofthernapolymeraseactivecenterpositionrelativetodnainescherichiacoli
AT irinaovvedenskaya xactseqaphotocrosslinkingbasedtechniquefordetectionofthernapolymeraseactivecenterpositionrelativetodnainescherichiacoli
AT bryceenickels xactseqaphotocrosslinkingbasedtechniquefordetectionofthernapolymeraseactivecenterpositionrelativetodnainescherichiacoli
_version_ 1716830518383738880

Similar Items