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

1 t deletion (nt -146 to -1008 relative to the transcription start site).

2 is formed in the NEIL3 PQS located near the transcription start site.

3 sitive element located upstream of the major transcription start site.

4 ions, on the basis of their proximity to the transcription start site.

5 t exons (ALEs) that are more proximal to the transcription start site.

6 histone H4 at tyrosine 88 upstream of the AR transcription start site.

7 d by a function of genomic distance from the transcription start site.

8 targeting with increasing distance from the transcription start site.

9 in the upstream sequence within 3 kb of the transcription start site.

10 ic location of dCas9 binding relative to the transcription start site.

11 ocated proximal to and upstream of the AICDA transcription start site.

12 ly spaced nucleosomes phased relative to the transcription start site.

13 g 91 bp upstream and 60 bp downstream of the transcription start site.

14 f the Il2 gene located 83 kb upstream of the transcription start site.

15 esence of a subdominant peak upstream of the transcription start site.

16 ement located around 2 kb upstream of SQSTM1-transcription start site.

17 nteraction between Ubx enhancers and the Ubx transcription start site.

18 tivity of pol II that is preassembled at the transcription start site.

19 cluster located just upstream of the cxcr4b transcription start site.

20 ly spaced nucleosomes phased relative to the transcription start site.

21 from one chromatin state to another at their transcription start site.

22 ding site (PRBS) 87 kb upstream of the RANKL transcription start site.

23 otein production is achieved via alternative transcription start sites.

24 n brain including genic enhancers and active transcription start sites.

25 including peaks identified in enhancers and transcription start sites.

26 translated regions and also present multiple transcription start sites.

27 B4-truncated transcripts displaying intronic transcription start sites.

28 e, feed-forward loops and use of alternative transcription start sites.

29 Zta binds mostly to sites that are distal to transcription start sites.

30 nfiguration in which Pol II accumulates near transcription start sites.

31 gulated in part via a decrease of H3K4me3 at transcription start sites.

32 lymerase II (Pol II) occupancy downstream of transcription start sites.

33 inucleotide frequency and GC enrichment near transcription start sites.

34 pausing sites are near or far from annotated transcription start sites.

35 alysis showed they are located within active transcription start sites.

36 by centering a window of fixed size at their transcription start sites.

37 ctivity, a putative initiator element at the transcription start site acts as a target for negative r

38 enomic regions upstream or downstream of the transcription start site allows for specific and sustain

39 cant enrichment in G4 sequence motifs at the transcription start site and 5' ends of first introns (f

40 an increase of relative 5(me)C levels at the transcription start site and a decrease in the gene-body

41 arly elongation within 500 base pairs of the transcription start site and akin to its bacterial homol

42 evealed itself only with focused analyses of transcription start site and gene body regions (in contr

43 he triplet enrichment and depletion near the transcription start site and identify triplets that have

44 +1 nucleosome which, in yeast, obstructs the transcription start site and is frequently assembled wit

45 iation by opening the DNA strands around the transcription start site and phosphorylating the C-termi

46 Pol II transcribed genes with preference for transcription start site and promoter regions and a larg

47 le genes by releasing paused RNAPII near the transcription start site and promoting transcription elo

48 ining genes, R-loops are bounded between the transcription start site and the first exon-intron junct

49 ors located many kilobases downstream of the transcription start site and to produce invariably tight

50 mation of gene loops that bring together the transcription start site and transcription termination s

51 creased recruitment of RNA polymerase to the transcription start site and upregulation of target oper

52 between -7585 and -5550 bp ahead of the main transcription start site and via an NF-kappaB-dependent

53 NA methylation at CpG sites near the primary transcription start site and within exon 2 partially med

54 q reveal enrichment of Lin28A binding around transcription start sites and a positive correlation bet

55 signatures of natural selection around their transcription start sites and are enriched for cis-regul

56 eosomes positioned immediately downstream of transcription start sites and at different densities acr

57 EBNA1 binding sites are located proximal to transcription start sites and correlate genome-wide with

58 oteins guide gamma-retroviral integration to transcription start sites and enhancers through bimodal

59 es well-positioned nucleosomes downstream of transcription start sites and flanking splice sites.

