ライフサイエンスコーパス: TSS

1 TSS females died at early larval stages, which makes the

2 TSS improvement correlated with changes in hyperplasia,

3 TSS selection occurs at different positions within the p

4 TSS-miRNA activity is detectable from endogenous levels

5 TSSs showed improvements of 30%, 40%, 68%, and 76% at 2

6 We quantify expression of nearly 10,000 TSS at single base resolution by Capp-Switch sequencing,

7 Although the kl-H and 3'TSS are dispensable for the translation of a reporter co

8 S and PTE 3'CITEs and placing the kl-H and 3'TSS proximal to the reporter termination codon restores

9 A small hairpin (kl-H) upstream of the 3'TSS contains an apical loop capable of forming a kissing

10 Here we show the presence of a TSS in epitaxially grown thin films of the half-Heusler

11 s in GRO/PRO-seq data, and provides accurate TSS prediction for human intergenic miRNAs at a high res

12 rectional transcription signatures at active TSSs in GRO/PRO-seq data, and provides accurate TSS pred

13 quence-specific RNAP-CRE interactions affect TSS selection.

14 ween them reduced promoter strength, altered TSS selection and diminished Pol II recruitment.

15 Finally, differences in alternative TSS usage between nurses and foragers were detected upst

16 transcriptional regulation, like alternative TSS usage, antisense transcription and exon splicing.

17 RNAs, indicating a wide usage of alternative TSSs.

18 nstrates for the first time that alternative TSSs are associated with stable differences in behavior,

19 using p300 binding sites, as enhancers, and TSS and random non-DHS sites, as non-enhancers.

20 nce transcription by targeting promoters and TSS-distal enhancers.

21 6 (6 and 12 DU of MK-8237) and for TOSSs and TSSs by both doses at week 24.

22 ular AnEMBR than that in the tubular AnEMBR (TSS = 17 mg/L), likely due to higher current densities t

23 thousands of treatment-induced non-annotated TSSs (TINATs) following DNMTi and HDACi treatment.

24 akpoint junctions indeed are enriched around TSSs that were determined to be active by global run-on

25 tches the enrichment of key features such as TSSs, TTSs, CpG sites and DNA replication timing around

26 egration sites are significantly enriched at TSS, only a small fraction of the MLV integration sites

27 are characterized by nucleosome depletion at TSSs, while low CpG (LCG) promoters exhibit the opposite

28 Gene ontology analysis of genes with DMCs at TSSs revealed an enrichment of genes involved in develop

29 molecule nanomanipulation, we show bacterial TSS selection exhibits both hallmarks of scrunching and

30 aks overlapped with GRO-cap signal over both TSSs and enhancer elements.

31 characterization of the 6042 B. burgdorferi TSSs reveals a variety of RNAs including numerous antise

32 n-on protocol called GRO-cap, which captures TSSs for both stable and unstable transcripts, we conduc

33 iption factor commonly used in two-component TSS.

34 7-0.59%), high total soluble solids content (TSS; 12.5-15.0%) and their ratio (TSS/TA) were evaluated

35 L. cuprina TSS with the tTA drivers and tTA-regulated tetO-Lshid ef

36 studies confirmed the temperature-dependent TSS selection and a stem-loop masking of ribosome bindin

37 ers at which RNAP-CRE interactions determine TSS selection.

38 00) consensus promoters containing different TSS region sequences, and we observed that the TSS profi

39 vel methods for the analysis of differential TSS usage and promoter dynamics, integrated with CAGE da

40 terized instances in which this differential TSS utilization results in protein isoforms with additio

41 6-kb promoter region upstream of the distal TSS is highly active in naive pluripotent cells, autonom

42 ng the genome, including broadly distributed TSS patterns that have previously been difficult to char

43 nes showing significantly different dominant TSSs, sometimes affecting protein sequence by providing

44 ated receptor on conventional T cells during TSS could render them resistant to Treg-mediated suppres

45 in mitigating excessive tissue injury during TSS.

