ライフサイエンスコーパス: transcription initiation

1 esponses in fission yeast cells by promoting transcription initiation.

2 sion by Hes1 did not involve modification of transcription initiation.

3 unravel the mechanism of sigma(54) bacterial transcription initiation.

4 r sequence supposed to be needed in vivo for transcription initiation.

5 D in promoter recognition, PIC assembly, and transcription initiation.

6 control mechanisms operating at the level of transcription initiation.

7 have been proposed to function as sites for transcription initiation.

8 sion is controlled primarily at the level of transcription initiation.

9 rg1 to remodel the +1 nucleosome of Arg1 for transcription initiation.

10 A can be a positive or negative regulator of transcription initiation.

11 nal element, with a unified architecture for transcription initiation.

12 f Pol II during the first (de novo) round of transcription initiation.

13 istent with the length of DNA unwound during transcription initiation.

14 vation in cancer through de novo alternative transcription initiation.

15 from the 5' end, indicating that it inhibits transcription initiation.

16 nistically distinguishing these two modes of transcription initiation.

17 s and our understanding of the regulation of transcription initiation.

18 hosphorylation affects specific steps during transcription initiation.

19 titude of transcription factors that control transcription initiation.

20 in a conformation that is incompatible with transcription initiation.

21 rt RNA-DNA hybrids during the early stage of transcription initiation.

22 oteins cooperate to recruit CDK8 and enhance transcription initiation.

23 esult from processing and one is produced by transcription initiation.

24 itiating nucleotides, and thereby preventing transcription initiation.

25 titude of transcription factors that control transcription initiation.

26 igenetic factors in alternative splicing and transcription initiation.

27 s byproducts of RNA degradation and abortive transcription initiation.

28 ranscription elongation and eventually stops transcription initiation.

29 tream DNA dramatically reduces efficiency of transcription initiation.

30 to the 3' end of a nascent transcript during transcription initiation.

31 A exosome complex and by the nature of their transcription initiation.

32 resumed to be universally required for RNAP2 transcription initiation.

33 ar to be facilitated by factors conducive to transcription initiation.

34 y a mechanism that functions at the level of transcription initiation.

35 bscure, but undoubtedly involves steps after transcription initiation.

36 nstrate the importance of these contacts for transcription initiation.

37 tones plays an important role in controlling transcription initiation.

38 presence of omega6 in vitro is defective in transcription initiation.

39 gene expression is mediated by inhibition of transcription initiation.

40 trand promoter to study the role of TFB2M in transcription initiation.

41 tor (TF)IID is a central player in activated transcription initiation.

42 ., TFIID, TFIIB, and Mediator) for antisense transcription initiation.

43 -transcriptional regulation prior to zygotic transcription initiation.

44 his approach revealed the two known modes of transcription initiation.

45 asal transcriptional machinery to facilitate transcription initiation.

46 on (UTR), suggesting that the intron affects transcription initiation.

47 yeast to humans, play a central role during transcription initiation.

48 hanistic insight into the complex process of transcription initiation.

49 FIID is a key component of RNA polymerase II transcription initiation.

50 MAT1 subunits, is additionally required for transcription initiation.

51 mediates chromatin transitions to promote IE transcription initiation.

52 ferent states of promoter nucleosomes during transcription initiation.

53 ent transcriptional activity and polarity of transcription initiation.

54 In eukaryotic transcription initiation, a large multi-subunit pre-init

55 using by recruiting NELF to promoters before transcription initiation and by assisting in loading NEL

56 s play unexpectedly large roles in directing transcription initiation and constitute a previously unr

57 l for determining how the complex influences transcription initiation and conveys regulatory informat

58 or binds to RNA polymerase (RNAP) soon after transcription initiation and dissociation of the RNA pol

59 A export suggesting a mechanism for coupling transcription initiation and early steps of mRNA process

60 and short-RNA transcripts, two hallmarks of transcription initiation and early transcription.

