Poly(dA:dT) tracts: major determinants of nucleosome organization

scientific article published on 07 February 2009

Poly(dA:dT) tracts: major determinants of nucleosome organization is …
instance of (P31):
scholarly articleQ13442814
review articleQ7318358

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P356DOI10.1016/J.SBI.2009.01.004
P8608Fatcat IDrelease_xmmqch6rmfbudnsvofjsg7pgwe
P932PMC publication ID2673466
P698PubMed publication ID19208466
P5875ResearchGate publication ID23998883

P50authorEran SegalQ5384865
P2093author name stringJonathan Widom
P2860cites workDNA bending by an adenine-thymine tract and its role in gene regulationQ27633005
Structural origins of adenine-tract bendingQ27640492
DNA A-tract bending in three dimensions: Solving the dA4T4 vs. dT4A4 conundrumQ27643016
The structure of an oligo(dA).oligo(dT) tract and its biological implicationsQ27728751
A DNA dodecamer containing an adenine tract crystallizes in a unique lattice and exhibits a new bendQ27732186
Chromatin remodelling at promoters suppresses antisense transcriptionQ27932684
Different roles for abf1p and a T-rich promoter element in nucleosome organization of the yeast RPS28A geneQ27938874
A DNA binding protein that recognizes oligo(dA).oligo(dT) tractsQ27939932
DNA sequence-dependent deformability deduced from protein-DNA crystal complexesQ29616629
Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosomeQ29618064
Localization of ammonium ions in the minor groove of DNA duplexes in solution and the origin of DNA A-tract bendingQ30558409
NMR observation of individual molecules of hydration water bound to DNA duplexes: direct evidence for a spine of hydration water present in aqueous solutionQ30894628
Distinct modes of regulation by chromatin encoded through nucleosome positioning signalsQ33383211
Poly(dA.dT) sequences exist as rigid DNA structures in nucleosome-free yeast promoters in vivoQ33825895
Activation of yeast RNA polymerase II transcription by a thymidine-rich upstream element in vitroQ33831257
Nucleosome reconstitution on plasmid-inserted poly(dA) . poly(dT)Q33927820
The structure of DNA in the nucleosome coreQ33965908
Multimerization-cyclization of DNA fragments as a method of conformational analysisQ34174353
Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. II: sequence context effects on the dynamical structures of the 10 unique dinucleotide stepsQ34352331
Predicting indirect readout effects in protein-DNA interactionsQ34375170
Genome-scale identification of nucleosome positions in S. cerevisiaeQ34427114
A high-resolution atlas of nucleosome occupancy in yeastQ34688532
Chromatin and core particles formed from the inner histones and synthetic polydeoxyribonucleotides of defined sequenceQ35751750
Poly(dA).poly(dT) rich sequences are not sufficient to exclude nucleosome formation in a constitutive yeast promoterQ35845644
Statistical distributions of nucleosomes: nonrandom locations by a stochastic mechanismQ36058611
Formation of boundaries of transcriptionally silent chromatin by nucleosome-excluding structuresQ36420584
Constitutive and inducible Saccharomyces cerevisiae promoters: evidence for two distinct molecular mechanismsQ36899311
Naturally occurring poly(dA-dT) sequences are upstream promoter elements for constitutive transcription in yeastQ37539289
Poly(dA:dT), a ubiquitous promoter element that stimulates transcription via its intrinsic DNA structure.Q37697997
Chromatin remodeling during Saccharomyces cerevisiae ADH2 gene activationQ38358518
Poly(dA-dT) promoter elements increase the equilibrium accessibility of nucleosomal DNA target sitesQ39459477
Distinct frequency-distributions of homopolymeric DNA tracts in different genomesQ39724816
Energetics of base pair opening in a DNA dodecamer containing an A3T3tractQ40394306
Wrapping of genomic polydA.polydT tracts around nucleosome core particlesQ40421099
Destabilization of nucleosomes by an unusual DNA conformation adopted by poly(dA) small middle dotpoly(dT) tracts in vivoQ40429996
Nucleosomes will not form on double-stranded RNa or over poly(dA).poly(dT) tracts in recombinant DNA.Q40500880
Nucleosome cores reconstituted from poly (dA-dT) and the octamer of histonesQ40501724
Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences.Q40813511
A poly(dA.dT) tract is a component of the recombination initiation site at the ARG4 locus in Saccharomyces cerevisiaeQ41177000
A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genomeQ41336121
Dual role of sequence-dependent DNA curvature in nucleosome stability: the critical test of highly bent Crithidia fasciculata DNA tractQ42619443
High-resolution structure of an extended A-tract: [d(CGCAAATTTGCG)]2.Q45162198
Datin, a yeast poly(dA:dT)-binding protein, behaves as an activator of the wild-type ILV1 promoter and interacts synergistically with Reb1p.Q48012467
Sequence-dependent DNA structure: a database of octamer structural parametersQ48227488
Functional analysis of a homopolymeric (dA-dT) element that provides nucleosomal access to yeast and mammalian transcription factors.Q50143851
Dependence of DNA helix flexibility on base composition.Q50927607
High-throughput mapping of the chromatin structure of human promoters.Q51582234
Thermodynamics and premelting conformational changes of phased (dA)5 tracts.Q52387977
Imino proton exchange in DNA catalyzed by ammonia and trimethylamine: evidence for a secondary long-lived open state of the base pair.Q53918752
Sequence dependence of the helical repeat of DNA in solutionQ59085719
Helical periodicity of DNA determined by enzyme digestionQ59097842
Cooperativity in A-tract structure and the bending properties of composite TnAn blocksQ60357634
Evidence from base-pair kinetics for two types of adenine tract structures in solution: their relation to DNA curvatureQ68045082
Distinguishing between mechanisms of eukaryotic transcriptional activation with bacteriophage T7 RNA polymeraseQ68180560
The unusual conformation adopted by the adenine tracts in kinetoplast DNAQ70169579
Modulation of cyclobutane pyrimidine dimer formation in a positioned nucleosome containing poly(dA.dT) tractsQ71165671
Dual role of DNA intrinsic curvature and flexibility in determining nucleosome stabilityQ74579910
Nucleosome core particles containing a poly(dA.dT) sequence element exhibit a locally distorted DNA structureQ79964154
P433issue1
P304page(s)65-71
P577publication date2009-02-07
P1433published inCurrent Opinion in Structural BiologyQ15758416
P1476titlePoly(dA:dT) tracts: major determinants of nucleosome organization
P478volume19

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