46 the expected spatial initiation pattern each TSS will form along the chromosome-a novel capability fo

47 not be essential for assembling an effective TSS as tTA can be repressed by addition of tetracycline

48 uld result in NMD in transcripts from either TSS.

49 Empirically, TSSs define the coordinates of core promoters and other

50 ped, ribosome-binding, translation enhancer (TSS) in its 3'UTR that serves as a hub for interactions

51 At equivalent TSS, cluster exposure had little or no effect on malic a

52 of wine from exposed clusters at equivalent TSS.

53 Thus, experimental TSS identification provides an essential step in the cha

54 along the chromosome-a novel capability for TSS prediction algorithms.

55 Among patients coded for TSS, GAS, and/or S. aureus, IVIG use was still unusual (

56 e higher among IVIG cases, as was coding for TSS and GAS.

57 the TSS-region DNA sequence determinants for TSS selection, reiterative initiation ("slippage synthes

58 promoter through DTIE but is dispensable for TSS selection.

59 ial RNAP and suggest a general mechanism for TSS selection by bacterial, archaeal, and eukaryotic RNA

60 tatus and the lack of targeted therapies for TSS emphasize the need to identify key players of the st

61 e insertion site likely interacts with Foxl2 TSS.

62 played a sharp peak between -34 and -32 from TSS positions.

63 Distance from TSS appears to be the most important annotation; specifi

64 e Expression (GTEx) data using distance from TSSs, DNase hypersensitivity sites, and six histone modi

65 nd H3k79me2 dominate in the regions far from TSSs.

66 ate and position relative to the target gene TSS.

67 bly, 219 (14%) genes possessed multiple gene TSSs (gTSSs), and 84 genes exhibited temperature-regulat

68 -wetland complexes receiving relatively high TSS loads may experience progressive physical and chemic

69 RO-seq and 28 PRO-seq experiments identified TSSs for 480 intergenic miRNAs, indicating a wide usage

70 based machine learning model that identifies TSSs with high accuracy and resolution for multiple spat

71 q is a powerful new approach for identifying TSSs and active enhancer elements genome-wide in intact

72 hat the low specificity of RNA polymerase II TSSs selection generates, for 47% of the expressed genes

73 of TSS and reveal a novel role for IL-17A in TSS immunopathogenesis.

74 immunomodulatory properties, participate in TSS is unclear.

75 he TSS, the "discriminator," participates in TSS selection, and that, as the TSS changes, the RNAP le

76 s indicate that iNKT cells are pathogenic in TSS.

77 A noteworthy plasticity in TSS usage between tissues and inbreds was uncovered, wit

78 II transcription plays an important role in TSS selection but is not required for the scanning react

79 ential role of yeast Pol II transcription in TSS scanning, HIS4 promoter derivatives were generated t

80 Variability in TSS selection has been proposed to involve DNA 'scrunchi

81 nges were TCF dependent, but TCF-independent TSSs exhibited the same hierarchy, indicating that it re

82 hese results provide important insights into TSS selection and gene expression in an agronomically im

83 The interval between HSI and it TSS co-maps with a domain of disordered and/or highly mo

84 ne also has a CpG island downstream from its TSS, and a NF-kappaB-binding site flanked by CpGs.

85 hways can generate translocations by joining TSS-proximal DSBs to DSBs on other chromosomes.

86 ferent genera, while the ribosome-binding kl-TSS that provides a long-distance interaction with the 5

87 ation, indicating that the combination of kl-TSS and PTE is highly efficient.

88 in vitro, deleting the normally required kl-TSS and PTE 3'CITEs and placing the kl-H and 3'TSS proxi

89 binding, kissing-loop T-shaped structure (kl-TSS) and eukaryotic translation initiation factor 4E-bin

90 in cis and in trans in the absence of the kl-TSS by sequestering initiation factor eIF4G.

91 hown that the PTE in conjunction with the kl-TSS did not markedly affect the translation initiation r

92 ansferring the 3'-5' interaction from the kl-TSS to the PTE (to fulfill its functionality as found in

93 vels in protoplasts in the absence of the kl-TSS.