61 on should simultaneously address deficits in transcription initiation and elongation at the FXN locus

62 ow that perturbation of THO function impairs transcription initiation and elongation by Pol I, identi

63 the roles of the PAF49/PAF53 heterodimer in transcription initiation and elongation by Pol I.

64 Spt6 (suppressor of Ty6) has many roles in transcription initiation and elongation by RNA polymeras

65 a chromatin remodeling complex that affects transcription initiation and elongation by RNA polymeras

66 polymerase and intermediate- and late-stage transcription initiation and elongation factors, plus th

67 We also demonstrate inefficiencies in transcription initiation and elongation from the expande

68 We propose a simple kinetic model of transcription initiation and elongation from which we ca

69 e to ADT was closely associated with AR gene transcription initiation and elongation rates.

70 scribed coding regions, and was required for transcription initiation and elongation steps in respons

71 spacing of nucleosomes, thereby controlling transcription initiation and elongation.

72 t these proteins may play important roles in transcription initiation and elongation.

73 how that Sal inhibits nucleotide addition in transcription initiation and elongation.

74 TFB-RNAP pre-initiation complex and inhibits transcription initiation and elongation.

75 visiae, where it has been shown to stimulate transcription initiation and elongation.

76 ariety of mechanisms including alteration of transcription initiation and inhibition of flagellar fun

77 bunits of the mediator complex implicated in transcription initiation and long-range enhancer/promote

78 lone, indicating a significant delay between transcription initiation and mRNA production early after

79 st general transcription factor required for transcription initiation and nucleotide excision repair.

80 genomic RNA plays an important role in viral transcription initiation and packaging of the viral geno

81 are integral to the regulation of eukaryotic transcription initiation and play key roles in preinitia

82 differential gene activity, suggesting that transcription initiation and Pol II release are the key

83 intain 5' triphosphate characteristic of the transcription initiation and possess a U-tail indicative

84 P30-eNP interaction plays a critical role in transcription initiation and provides a novel target for

85 ion factors can alter gene expression beyond transcription initiation and regulate pre-mRNA splicing,

86 provide insight into the mechanism of viral transcription initiation and reveal the diversity of the

87 vidence for nascent-chain realignment during transcription initiation and revealed a strong influence

88 ween RNAP holoenzyme and DNA responsible for transcription initiation and reveals the interactions be

89 dy-state RNA levels, rates of RNA synthesis, transcription initiation and RNA polymerase II elongatio

90 he stimulatory coupling of promoter binding, transcription initiation and RNA processing.

91 Finally, we study transcription initiation and scrunching of E. coli RNA-p

92 ing coordination of polymerization rate with transcription initiation and splicing suggests that tran

93 ochemical interactions between Tyr1 and both transcription initiation and termination factors.

94 ch as their cis-regulatory binding sites for transcription initiation and termination, gene expressio

95 ost RNA polymerase (RNAP) and regulates both transcription initiation and termination.

96 ted that there is regulation at the level of transcription initiation and that, surprisingly, the VSG

97 er RNA proceeds through sequential stages of transcription initiation and transcript elongation and t

98 RWT transrepression occurred at the level of transcription initiation and was mediated by decreased r

99 surface on TBP (to either promote or disrupt transcription initiation) and variable residence times o

100 key point to regulate gene expression is at transcription initiation, and activators play a major ro

101 le to carry out cap snatching, cap-dependent transcription initiation, and cap-independent ApG dinucl

102 xpression is highly regulated at the step of transcription initiation, and transcription activators p

103 directions, implying that the mechanisms of transcription initiation are drastically dissimilar at t

104 m has emerged in recent years characterizing transcription initiation as a bidirectional process enco

105 Our findings implicate alternate transcription initiation as a mechanism to increase the

106 vitro and represses abortive and productive transcription initiation, as well as elongation.

107 engaged in reiterative transcription during transcription initiation at a promoter resembling the py

108 enome and demonstrate ubiquitous presence of transcription initiation at CGIs, including alternative

109 a coli cAMP receptor protein (CRP) activates transcription initiation at many promoters by binding up

110 stinct from the linear pathway prevalent for transcription initiation at optimal promoters.

