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

1 ses reveal unique and common features during transcription initiation.

2 sible region against aberrant and/or ectopic transcription initiation.

3 t the deleterious consequences of inaccurate transcription initiation.

4 DNA replication for activation of late gene transcription initiation.

5 which binds regulatory factors that modulate transcription initiation.

6 ion, but not for either terminal or internal transcription initiation.

7 esponses in fission yeast cells by promoting transcription initiation.

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

9 s byproducts of RNA degradation and abortive transcription initiation.

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

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

12 asal transcriptional machinery to facilitate transcription initiation.

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

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

15 hanistic insight into the complex process of transcription initiation.

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

17 MAT1 subunits, is additionally required for transcription initiation.

18 mediates chromatin transitions to promote IE transcription initiation.

19 ferent states of promoter nucleosomes during transcription initiation.

20 ent transcriptional activity and polarity of transcription initiation.

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

22 the structure and mechanism of mitochondrial transcription initiation.

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

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

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

26 control mechanisms operating at the level of transcription initiation.

27 pecific positions can help promote efficient transcription initiation.

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

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

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

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

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

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

34 vation in cancer through de novo alternative transcription initiation.

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

36 nistically distinguishing these two modes of transcription initiation.

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

38 hosphorylation affects specific steps during transcription initiation.

39 titude of transcription factors that control transcription initiation.

40 ng of RNA Polymerase 2 at promoters impeding transcription initiation.

41 the first major pausing point during reverse transcription initiation.

42 nd within the different branches to regulate transcription initiation.

43 l activation is a universal prerequisite for transcription initiation.

44 rk of bacterial gene regulation, focusing on transcription initiation.

45 scription pre-initiation complex and ectopic transcription initiation.

46 ptible to therapeutics that promote aberrant transcription initiation.

47 tions involved in ECF-sigma-factor-dependent transcription initiation.

48 factors and RNA polymerase II to facilitate transcription initiation.

49 cruitment of active RNA polymerase II during transcription initiation.

50 that this regulation occurs at the level of transcription initiation.

51 ms, which often involve direct modulation of transcription initiation.

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

53 uencing to efficiently capture bidirectional transcription initiation across several human lymphoblas

54 Transcription initiation additionally requires the CdK a

55 Maf1 sequesters Pol III elements involved in transcription initiation and binds the mobile C34 winged

56 oses around the nucleic acid scaffold during transcription initiation and can be displaced by either

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

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

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

60 ing our understanding of sigma(54)-dependent transcription initiation and DNA opening.

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

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

63 The process of transcription initiation and elongation are primary poin

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

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

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

67 transcription, we found that Xrn1 modulates transcription initiation and elongation of its target ge

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

69 ade and the factors that are known to impact transcription initiation and elongation within protein-b

70 e probabilistic rates of promoter switching, transcription initiation and elongation, mRNA release an

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

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

73 II and factors involved in the regulation of transcription initiation and elongation.

74 A in vitro and in vivo, leading to increased transcription initiation and elongation.

75 could contribute to the regulation of Pol I transcription initiation and elongation.

76 s the effect genome replication has on viral transcription initiation and elongation.

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

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

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

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

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

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

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

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

85 ow direct RNA-seq data can be used to define transcription initiation and RNA cleavage sites associat

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

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

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

89 parated condensates that are associated with transcription initiation and splicing.

90 re is a separation between the timescales of transcription initiation and supercoiling dissipation (t

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

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

93 clin H, and MAT1, is a critical regulator of transcription initiation and the cell cycle.