94 leotides of the promoter including all known TSSs and all but 18 nucleotides of the 5'-UTR had virtua

95 h Put and Spd showed lower changes in L( *), TSS and TA and also higher value of chroma in berries.

96 at their 5' ends using the putative lincRNA TSS regions predicted by the TSS proximal region predict

97 ripts, our results revealed that the lincRNA TSS proximal regions are associated with the characteris

98 A larger fraction of lincRNA TSSs is marked in a tissue-specific manner by H3K4me1 th

99 nucleotide resolution of this model locates TSSs within 10 nucleotides or less on average.

100 ed spin polarization of spin-momentum-locked TSS.

101 ith a 2.8-fold greater likelihood of a lower TSS compared with C- status (odds ratio, 2.78; 95% CI, 1

102 ic to pollen, C+ was associated with a lower TSS during pollen challenges and the pollination season.

103 cific enhancer 63 kb downstream from the MET TSS.

104 bp downstream of the TATA box in metazoans, TSSs are located 40-120 bp downstream in S. cerevisiae.

105 have been incorporated, while accurate miRNA TSS annotation is obtained from microTSS experimental/in

106 abilistic model for identifying active miRNA TSSs from nascent transcriptomes generated by global run

107 By integrating predicted miRNA TSSs with matched ENCODE transcription factor (TF) ChIP-

108 of microRNA transcription start sites (miRNA TSSs) is essential for understanding how miRNAs are regu

109 h we name transcriptional start site miRNAs (TSS-miRNAs).

110 that increasing the Tregs failed to mitigate TSS.

111 cription bubble in RPo, and thereby modulate TSS selection, which involves transcription bubble expan

112 Moreover, TSS selection depends on cell/tissue, development stage

113 t had no effect when upstream of the 5'-most TSS.

114 Our studies indicate that most TSS clusters are sharp in maize, similar to mice, but di

115 hkCP enhancers are more likely to form multi-TSS interaction networks and be associated with topologi

116 H3K27ac signals, and MYC ESEs looping to MYC TSS.

117 H3k27ac contribute more in the regions near TSSs, whereas H3K4me1 and H3k79me2 dominate in the regio

118 an also implement H3K4me3 at a subset of non-TSS regulatory elements, a subset of which shares epigen

119 Conversely, moving the normal TSS to an upstream location enables a high level of TFII

120 interactions are a functional determinant of TSS selection.

121 f these motifs upstream versus downstream of TSS depending on poising status.

122 entify CD4(+) TEM cells as a key effector of TSS and reveal a novel role for IL-17A in TSS immunopath

123 find the locations and expression levels of TSS for hundreds of genes change during metabolism of di

124 trical detection of spin-momentum-locking of TSS has been lacking till very recently.

125 ir sustainability depend on the magnitude of TSS loads originating upstream, design characteristics,

126 B cells revealed that the great majority of TSS-proximal junctions occurred in genes commonly expres

127 ippage synthesis occurs from the majority of TSS-region DNA sequences and that TSS-region DNA sequenc

128 The results establish the mechanism of TSS selection by bacterial RNAP and suggest a general me

129 Using a humanized mouse model of TSS and human cells, we herein demonstrate that SAgs eli

130 Analyses of various parameters reflective of TSS (serum cytokine/chemokine levels, multiple organ pat

131 y, analysis of repair junction signatures of TSS-associated translocations in wild-type versus classi

132 enrichment of G4 sequence motifs upstream of TSS of non-poised active genes suggests a potential role

133 d two contain regulatory regions upstream of TSS.

134 rization in TI and may enable utilization of TSS for applications in nanoelectronics and spintronics.

135 High variability of TSS retention among stormflow events suggests that the c

136 Crucially, we provide collections of TSSs derived from most published CAGE datasets, as well

137 on the identification and differentiation of TSSs which are arranged in different spatial patterns al

138 ipt levels (strength) or the distribution of TSSs within a promoter (shape).