111 esin impairs both RNA polymerase II (Pol II) transcription initiation at promoters and elongation in

112 These results support a unified model of transcription initiation at promoters and enhancers.

113 nonical TATA boxes, suggesting a model where transcription initiation at promoters by RNAPII is bidir

114 dies; genes to be 'induced' exhibited active transcription initiation at promoters, but with transcri

115 orm higher-order self-assemblies to regulate transcription initiation at stress response and pathogen

116 relevance of this U-turn is associated with transcription initiation at the mitochondrial light stra

117 ein 30 (eVP30) plays a critical role in EBOV transcription initiation at the nucleoprotein (eNP) gene

118 calization data, we found strong evidence of transcription initiation at the upstream CGI and a lack

119 Alternative splicing (AS), alternative transcription initiation (ATI) and alternative transcrip

120 nscript initiates from a de novo alternative transcription initiation (ATI) site in ALK intron 19, an

121 onoallelic control is not determined only at transcription initiation, but also at further control st

122 Transcription initiation by bacterial sigma(54)-polymera

123 he multisubunit TFIID plays a direct role in transcription initiation by binding to core promoter ele

124 inding and endonuclease domains required for transcription initiation by cap-snatching.

125 In transcription initiation by Escherichia coli RNA polymer

126 criminator and open complex (OC) lifetime in transcription initiation by Escherichia coli RNA polymer

127 subunits of the bacterial RNAp and inhibits transcription initiation by inducing the displacement of

128 and replication of the mitochondrial genome, transcription initiation by mtRNAP remains poorly unders

129 In contrast, the inhibition of transcription initiation by p7 does not require omega bu

130 sized that H3K9ac may function downstream of transcription initiation by recruiting proteins importan

131 activator complex Mediator enables regulated transcription initiation by RNA polymerase (Pol) II.

132 Eukaryotic tRNA biogenesis begins with transcription initiation by RNA polymerase (pol) III.

133 We found that transcription initiation by RNA polymerase 2 resulted in

134 Transcription initiation by RNA Polymerase I (Pol I) dep

135 cription factor IIE (TFIIE) is essential for transcription initiation by RNA polymerase II (RNA pol I

136 Experimental and bioinformatic studies of transcription initiation by RNA polymerase II (RNAP2) ha

137 romoter, such as the initiator (Inr), direct transcription initiation by RNA polymerase II.

138 , which regulates promoter accessibility for transcription initiation by RNA polymerase II.

139 ed to open pre-initiation complex transition.Transcription initiation by RNA polymerase III requires

140 n our results, we propose a refined model of transcription initiation by the human mitochondrial tran

141 n sequence, which dictates the efficiency of transcription initiation by the mitochondrial RNA polyme

142 Based on the overlap of transcription initiation clusters with mapped transcript

143 We found that ZMYND8 interacts with transcription initiation-competent RNA polymerase II pho

144 chromatin-mediated effects control divergent transcription initiation, complementing downstream pathw

145 olution crystal structure of a mycobacterial transcription initiation complex (TIC) with RbpA as well

146 ions in formation of catalytically competent transcription initiation complex by measuring initiation

147 ol element to facilitate the assembly of the transcription initiation complex including SL1 and Pol I

148 the organization of the human mitochondrial transcription initiation complex on the light-strand pro

149 tes that the two factors can act on the same transcription initiation complex simultaneously.

150 We present the structure of de novo transcription initiation complex that reveals unique con

151 .76 A-resolution crystal structure of an Msm transcription initiation complex with a promoter DNA fra

152 he nascent transcripts are released from the transcription initiation complex, thereby reducing the l

153 elongation complex, similar to sigma2 in the transcription initiation complex, to stabilize the junct

154 ith RBP-JK, which then recruits EBNA2 to the transcription initiation complex.