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

95 polymerases and their inhibition, as well as transcription initiation and transcription factors, have

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

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

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

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

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

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

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

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

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

105 R bind proximally to RNA polymerase to drive transcription initiation at a subset of quorum-sensing g

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

107 anscription factor, controls the fidelity of transcription initiation at gene promoters in mouse embr

108 We present Survey of TRanscription Initiation at Promoter Elements with high-

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

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

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

112 arkings and Sp1 binding, suggesting spurious transcription initiation at the TXNIP 3' UTR as a functi

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

114 lled TrackCluster, we determined alternative transcription initiation (ATI), alternative polyadenylat

115 lular RNA polymerase (RNAP) is necessary for transcription initiation but the underlying molecular me

116 og DksA are bacterial proteins that regulate transcription initiation by binding directly to RNA poly

117 cription factor DNA-binding affinity reduces transcription initiation by diminishing occupancy of seq

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

119 In transcription initiation by Escherichia coli RNA polymer

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

121 IIH general transcription factor facilitates transcription initiation by opening the DNA strands arou

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

123 1, which is an important regulatory event in transcription initiation by Pol II, and it phosphorylate

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

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

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

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

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

129 heterodecameric protein complex critical for transcription initiation by RNA polymerase II and nucleo

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

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

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

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

134 Our results suggest that transcription initiation can be a powerful tool for expa

135 puts to be coordinated, and many events post-transcription initiation can dictate the levels and func

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

137 The first structure of a reverse transcription initiation complex (RTIC) that trapped the

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

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

140 Conformational transitions of the transcription initiation complex must be central for suc

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

142 .76 A-resolution crystal structure of an Msm transcription initiation complex with a promoter DNA fra

143 rase II (Pol II) involves the formation of a transcription initiation complex, and a transition to an

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

145 eraction within the human mitochondrial core transcription initiation complex, was 74% lower in septi

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

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

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

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

150 Here, we report crystal structures of transcription initiation complexes containing Mycobacter

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

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

153 g activities and aid in specific assembly of transcription initiation complexes.

154 t remain bound to gene promoters through the transcription initiation cycle.

155 usively at the +1 nucleosome suggests that a transcription-initiation dependent process could contrib

156 at is shared from Drosophila to human, and a transcription-initiation-dependent nuclear subcompartmen

157 e restored by fusion with the 100 bp minimum transcription initiation element (TIE) of Klk1b21, sugge

158 mRNA expression involves transcription initiation, elongation and degradation.

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

160 In addition to the many proteins involved in transcription initiation, elongation, and termination, s

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

162 somal ATPase Prp5p mediate a balance between transcription initiation/elongation and pre-spliceosome

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

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

165 inhibition or knockdown of BRF1 RNA pol III transcription initiation factor subunit (BRF1) enhanced

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

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

168 7/CYH-1 (CDK7/cyclin H) kinase module of the transcription initiation factor TFIIH.

169 tic convergence of a flexible element in the transcription initiation factor that engages the DNA tem

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

171 homologous Mtf1 and TFB2M proteins serve as transcription initiation factors of mitochondrial RNA po

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

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

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

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

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

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

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

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

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

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

182 ctional states during the dynamic process of transcription initiation have been captured using the si

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

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

185 Mechanistic studies of transcription initiation in bacteria are especially amen

186 physical studies targeting the mechanisms of transcription initiation in bacteria, including the form

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

188 p acquisition by Np(4)N incorporation during transcription initiation in bacterial cells.

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

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

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

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

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

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

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

196 p53 activates transcription initiation in part by aiding recruitment o

197 ion factors, have detailed the mechanisms of transcription initiation in phylogenetically diverse bac

198 are key regulatory proteins that control the transcription initiation in prokaryotes.

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

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

201 The regulated transcription initiation in response to various environm

202 -supported TSSs, suggesting highly pervasive transcription initiation in the compact genome of the bu

203 which the DNA binding cleft is opened during transcription initiation in the stalk-containing RNAPs,

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

205 a much more pervasive and dynamic nature of transcription initiation in yeast than previously recogn

206 We report structures of two transcription initiation intermediate states of yeast mt

207 et3 HDAC coordinately suppress cryptic ncRNA transcription initiation internal to mRNA genes.