139 The hierarchy of TSSs (highest to lowest) among M+ participants tracked t

140 TIPR predicts not only the locations of TSSs but also the expected spatial initiation pattern ea

141 vely, this is the first comprehensive map of TSSs in B. burgdorferi and characterization of previousl

142 well as direct access to FANTOM5 resource of TSSs for numerous human and mouse cell/tissue types from

143 ter pairs, in combination with the wealth of TSSs in mammalian genomes, provide a framework with whic

144 assessed effects of RNAP-CRE interactions on TSS selection in vitro and in vivo for a library of 4(7)

145 Here we performed TSS mapping of the translatome following energy stress.

146 With mirSTP, we not only predicted TSSs for 72 miRNAs, but also identified 12 primary miRNA

147 Assessing the contribution of cap-proximal TSS nucleotides, we found dramatic effect on translation

148 High-resolution general-purpose TSS prediction remains a challenging problem, with littl

149 Higher permeate quality (TSS = 0.05 mg/L) was achieved in the rectangular AnEMBR

150 s content (TSS; 12.5-15.0%) and their ratio (TSS/TA) were evaluated, and results generally aligned wi

151 oak (n = 34), and ragweed (n = 23) recorded TSSs during separate out-of-season exposures to these po

152 tization [P+]) in the ACC; a subset recorded TSSs in the pollination seasons.

153 gly, demethylated CpGs downstream from SALL4 TSS are within binding sites of octamer-binding transcri

154 ting CpG demethylation downstream from SALL4 TSS influences SALL4 transcriptional elongation.

155 nd how CpG demethylation downstream of SALL4 TSS regulates SALL4 transcription, we quantified by chro

156 AT3 cis-acting elements, downstream of SALL4 TSS, enables OCT4 and STAT3 binding, recruitment of BRG1

157 on of specific CpG sites downstream of SALL4 TSS.

158 be remarkably prevalent, present at the same TSS downstream location in approximately 20.8% of human

159 endence and by baseline total symptom score (TSS).

160 Changes in total sign scores (TSSs), transepidermal water loss, and tissue biomarkers

161 Total symptom scores (TSSs) were recorded by 21 participants with house dust m

162 toms; maximum = 6) and total symptom scores (TSSs; TSS = TNSS plus TOSS; maximum = 18) were secondary

163 A second TSS downstream, associated with a constitutively weak Cp

164 We further discover a group of anti-sense TSSs in macrophages with an enhancer-like chromatin sign

165 as the distance between sense and anti-sense TSSs increases, so does the size of the NDR, the level o

166 We find that coupled sense and anti-sense TSSs precisely define the boundaries of a nucleosome-dep

167 which a majority of genes have broad-shaped TSS clusters.

168 s significantly enriched in genes with sharp TSSs.

169 NAs is between the transcription start site (TSS) and 200 bp upstream of the TSS.

170 p) upstream of the transcription start site (TSS) and 86% of the TFBSs are in the region from -1,000

171 By mapping global transcription start site (TSS) and chromatin dynamics, we observed the cryptic tra

172 e (RNAP) selects a transcription start site (TSS) at variable distances downstream of core promoter e

173 The transcription start site (TSS) determines the length and composition of the 5' UTR

174 s (TFBSs) near the transcription start site (TSS) display tight positional preferences relative to th

175 DNAm sites in the transcription start site (TSS) of a gene expressed in colon tissue.

176 ns surrounding the transcription start site (TSS) of a reporter gene fusion in Arabidopsis thaliana T

177 binds around the transcriptional start site (TSS) of developmental genes and mediates the recruitment

178 me3 at hundreds of transcription start site (TSS) regions and remote regulatory sites.

179 ter regions affect transcription start site (TSS) selection.

180 ences flanking the transcription start site (TSS) that help direct the proper initiation of transcrip

181 me-wide changes in transcription start site (TSS) usage by Clostridium phytofermentans, a model bacte

182 asure changes in transcriptional start site (TSS) usage, identifying thousands of genetic variants af

183 onal CARE near the transcription start site (TSS), but for others the CARE is downstream.

184 region, called the transcription start site (TSS), which is upstream of the first protein-coding gene

185 f the MYC oncogene transcription start site (TSS).

186 tream from EpCAM transcriptional start site (TSS).