60 Our systematic study determines 3,570 transcription start sites and identifies 230 small RNAs

61 ugh DNase-I hypersensitive sites (DHSs) near transcription start sites and independently through 3' U

62 f Setd5, histone acetylation is increased at transcription start sites and near downstream regions.

63 lts suggest a model in which MuvB binds near transcription start sites and plays a role in positionin

64 levels and bound to dap160 and endophilin B transcription start sites and promoters in whole nervous

65 Using 5' RACE, we identified three transcription start sites and several splice variants of

66 nd aligns important genomic features such as transcription start sites and splicing sites from histon

67 SEnd-seq notably expands the catalogue of transcription start sites and termination sites, defines

68 ference for purine nucleotides at eukaryotic transcription start sites and the correlation between me

69 thylases leads to accumulation of H3K9me3 on transcription start sites and the corresponding downregu

70 esignated nucleosome-depleted regions around transcription start sites and transcription termination

71 gulates glucose-induced H3 K9 acetylation at transcription starting site and enhancer regions.

72 pproximately 100 bases upstream of the CEBPA transcription start site, and demonstrated through mutat

73 H2A.Z initially localizes downstream of the transcription start site, and if H2A.Z is already presen

74 ously thought, due to differences around the transcription start site, and that its expression is rep

75 ximately 44 kb DNA spanning promoter region, transcription start site, and the CAG expansion mutation

76 located in the 177-bp region upstream of the transcription start site, and this region did not contai

77 de the same observations when using H3K4me3, transcription start sites, and RNA polymerase II to repr

78 ion of sequencing reads, their enrichment at transcription start sites, and transcription factor foot

79 ods, we have determined total RNA abundance, transcription start sites, and transcription termination

80 lity, enhancer activity, and distance to the transcription start site are features of dose-sensitive

81 Transcription start sites are also binding sites of Orig

82 s that nucleosomes immediately downstream of transcription start sites are anchored and recapitulates

83 The majority of transcription start sites are associated with distal or

84 Species-specific TE-derived transcription start sites are found to drive the express

85 Intriguingly, HIV-1-induced ERVs harboring transcription start sites are primarily found in the vic

86 ng enhancer models and find that gene-distal transcription start sites are robust predictors of activ

87 ccessibility and nucleosome positioning near transcription start sites, as well as a reversal of expo

88 nversion of 5mCG to 5hmCG within 2 kb of the transcription start site associates with distinct functi

89 the cps genes are cotranscribed from a major transcription start site at the -25 nucleotide (G) upstr

90 d tup12(+), although the distribution of the transcription start sites becomes broader than that in w

91 s demonstrate that ASFV utilizes alternative transcription start sites between early and late stages

92 TEs are seldom found at promoters and transcription start sites, but they are found more at en

93 ncluding target genes, nearby genes, nearest transcription start site, chromosome fragile sites, CpG

94 of naked DNA, and chromatin gave patterns of transcription start sites closely similar to those occur

95 nd found that the 70 bp upstream of the AT2R transcription start site contain a core promoter region,

96 ted patients, CpG hypomethylation at the HLF transcription start site correlated with high HLF mRNA e

97 m novel first exons consistent with existing transcription start site data.

98 e results show striking enrichment of PAR at transcription start sites, depletion of heterochromatin

99 ion, a nucleosome occluding the TATA box and transcription start sites did not impede transcription b

100 u insertions were in closer proximity to the transcription start site (distance: 542 bp) than to the

101 growth through utilization of an alternative transcription start site driven by the master filamentat

102 aphase-promoting complex (APC/C) to specific transcription start sites during mitosis.

103 n profile and hyperacetylated nucleosomes at transcription start sites establish a chromatin landscap

104 as the presence of epigenetic marks at their transcription start sites, evolutionary conservation amo

105 uences extending nearly 2 kb upstream of the transcription start site for 68 alleles from 57 major li

106 5' RACE indicates a transcription start site for HYDIN2 outside of the dupli

107 ric importance of methylation signals around transcription start site for predicting gene expression,

108 on principles of nucleosomes surrounding the transcription start site for silent and actively transcr

109 isoform of TET1 (TET1ALT) that has a unique transcription start site from an alternate promoter in i

110 uch as ChIP-seq peaks for a given protein or transcription start sites from known gene models.