155 a model of the RbpA-SID in the context of a transcription initiation complex.

156 of the transcription bubble to stabilize the transcription initiation complex.

157 s depending on the accurate formation of the transcription initiation complex.

158 e we report the crystal structures of E coli transcription initiation complexes (TICs) containing the

159 quencing), we identify approximately 160,000 transcription initiation complexes across the human K562

160 ore recognition element (CRE) that stabilize transcription initiation complexes also occur in transcr

161 rt crystal structures of human mitochondrial transcription initiation complexes assembled on both lig

162 we present the crystal structures of E. coli transcription initiation complexes containing a complete

163 we determined crystal structures of Thermus transcription initiation complexes containing CarD.

164 IF-IA at Ser-635, precluding the assembly of transcription initiation complexes for rDNA.

165 The molecular architecture of RNAP II-like transcription initiation complexes remains opaque due to

166 erates via the mutually exclusive binding of transcription initiation complexes to closely opposed fo

167 generally defined as the regions that direct transcription initiation, consist of functional core pro

168 mRNA expression involves transcription initiation, elongation and degradation.

169 affold, interacting with factors involved in transcription initiation, elongation and termination, RN

170 s of target genes suggesting its function in transcription initiation, elongation and termination.

171 ctions of Med25 in nucleosome remodeling and transcription initiation-elongation coupling that underl

172 s in RNA polymerase II pausing shortly after transcription initiation, especially for synchronized ge

173 ciated Factor (TAF) of the RNA polymerase II transcription initiation factor complex TFIID.

174 TP depletion, which inhibits the function of transcription initiation factor I (TIF-IA) and impacts t

175 Transcription initiation factor I (TIF-IA) plays an esse

176 somal RNA synthesis in T cells by inhibiting transcription initiation factor I (TIF-IA), a GTP-bindin

177 itated recruitment of specificity protein 1, transcription initiation factor II-D, and p-RNA polymera

178 H3K36me3 facilitates RRM2 expression through transcription initiation factor recruitment; second, WEE

179 complexes and the RNA polymerase I-specific transcription initiation factor RRN3, were up-regulated

180 F1 gene, which encodes an RNA polymerase III transcription initiation factor subunit for further anal

181 It has been recently suggested that the transcription initiation factor TFAM binds to HSP and LS

182 7/CYH-1 (CDK7/cyclin H) kinase module of the transcription initiation factor TFIIH.

183 omplexes required for Pol III transcription, transcription initiation factors (TF) IIIB and IIIC.

184 tudy we mapped the binding sites of the core transcription initiation factors TFAM and TFB2M on human

185 drive HIV into latency are sequestration of transcription initiation factors, establishment of epige

186 repeat and interacts genetically with Pol I transcription initiation factors.

187 AR9 nvRNAP and may represent a new group of transcription initiation factors.

188 Thus, we demonstrate that transcription initiation follows diverse pathways on the

189 e that Sigma E acts directly at the level of transcription initiation for eptB, from the same start p

190 can act as accessory factors regulating the transcription initiation from a nearby promoter.

191 Our results indicate that bidirectional transcription initiation from accessible chromatin is no

192 ressive chromatin in order to limit aberrant transcription initiation from cryptic promoters present

193 ix-like structure and specifically represses transcription initiation from host RNAP-dependent promot

194 Our findings reveal a novel mechanism of transcription initiation from TATA-less promoters.

195 ilencing of previously expressed isoforms by transcription initiation from upstream Orf50 promoters h

196 The practically exclusive use of GTP for transcription initiation further compounds this challeng

197 Widespread intragenic transcription initiation has been observed in many speci

198 ght to merely represent noise from imprecise transcription initiation, have now emerged as major regu

199 We characterized the landscape of RNA Pol II transcription initiation, identifying 73,500 distinct cl

200 n of recombinant Def1 and Ela1-Elc1 enhanced transcription initiation in an in vitro reconstituted sy

201 ables study of condition-specific changes in transcription initiation in bacteria.