187 tream from SALL4 transcriptional start site (TSS).

188 le,' and selects a transcription start site (TSS).

189 II at the Ankrd26 Transcription Start Site (TSS).

190 de to serve as the transcription start site (TSS).

191 Transcription start-site (TSS) selection and alternative promoter (AP) usage contr

192 nts occurs near transcriptional start sites (TSS) and is defined by previously characterized promoter

193 information about transcription start sites (TSS) and polyadenylation sites (PAS).

194 resolution map of transcription start sites (TSS) and their relative usage.

195 (Pol) II locates transcription start sites (TSS) at TATA-containing promoters by scanning sequences

196 ing show that the transcription start sites (TSS) of ARGs do not change with neural firing but are al

197 hrough changes in transcription start sites (TSS) or cleavage and polyadenylation sites (PAS).

198 hes its noncoding transcription start sites (TSS) over a defined distance from its core determinants

199 span genes from transcriptional start sites (TSS) to termination sites and two contain regulatory reg

200 ucleotides around transcription start sites (TSS) with a bimodal distribution and appears to mark act

201 ,transcription at transcription start sites (TSS), and the number of CCCTC-binding factor (CTCF)-cohe

202 on by analysing transcriptional start sites (TSS), CRISRPi identified 92% of core cell essential gene

203 s downstream from transcription start sites (TSS).

204 ases (PRO-seq) or transcription start sites (TSSs) (PRO-cap) genome-wide at high resolution.

205 Our transcription start sites (TSSs) analysis of Saccharomyces cerevisiae cells deficie

206 were enriched at transcription start sites (TSSs) and in CpG islands, and depleted in transcriptiona

207 gulation; namely, transcription start sites (TSSs) and polyadenylation sites.

208 e associated with transcription start sites (TSSs) and validate novel RNA transcripts using Northern

209 Transcription start sites (TSSs) are bordered by a small nucleosome-depleted region

210 ethylation around transcription start sites (TSSs) are highly coordinated with distinctively transcri

211 ification of gene transcription start sites (TSSs) can provide insights into the regulation and funct

212 alternative mRNA transcription start sites (TSSs) is also evident at closely spaced promoters suppor

213 ion the divergent transcription start sites (TSSs) near mouse mRNA genes.

214 erase II (Pol II) transcription start sites (TSSs) occur about 30-35 bp downstream of the TATA box in

215 riched around the transcription start sites (TSSs) of active genes.

216 e the genome-wide transcription start sites (TSSs) of the psychrophilic methanogen Methanolobus psych

217 ariants near gene transcription start sites (TSSs) or certain histone modifications are likely to reg

218 tions relative to transcription start sites (TSSs) or enhancer midpoints, our analyses show that diff

219 t1, there are two transcription start sites (TSSs) with different activation patterns during developm

220 identification of transcription start sites (TSSs).

221 onal machinery at transcription start sites (TSSs).

222 utually exclusive transcription start sites (TSSs).

223 lp firmness, color and total soluble solids (TSS) and postharvest quality.

224 s, evidenced by higher total soluble solids (TSS) and proline, and lower malic acid, 3-isobutyl-2-met

225 ocyanin concentration, total soluble solids (TSS) and titratable acidity (TA) were evaluated after 0,

226 e maturity in terms of total soluble solids (TSS), pH or titratable acidity (TA) at harvest.

227 attention was paid to total soluble solids (TSS), titratable acidity (TA), colour, free amino acids

228 tratable acidity (TA), total soluble solids (TSS), TSS/TA ratio, and total polyphenolic content).

229 ut-output budgets of total suspended solids (TSS) in two Coastal Plain lowland valleys modified to cr

230 he accessibility of precise context-specific TSS data for integrative analyses.

231 A maternal-specific TSS selection, which requires an A/T-rich (W-box) motif,

232 otifs associated with carbon source-specific TSS and use them for regulon discovery, implicating a La

233 al to accurately annotate cell type-specific TSS and PAS.

234 -momentum-locked topological surface states (TSS).

235 t in identifying topological surface states (TSSs) in other classes of materials.