111 n variant, rs2395471, 800 bp upstream of the transcription start site, gave the most significant asso

112 ndary eQTL signals were located further from transcription start sites, had smaller effect sizes, and

113 icating that RNAs synthesized from different transcription start sites have different functions in vi

114 notably that hypomethylated intervals around transcription start sites have evolved to be considerabl

115 with DNA sequences upstream of Ccnd2 and Myc transcription start sites implicating both as direct SMA

116 omatin regions lie within 3 kb upstream of a transcription start site in all species.

117 rk of permissive chromatin, is enriched near transcription start sites in all eukaryotes.

118 demonstrate structural similarities between transcription start sites in the genomes of four Drosoph

119 's enrichment or biased distribution towards transcription start sites in the promoters of co-express

120 overing about 8000 bp flanking the predicted transcription start sites in Xenopus tropicalis for geno

121 mmonly used m(1)A antibody maps sites to the transcription-start site in mRNA 5'UTRs.

122 enhancers enriched upstream of the KIAA0319 transcription start site, in both zebrafish and humans.

123 he two nucleosomes immediately distal to the transcription start site, independently of gene length.

124 for example, colocalization of histones and transcription start sites indicate chromatin regulation

125 ture and local sequence composition near the transcription start site influence pausing, with diverge

126 SON binds to DNA near transcription start sites, interacts with menin, and inh

127 f the human RET gene (-51 to -33 relative to transcription start site) is essential for basal transcr

128 DCL4 expression predominates as a transcription start site isoform encoding a cytoplasmic

129 studied RNA synthesis and degradation at the transcription start site level, characterizing the impac

130 Alternatively positioned nucleosomes near transcription start sites likely represent different sta

131 Use of alternative transcription start sites located within the Arabidopsis

132 ch methylates H3K9 immediately downstream of transcription start sites marked with H3K4me3 to establi

133 er (located ~10 kbp upstream of the IL-1beta transcription start site), marked by nucleosome depletio

134 The genome-wide identification of microRNA transcription start sites (miRNA TSSs) is essential for

135 e-based methods, CisMapper can predict which transcription start site of a gene is regulated by a par

136 We also show that an alternative transcription start site of a known plastidial enzyme pr

137 merase II and Brahma, its recruitment to the transcription start site of activated genes and developm

138 Most notably, immediately upstream of the transcription start site of active promoters, we frequen

139 ow this region physically interacts with the transcription start site of ARID5B, that alleles of rs70

140 in an enhancer element 47 kb upstream of the transcription start site of c-Myc-interacting CDCA7L.

141 s at -9/-10 and -13/-14 kb from the upstream transcription start site of CCR6 that bind PLZF in CCR6(

142 replication preferentially initiates at the transcription start site of genes occupied by high level

143 UniformMu transposons was inserted near the transcription start site of genes.

144 specifically directs H4 acetylation near the transcription start site of highly expressed genes, whil

145 Moreover, two CpG islands near the transcription start site of MYBL1 were identified, and O

146 DRR(eRNA)), is encoded 5 kb upstream of the transcription start site of MyoD, a myogenic transcripti

147 tably, the nucleosome depleted region at the transcription start site of pol III genes extends past t

148 Recruitment of ERalpha upstream of the transcription start site of SUSD3 was demonstrated by ch

149 8584 is located about 170 kb upstream of the transcription start site of the major transcript for the

150 ancer located 41 kilobases downstream of the transcription start site of the transcription factor Irf

151 3NT proteolysis is selectively targeted near transcription start sites of a small group of genes and

152 pitation experiments show that MCM2 binds to transcription start sites of cilia inhibiting genes.

153 SREBP1 predominantly binds to the transcription start sites of DNFA genes, regulating thei

154 , 453 accessible TEs are found to create the transcription start sites of downstream genes in mouse,

155 Around the transcription start sites of endo-MEGs, DNA methylation

156 RF complex were significantly co-enriched at transcription start sites of erythroid genes, and their

157 Enhancer regions and transcription start sites of estrogen-target regulated g

158 sequences that are localized proximal to the transcription start sites of genes, allowing transcripti

159 sine 79, with a maximum frequency around the transcription start sites of genes.

