User profiles for D. B. Mahat

DigBijay Mahat

Massachusetts Institute of Technology
Verified email at mit.edu
Cited by 1393

Base-pair-resolution genome-wide mapping of active RNA polymerases using precision nuclear run-on (PRO-seq)

DB Mahat, H Kwak, GT Booth, IH Jonkers, CG Danko… - Nature protocols, 2016 - nature.com
We provide a protocol for precision nuclear run-on sequencing (PRO-seq) and its variant,
PRO-cap, which map the location of active RNA polymerases (PRO-seq) or transcription start …

[PDF][PDF] Mammalian heat shock response and mechanisms underlying its genome-wide transcriptional regulation

DB Mahat, HH Salamanca, FM Duarte, CG Danko… - Molecular cell, 2016 - cell.com
The heat shock response (HSR) is critical for survival of all organisms. However, its scope,
extent, and the molecular mechanism of regulation are poorly understood. Here we show that …

[HTML][HTML] Transcriptional response to stress is pre-wired by promoter and enhancer architecture

A Vihervaara, DB Mahat, MJ Guertin, T Chu… - Nature …, 2017 - nature.com
… To analyze transcription of genes, we filtered RefGen database to obtain a non-redundant
list of RNA- and protein-coding genes with 500 nt or more in length (n = 23,698). The density …

Transcription factors GAF and HSF act at distinct regulatory steps to modulate stress-induced gene activation

FM Duarte, NJ Fuda, DB Mahat, LJ Core… - Genes & …, 2016 - genesdev.cshlp.org
The coordinated regulation of gene expression at the transcriptional level is fundamental to
development and homeostasis. Inducible systems are invaluable when studying …

[PDF][PDF] Transcriptional pause sites delineate stable nucleosome-associated premature polyadenylation suppressed by U1 snRNP

AC Chiu, HI Suzuki, X Wu, DB Mahat, AJ Kriz… - Molecular cell, 2018 - cell.com
Regulation of RNA polymerase II (Pol II) elongation is a critical step in gene regulation. Here,
we report that U1 snRNP recognition and transcription pausing at stable nucleosomes are …

[PDF][PDF] CBP regulates recruitment and release of promoter-proximal RNA polymerase II

A Boija, DB Mahat, A Zare, PH Holmqvist, P Philip… - Molecular cell, 2017 - cell.com
Transcription activation involves RNA polymerase II (Pol II) recruitment and release from the
promoter into productive elongation, but how specific chromatin regulators control these …

[PDF][PDF] Stress-induced transcriptional memory accelerates promoter-proximal pause release and decelerates termination over mitotic divisions

A Vihervaara, DB Mahat, SV Himanen, MAH Blom… - Molecular cell, 2021 - cell.com
Heat shock instantly reprograms transcription. Whether gene and enhancer transcription
fully recover from stress and whether stress establishes a memory by provoking transcription …

A rapid, sensitive, scalable method for Precision Run-On sequencing (PRO-seq)

…, P Versluis, L Bagepalli, SR Shah, DB Mahat… - Biorxiv, 2020 - biorxiv.org
Tracking active transcription with the nuclear run-on (NRO) assays has been instrumental in
uncovering mechanisms of gene regulation. The coupling of NROs with high-throughput …

[HTML][HTML] Use of conditioned media is critical for studies of regulation in response to rapid heat shock

DB Mahat, JT Lis - Cell Stress and Chaperones, 2017 - Elsevier
… for the same period in the same conditions (Mahat et al. 2016b), and we documented the …
Highly enriched and non-redundant GO terms from the PANTHER database were selected …

[HTML][HTML] Coordinated expression of tristetraprolin post-transcriptionally attenuates mitogenic induction of the oncogenic Ser/Thr kinase Pim-1

DB Mahat, SE Brennan-Laun, EJ Fialcowitz-White… - PLoS …, 2012 - journals.plos.org
The serine/threonine kinase Pim-1 directs selected signaling events that promote cell growth
and survival and is overexpressed in diverse human cancers. Pim-1 expression is tightly …