202 Using quantitative measures of transcription initiation in both humans and mice across

203 egulatory proteins to simultaneously control transcription initiation in both mtDNA strands.

204 xplored method for deciphering mechanisms of transcription initiation in cells.

205 Additionally, we mapped preferred sites of transcription initiation in each organism using PRO-cap.

206 TFIID is a cornerstone of RNA polymerase II transcription initiation in eukaryotic cells.

207 xamine the kinetics of RNA polymerase (RNAP) transcription initiation in greater detail.

208 generally limits the productive frequency of transcription initiation in human cells ('pause-initiati

209 onent of the DNA sequence rules that specify transcription initiation in humans.

210 p53 activates transcription initiation in part by aiding recruitment o

211 gle-molecule optical-trapping assay to study transcription initiation in real time, and use it to map

212 interferes with HSF-1 binding and suppresses transcription initiation in response to stress.

213 esults in the majority of ppGpp's effects on transcription initiation in vitro and in vivo, and strai

214 the binding of Rrn3 to Pol I is essential to transcription initiation in yeast and mammals, our resul

215 , MYC both positively and negatively affects transcription initiation independent of its effect on tr

216 Here, we show that bidirectional transcription initiation is a pervasive feature of acces

217 role of core promoter elements in regulating transcription initiation is largely unknown for genes su

218 in-protein interactions (PPIs) that underpin transcription initiation is poorly defined, particularly

219 Transcription initiation is the crucial focal point of g

220 d in mitochondrial DNA (mtDNA) packaging and transcription initiation, is an ideal candidate to test

221 quilibrium shifting" mechanism in regulating transcription initiation; it modulates RNAP's binding-un

222 I (RNAP2) have revealed a mechanism of RNAP2 transcription initiation less uniform across gene promot

223 The mitochondrial transcription initiation machinery in humans consists of

224 However, neither cryptic transcription initiation, nor alternative pre-mRNA splic

225 yeast, Saccharomyces cerevisiae, results in transcription initiation of antisense RNAs embedded with

226 Transcription initiation of archaeal RNA polymerase (RNA

227 on regions (TTRs) is accompanied by aberrant transcription initiation of genes co-oriented with the r

228 Although proteins that control transcription initiation of specialized metabolite gene

229 Thus transcription itself regulates transcription initiation or repression at many regions o

230 modifying enzymes to promoters, allowing for transcription initiation or repression.

231 We found that inhibition of transcription initiation or RNA splicing, but not transl

232 In this work, we present the Transcription Initiation Pattern Recognizer (TIPR), a se

233 se that the entire DJCbeta regions behave as transcription "initiation" platforms, therefore linking

234 n from each state to the next throughout the transcription initiation process.

235 We distinguish two stages of the transcription initiation process: bubble formation by TF

236 ding RNA polymerase II (Pol II) recruitment, transcription initiation, promoter-proximal Pol II pause

237 gnals to activate transcription initiation), transcription initiation rate, transcription elongation

238 We present evidence that while transcription initiation rates do not seem to influence

239 Transcription initiation requires that the promoter DNA

240 During transcription initiation, RNA polymerase (RNAP) binds to

241 During transcription initiation, RNA polymerase (RNAP) holoenzy

242 In bacterial transcription initiation, RNA polymerase (RNAP) selects

243 During transcription initiation, RNA polymerase binds to promot

244 During transcription initiation RNAP remains associated with th

245 IIA, and Rap1 contribute to the high rate of transcription initiation seen on RPGs in vivo.

246 l downstream DNA duplex needed for efficient transcription initiation shifted further away from the c

247 For transcription initiation, sigma(54)-RNA polymerase yield

248 In this study we identified a new RSK4 transcription initiation site and several alternative sp

249 NuA4 KAT associates with the GAL10 antisense transcription initiation site at the 3' end of the codin

250 ymerase II (Pol II) pauses downstream of the transcription initiation site before beginning productiv

251 upstream regions more than 1,000 bp from the transcription initiation site for most of these genes.