160 Furthermore, RNF2 and SALL4 together occupy transcription start sites of germline genes in the stem

161 We also show that some transcription start sites of H3K27me3-repressed injury g

162 that DSBs are preferentially located around transcription start sites of highly transcribed and paus

163 Histone marks around transcription start sites of HSV-1-induced and constitut

164 uence motif that is enriched upstream of the transcription start sites of hundreds of testis-expresse

165 ith the distance of Grh-binding sites to the transcription start sites of its targets.

166 The transcription start sites of lncRNA gene loci tend to be

167 ned predominantly around 50-500 kbs from the transcription start sites of their nearby genes, and wer

168 y guiding a transcriptional repressor to the transcription start-site of target genes.

169 he first intron, the first two exons and the transcription starting site of ABCA12.

170 e identified about 450 bp (upstream of their transcription start site) of the analyzed C(4) Ppc promo

171 Spt4/5 is recruited proximal to the transcription start site on the majority of transcriptio

172 f4e3, a neighboring gene, likely by deleting transcription start sites on the anti-sense strand of th

173 hot spots, are enriched near CpG islands and transcription start sites (P<2.2 x 10(-16)), consistent

174 ranscriptional regulatory features (40% more transcription start sites per gene, 22% longer 5'UTR).

175 3,552 nucleotides (nt) upstream of the TERT transcription start site, predominantly in the opposite

176 Transcription start site profiling using nano-cap analys

177 2A.Z.1 and H2A.Z.2 can replace each other at Transcription Start Sites, providing a molecular explana

178 ation cassette 80 bp downstream of the Lockd transcription start site reduced the entire lncRNA trans

179 of R1810 results in accumulation of RNAP2 at transcription start sites, reduced gene expression, and

180 cing coverage of plasma DNA fragments around transcription start sites reflects the expression levels

181 an absolute distance to their corresponding transcription start site, regardless of gene length.

182 tone H3 Lys4 trimethylation (H3K4me3) at the transcription start site regions of the compensatory gen

183 In contrast, transcription start sites remain accessible in prometaph

184 opulation (HVR3), and downstream of the HSP1 transcription start site required for maximal yield.

185 The analysis of 7678 focused transcription start sites revealed 40% with a perfect ma

186 everal hundred nucleotides downstream of the transcription start site reveals a novel type of eukaryo

187 this unusual regulation results from altered transcription start site selection.

188 s, especially the region downstream from the transcription start site, shows conspicuous clustering o

189 P4RNAs exhibit transcription start sites similar to Pol II products and

190 he combinatorial diversity of cap-associated transcription start sites, splicing events, poly(A) site

191 NA targeting the region upstream of the DUX4 transcription start site suppressed DUX4 mRNA expression

192 an 'open' complex; scanning downstream to a transcription start site; synthesis of a short transcrip

193 Our analysis of foraging's transcription start sites, termination sites, and splici

194 cohesin and are significantly closer to gene transcription start sites than nonclustered CTCF sites,

195 iched and more closely located to viral gene transcription start sites than would be expected by chan

196 ifically to a single KLF site near the EphA5 transcription start site that is required for KLF16 tran

197 sequent evolution, including the gain of new transcription start sites that were sometimes within pro

198 e we show that when positioned downstream of transcription start site, the orientation of potential G

199 ied an 11-kb genomic region 3' of the Nkx3.1 transcription start site to be responsible for alteratio

200 region of IL-1beta promoter upstream of the transcription start site to stabilize their gene transcr

201 ighly methylated regions of DNA, but acts at transcription start sites to attenuate transcriptional i

202 opoietic cells, Nup98 binds predominantly to transcription start sites to recruit the Wdr82-Set1A/COM

203 In this study, we developed mirSTP (mirna transcription Start sites Tracking Program), a probabili

204 e best region to target gRNAs is between the transcription start site (TSS) and 200 bp upstream of th