208 Therefore, transcription initiation involving sigma(54) differs fro

209 Gene regulation by control of transcription initiation is a fundamental property of li

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

211 Faithful transcription initiation is critical for accurate gene e

212 Transcription initiation is finely regulated to ensure p

213 The spatial and temporal regulation of transcription initiation is pivotal for controlling gene

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

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

216 While H3K56Ac has a major impact on transcription initiation, it also appears to promote elo

217 roles of Mtf1 and TFB2M in promoter-specific transcription initiation, it can be expected that the DN

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

219 tion, yet understanding of mitochondrial DNA transcription initiation lags that of bacterial and nucl

220 agreement with a model of condensate-driven transcription initiation, large clusters of hypophosphor

221 ization of cellular factors that function in transcription initiation, leading to the delineation of

222 The mitochondrial transcription initiation machinery in humans consists of

223 Both the transcription-initiation machinery and the splicing mach

224 ene expression noise by changing the rate of transcription initiation, mRNA degradation, and mRNA tra

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

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

227 Transcription initiation of archaeal RNA polymerase (RNA

228 sive electronic resource about regulation of transcription initiation of Escherichia coli K-12 with d

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

230 transcription start sites of genes, allowing transcription initiation of particular genes.

231 Although proteins that control transcription initiation of specialized metabolite gene

232 d activates transcription by stabilizing the transcription initiation open-promoter complex (RPo).

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

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

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

236 ing into distinct condensates connected with transcription initiation or splicing.

237 ative stress, mitochondrial dysfunction, and transcription initiation pathways with direct fixation.

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

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

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

241 These findings link H2A.Z eviction to transcription initiation, promoter escape and early elon

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

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

244 However, transcription initiation rates also depend on the kineti

245 e coordination of RNA polymerase II (RNAPII) transcription initiation rates with cell size and that R

246 Our genomes encode a wealth of transcription initiation regions (TIRs) that can be iden

247 in yeast and mammals, covering the steps of transcription initiation, release of RNAPII from pausing

248 specific nucleosomes and its relationship to transcription initiation remain unclear.

249 conformational dynamics progress throughout transcription initiation remains unknown.

250 f Rad26, likely due to high occupancy of the transcription initiation/repair factor TFIIH in this nuc

251 petent for RNA synthesis, the selectivity of transcription initiation requires a sigma (sigma) factor

252 Transcription initiation requires formation of the open

253 Transcription initiation requires that the promoter DNA

254 r damage at sites of RNA polymerase (Pol) II transcription initiation, revealing a novel and critical

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

256 During transcription initiation, RNA polymerase (RNAP) holoenzy

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

258 During transcription initiation, RNA polymerase binds to promot

259 During transcription initiation RNAP remains associated with th

260 cterial sigma factors with different mode of transcription initiation (sigma(70) and sigma(54)).

261 ter sequence changes upstream of the site of transcription initiation similarly affect both the effic

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

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

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

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

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

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

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

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

270 -specific TOP mRNAs produced via alternative transcription initiation sites.

271 eosome positioning required to maintain open transcription-initiation sites.

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

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

274 el where RNAs produced during early steps in transcription initiation stimulate condensate formation,

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

276 The dynamic landscape of transcription initiation suggests a kinetically driven r

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

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

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

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

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

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

283 II and is essential for the transition from transcription initiation to elongation in vivo.

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

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

286 hinders understanding of the transition from transcription initiation to elongation.

287 ription machinery during the transition from transcription initiation to RNA capping and elongation.

288 change from condensates that are involved in transcription initiation to those that are involved in R

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

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

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

292 ability to regulate gene expression through transcription initiation underlies the adaptability and

293 e dU/A pair can inhibit promoter binding and transcription initiation up to 30-fold, and that inhibit

294 Transcription initiation was found to vary approximately

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

296 leading to RNA polymerase II recruitment and transcription initiation, whereas the contribution of po

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

298 e core RNA polymerase (RNAP) to control most transcription initiation, while alternative sigma-factor

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

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