252 Here, we show that the absence of a strong transcription initiation site in the G11 gene results in

253 T promoter when the ICP4-binding site at its transcription initiation site is mutated, suggesting tha

254 cruitment of NuA4 KAT to the GAL10 antisense transcription initiation site promotes GAL10 antisense t

255 s bind sequence-specifically upstream of the transcription initiation site via a DNA-binding domain (

256 at the distal TIE located at 401 bp from the transcription initiation site, is required for TGFbeta r

257 ruits Reb1p activator to the GAL10 antisense transcription initiation site.

258 prisingly, accurate detection of human mtDNA transcription initiation sites (TISs) in the heavy and l

259 CGIs often include transcription initiation sites and display 'active' hist

260 RNA polymerase transcription initiation sites are largely unknown in Ca

261 novel gene 50 transcripts initiating from 2 transcription initiation sites located upstream of the c

262 We mapped the transcription initiation sites of all three primary miRN

263 identified the ICP4-binding sequences at the transcription initiation sites of both HSV-2 LAT (pri-mi

264 We assign transcription initiation sites to 7691 protein-coding ge

265 Surprisingly, TL-seq identified transcription initiation sites within 6% of protein-codi

266 creases the number of transcripts with novel transcription initiation sites, spliced variants and alt

267 ies of repetitive elements act as autonomous transcription initiation sites.

268 II, chromatin marks characteristic of active transcription initiation sites.

269 und in the region of -900 bp relative to the transcription initiation start (TIS) where two regulator

270 curb inflammatory gene expression target pre-transcription-initiation steps, and evidence for post-in

271 itiator element and that factors involved in transcription initiation (stimulating protein 1, TFII-I,

272 enes analyzed have nearly identical rates of transcription initiation, suggesting a common mechanism.

273 t conservation of protein coding domains and transcription initiation, termination, and splicing sign

274 reates an environment that is permissive for transcription initiation/termination, thus generating no

275 ular and bacteriophage-encoded regulators of transcription initiation that have been functionally dis

276 de pseudo-atomic models at various stages of transcription initiation that illuminate critical molecu

277 al TBP family-insensitive (TFI) mechanism of transcription initiation that involves mesoderm and orga

278 During transcription initiation, the promoter DNA is recognized

279 During transcription initiation, the TFIIH-kinase Kin28/Cdk7 ma

280 Here we examine the architecture of transcription initiation through comprehensive mapping o

281 TraR, a DksA homolog, modulates transcription initiation through the secondary channel o

282 of general transcription factor binding and transcription initiation to become accessible.

283 The transition from transcription initiation to elongation at promoters of p

284 The transition from transcription initiation to elongation is a key regulato

285 cooperating to allow proper transition from transcription initiation to elongation.

286 , a co-activator that has been implicated in transcription initiation, to TFI gene promoters is incre

287 me it takes for external signals to activate transcription initiation), transcription initiation rate

288 rks traditionally associated with enhancers, transcription initiation, transcriptional repression, an

289 are less subject to removal via alternative transcription initiation under normal growth conditions.

290 Transcription initiation was found to vary approximately

291 etter understand this mechanism of bacterial transcription initiation, we characterized the sigma(54)

292 ition +6 does not play a significant role in transcription initiation when RNAP-promoter interactions

293 wo fundamentally different modes of defining transcription initiation, which drive the dynamic change

294 are required for different modes of zygotic transcription initiation, which is not simply dependent

295 heir chromosome from detrimental factors; or transcription initiation, which occurs in clusters calle

296 cRNAs into pre-initiation complexes prevents transcription initiation, while non-repressive ncRNAs ar

297 election and the hierarchy of events linking transcription initiation with key chromatin modification

298 ia coli frequently results from constitutive transcription initiation within the coding regions of ge

299 ncrease in pausing signal reflects increased transcription initiation without changes in Pol II pausi

300 H3K4me3 can promote transcription initiation, yet the functional role of H3K