205 a peak at 50 base pairs (bp) upstream of the transcription start site (TSS) and 86% of the TFBSs are

206 By mapping global transcription start site (TSS) and chromatin dynamics, w

207 The PQS location with respect to the transcription start site (TSS) and strand of occupancy (

208 d to the 5'-proximal region relative to KLF9 transcription start site (TSS) and two occurred at dista

209 initiation, RNA polymerase (RNAP) selects a transcription start site (TSS) at variable distances dow

210 The transcription start site (TSS) determines the length and

211 iption factor binding sites (TFBSs) near the transcription start site (TSS) display tight positional

212 PARgamma binding sites exist near the gene's transcription start site (TSS) in human but not mouse ad

213 non of RNA polymerase II (Pol II) pausing at transcription start site (TSS) is one of the key rate-li

214 Transcription start site (TSS) mapping indicates that TB

215 ritable when compared with DNAm sites in the transcription start site (TSS) of a gene expressed in co

216 from six different positions surrounding the transcription start site (TSS) of a reporter gene fusion

217 or both) at region +38/+187 relative to the transcription start site (TSS) of the GM2-synthase gene

218 7ac, H3K9acK14ac, and H3K4me3 at hundreds of transcription start site (TSS) regions and remote regula

219 sion, yet the mechanisms underlying specific transcription start site (TSS) selection in mammals rema

220 Variations in transcription start site (TSS) selection reflect diversi

221 mutations in several promoter regions affect transcription start site (TSS) selection.

222 ements, which are DNA sequences flanking the transcription start site (TSS) that help direct the prop

223 Here, we investigate genome-wide changes in transcription start site (TSS) usage by Clostridium phyt

224 cryptic transcription, we investigated their transcription start site (TSS) usage, chromatin organiza

225 tential enhancer region distal from the Igf1 transcription start site (TSS) with multiple E2-dependen

226 ivated genes have a functional CARE near the transcription start site (TSS), but for others the CARE

227 e-promoter, a stretch of DNA surrounding the transcription start site (TSS), is a major integration-p

228 uent, widespread, and can occur close to the transcription start site (TSS), or within the gene body.

229 n a several-kilobase-long region, called the transcription start site (TSS), which is upstream of the

230 y-containing a CTCF-binding site (CBS) and a transcription start site (TSS)-into 16 ectopic loci acro

231 tain their original identity as promoter- or transcription start site (TSS)-nucleosomes.

232 However, TC-NER on the transcription start site (TSS)-proximal half of the +1 n

233 n mRNA is necessary for determination of the Transcription Start Site (TSS).

234 randed 'transcription bubble,' and selects a transcription start site (TSS).

235 loss of binding of RNA Pol II at the Ankrd26 Transcription Start Site (TSS).

236 a template-strand nucleotide to serve as the transcription start site (TSS).

237 428 and -525 kb upstream of the MYC oncogene transcription start site (TSS).

238 histone 3 lysine 27 acetylation (H3K27ac) at transcription start sites (TSS) and super-enhancers (SEs

239 rovides a single base-pair resolution map of transcription start sites (TSS) and their relative usage

240 The differences in transcription start sites (TSS) and transcription end si

241 s cerevisiae RNA polymerase (Pol) II locates transcription start sites (TSS) at TATA-containing promo

242 Transcription start sites (TSS) in eukaryotes are charac

243 n assays using ATAC-sequencing show that the transcription start sites (TSS) of ARGs do not change wi

244 Ty3 retrotransposon inserts proximal to the transcription start sites (TSS) of genes transcribed by

245 logical responses in part through changes in transcription start sites (TSS) or cleavage and polyaden

246 HSI establishes its noncoding transcription start sites (TSS) over a defined distance

247 A mainly locates at ApT dinucleotides around transcription start sites (TSS) with a bimodal distribut

248 r SMC3 (cohesin components),transcription at transcription start sites (TSS), and the number of CCCTC

249 logued >215 primary 5' ends corresponding to transcription start sites (TSS), as well as 1628 process

250 well-positioned nucleosomes downstream from transcription start sites (TSS).

