Author details

Full Name

Zarmik Moqtaderi

Affiliation

ORCID

Career Start Year

1996

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37094136	Condition-specific 3'Â mRNA isoform half-lives and stability elements in yeast.		2023
37748648	Elongation rate of RNA polymerase II affects pausing patterns across 3' UTRs.		2023
35058367	A compensatory link between cleavage/polyadenylation and mRNA turnover regulates steady-state mRNA levels in yeast.	Proceedings of the National Academy of Sciences of the United States of America	2022
35972270	3' Untranslated Regions Are Modular Entities That Determine Polyadenylation Profiles.	Molecular and Cellular Biology	2022
36421680	Nucleotide-level linkage of transcriptional elongation and polyadenylation.	eLife	2022
34649930	Genome-wide oscillations in G + C density and sequence conservation.	Genome Res	2021
32845240	The transcriptional elongation rate regulates alternative polyadenylation in yeast.	eLife	2020
31503412	Protein Binding to mRNA 3' Isoforms.	Current Protocols in Molecular Biology	2019
31503415	Probing In Vivo Structure of Individual mRNA 3' Isoforms Using Dimethyl Sulfate.	Current Protocols in Molecular Biology	2019
30318446	Extensive Structural Differences of Closely Related 3' mRNA Isoforms: Links to Pab1 Binding and mRNA Stability.	Molecular Cell	2018
26463393	Genome-Wide Study of mRNA Isoform Half-Lives.	Methods in Molecular Biology	2016
25827089	Mapping 3' mRNA isoforms on a genomic scale.	Current Protocols in Molecular Biology	2015
24529382	Global analysis of mRNA isoform half-lives reveals stabilizing and destabilizing elements in yeast.	Cell	2014
25279376	Secondary structures involving the poly(A) tail and other 3' sequences are major determinants of mRNA isoform stability in yeast.	Microbial Cell	2014
24510296	Construction of mutant alleles in Saccharomyces cerevisiae without cloning: overview and the delitto perfetto method.	Current Protocols in Molecular Biology	2013
23776204	Species-specific factors mediate extensive heterogeneity of mRNA 3' ends in yeasts.	Proceedings of the National Academy of Sciences of the United States of America	2013
23288465	Multiplex Illumina sequencing using DNA barcoding.	Current Protocols in Molecular Biology	2013
22722849	SIRT7 links H3K18 deacetylation to maintenance of oncogenic transformation.	Nature	2012
21695216	Iwr1 protein is important for preinitiation complex formation by all three nuclear RNA polymerases in Saccharomyces cerevisiae.	PLoS ONE	2011
20139302	Close association of RNA polymerase II and many transcription factors with Pol III genes.	Proc Natl Acad Sci U S A	2010
21084631	High-throughput sequencing reveals a simple model of nucleosome energetics.	Proceedings of the National Academy of Sciences of the United States of America	2010
20683474	Evidence against a genomic code for nucleosome positioning. Reply to "Nucleosome sequence preferences influence in vivo nucleosome organization.".	Nat Struct Mol Biol	2010
20921369	Nucleosome depletion at yeast terminators is not intrinsic and can occur by a transcriptional mechanism linked to 3'-end formation.	Proceedings of the National Academy of Sciences of the United States of America	2010
20418883	Genomic binding profiles of functionally distinct RNA polymerase III transcription complexes in human cells.	Nat Struct Mol Biol	2010
19706456	Mapping accessible chromatin regions using Sono-Seq.	Proc Natl Acad Sci U S A	2009
19620965	Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo.	Nat Struct Mol Biol	2009
18338317	Expanding the repertoire of plasmids for PCR-mediated epitope tagging in yeast.	Yeast	2008
18258921	Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets.	Genome Res	2008
17571346	Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.	Nature	2007
18265358	Chromatin immunoprecipitation for determining the association of proteins with specific genomic sequences in vivo.	Current Protocols in Molecular Biology	2005
15949447	Intrinsic histone-DNA interactions and low nucleosome density are important for preferential accessibility of promoter regions in yeast.	Molecular Cell	2005
14701747	Eaf3 regulates the global pattern of histone acetylation in Saccharomyces cerevisiae.	Molecular and Cellular Biology	2004
18265347	Defining in vivo targets of nuclear proteins by chromatin immunoprecipitation and microarray analysis.	Current Protocols in Molecular Biology	2004
15121834	Genome-wide occupancy profile of the RNA polymerase III machinery in Saccharomyces cerevisiae reveals loci with incomplete transcription complexes.	Molecular and Cellular Biology	2004
11983173	Activator-specific recruitment of TFIID and regulation of ribosomal protein genes in yeast.	Molecular Cell	2002
12417716	Mot1 associates with transcriptionally active promoters and inhibits association of NC2 in Saccharomyces cerevisiae.	Molecular and Cellular Biology	2002
18265094	Manipulation of cloned yeast DNA.	Current Protocols in Molecular Biology	2001
10777519	TFIIA has activator-dependent and core promoter functions in vivo.	Journal of Biological Chemistry	2000
10384306	Activation and repression mechanisms in yeast.	Cold Spring Harbor Symposia on Quantitative Biology	1998
9674419	The TAFs in the HAT.	Cell	1998
9844639	The histone H3-like TAF is broadly required for transcription in yeast.	Molecular Cell	1998
8774887	TBP-associated factors are not generally required for transcriptional activation in yeast.	Nature	1996
8962109	Yeast homologues of higher eukaryotic TFIID subunits.	Proc Natl Acad Sci U S A	1996