251 Transcription start-site (TSS) selection and alternative

252 ation of active RNA polymerases (PRO-seq) or transcription start sites (TSSs) (PRO-cap) genome-wide a

253 Our transcription start sites (TSSs) analysis of Saccharomyc

254 secondary structure-prone sites overlapping transcription start sites (TSSs) and CCCTC-binding facto

255 Hypermethylated DMCs were enriched at transcription start sites (TSSs) and in CpG islands, and

256 hat 119 BbIVET promoters are associated with transcription start sites (TSSs) and validate novel RNA

257 Transcription start sites (TSSs) are bordered by a small

258 eorganization and histone methylation around transcription start sites (TSSs) are highly coordinated

259 his study, we generated quantitative maps of transcription start sites (TSSs) at a single-nucleotide

260 The computational identification of gene transcription start sites (TSSs) can provide insights in

261 exosome adaptor complexes, we identify ~2900 transcription start sites (TSSs) from within pc genes th

262 A distinct way of locating transcription start sites (TSSs) has been identified in

263 his mechanism to derive new alternative mRNA transcription start sites (TSSs) is also evident at clos

264 Accurate mapping of transcription start sites (TSSs) is key for understandin

265 efine at nucleotide resolution the divergent transcription start sites (TSSs) near mouse mRNA genes.

266 nternal exons is associated with gain of new transcription start sites (TSSs) nearby and increased ge

267 Whereas RNA polymerase II (Pol II) transcription start sites (TSSs) occur about 30-35 bp do

268 to defined bait DSBs are enriched around the transcription start sites (TSSs) of active genes.

269 ses total RNA as starting material to detect transcription start sites (TSSs) of both stable and unst

270 used in this work to examine the genome-wide transcription start sites (TSSs) of the psychrophilic me

271 In practice, variants near gene transcription start sites (TSSs) or certain histone modi

272 by considering genome locations relative to transcription start sites (TSSs) or enhancer midpoints,

273 15-kb "superenhancer" of Tet1, there are two transcription start sites (TSSs) with different activati

274 tisense (S/AS)-R-loops sharply peaked around transcription start sites (TSSs), and these peak levels

275 thin nucleosome-depleted regions upstream of transcription start sites (TSSs).

276 ultiple and in some cases mutually exclusive transcription start sites (TSSs).

277 disrupting this relationship are changes in transcription start sites (TSSs).

278 end of genes promoting the identification of transcription start sites (TSSs).

279 the assembly of transcriptional machinery at transcription start sites (TSSs).

280 ity of eukaryotic promoters utilize multiple transcription start sites (TSSs).

281 TAD boundary exposes enhancers to new target transcription start sites (TSSs).

282 quent observation that one gene has multiple transcription start sites (TSSs).

283 ns arise from mRNA isoforms with alternative transcription start sites (TSSs).

284 Analysis of downstream sequences relative to transcription start site usage suggested that ACA and CN

285 cer units are precisely delineated by active transcription start sites, validate that these boundarie

286 ted by chromatin immunoprecipitation and the transcription start site was identified by 5' RACE (rapi

287 An active secondary transcription start site was identified within the inter

288 first nucleosome position downstream of the transcription start site, we identified unwrapped interm

289 predominantly observed within 1 kb from the transcription start site, where both histone H3 methylat

290 was stalled at position +27 relative to the transcription start site, whereas most complexes had com

291 NAs revealed strong Set1 enrichment near the transcription start site, whereas Set2 was distributed a

292 ongly enriched in repressed regions and near transcription start sites, whereas the genetically regul

293 results in the precise determination of 2659 transcription start sites which reveal transcriptional a

294 0 bp sequence, immediately upstream from the transcription start site, which is sufficient to mediate

295 ovirus type 5 in detail and have defined its transcription start site, which our data suggest is posi

296 tain a consensus cis-element upstream of the transcription start site, which was previously identifie

297 hermore, we detected usage of an alternative transcription start site within intron 1 of the PRTN3 ge

298 2 transcript variant by activating a cryptic transcription start site within LTR12C.

299 ome-sensitive antisense RNAs that arise from transcription start sites within parts of the genome enc

300 These occur in the vicinity of transcription start sites, within gene bodies, and in in