236 Transgenic sexing strains (TSS) that carry conditional female lethal genes are adva

237 on-coupled eviction of nucleosomes on strong TSSs during intraerythrocytic development and demonstrat

238 it to simultaneously identify the strongest TSS for 5207 (90%) genes and PAS for 5277 (91%) genes.

239 and ribosome-binding 3' T-shaped structure (TSS) have been found in viruses of different genera, whi

240 Toxic shock syndrome (TSS) and other superantigen-mediated illnesses are assoc

241 Toxic shock syndrome (TSS) is caused by staphylococcal and streptococcal super

242 During toxic shock syndrome (TSS), bacterial superantigens trigger a polyclonal T -ce

243 stered for presumptive toxic shock syndrome (TSS), but its frequency of use and efficacy are unclear.

244 pically encountered in toxic shock syndrome (TSS).

245 ajority of TSS-region DNA sequences and that TSS-region DNA sequences have profound, up to 100-fold,

246 Although we found that TSS scanning does not require RNA synthesis, our results

247 topology, consistent with the proposal that TSS selection involves transcription-bubble expansion ("

248 We propose that TSS selection involves DNA scrunching prior to RNA synth

249 We show that TSS reveals riboswitches, non-coding RNA and novel trans

250 recent theoretical calculations suggest that TSSs may be found in half-Heusler ternary compounds.

251 an co-localize TFBSs with each other and the TSS.

252 ticipates in TSS selection, and that, as the TSS changes, the RNAP leading-edge position changes, but

253 Hypomethylated DMCs were observed at the TSS of transcript variant 2 of alpha-SMA, which correlat

254 utative lincRNA TSS regions predicted by the TSS proximal region prediction model based on genomic an

255 A-dependent RNA polymerase (RdRp) causes the TSS/surrounding region to undergo a conformational shift

256 n sequencing-based approaches to compare the TSS profile of WT RNAP to that of an RNAP derivative def

257 Comparing the TSS proximal regions between the known lincRNAs and thei

258 promoter in vitro and in vivo; we define the TSS-region DNA sequence determinants for TSS selection,

259 t be transcribed to increase expression, the TSS changed when the intron was located in the 5'-untran

260 Moving the motif to more than 4 kb from the TSS stabilises expression of the gene.

261 ated at distances greater than 2 kb from the TSS.

262 he first nucleosome just downstream from the TSS.

263 DNAm level to be heritable was lower in the TSS of genes expressed in colon tissue than in the TSS o

264 genes expressed in colon tissue than in the TSS of genes not expressed in colon tissue.

265 e presence of consensus CRE sequences in the TSS region.

266 ous inflammatory mediators implicated in the TSS-associated cytokine storm.

267 chromatin interactions were centred near the TSS of genes, and, critically, the genes identified as p

268 al mechanisms for replicating an RM near the TSS that binds a particular TF subunit.

269 f some TFBSs genome-wide, including near the TSS, but they typically examine only a few TFs at a time

270 Furthermore, near the TSS, RMs can co-localize TFBSs with each other and the T

271 ciated with nucleosome distribution near the TSS, suggesting a possible role in nucleosome positionin

272 the general transcription machinery near the TSS.

273 e tight TFBS positional preferences near the TSS.

274 ks in close proximity to each other near the TSS.

275 se with junctions located within 2 kb of the TSS show a significantly higher transcription rate on av

276 hts into the measured contour lengths of the TSS structure elements.

277 find that a promoter element upstream of the TSS, the "discriminator," participates in TSS selection,

278 start site (TSS) and 200 bp upstream of the TSS.

279 SMD recapitulated the TSS unfolding order in the absence of Mg(2+), showed dep

280 r a library of 4(10) promoter sequences, the TSS, the RNAP leading-edge position, and the RNAP traili

281 tion with low ATP concentrations shifted the TSS position downstream.

282 e kinase complex TFIIK from TFIIH shifts the TSS in a yeast system upstream to the location observed

283 S region sequences, and we observed that the TSS profile of the RNAP derivative defective in RNAP-CRE

284 with positional preferences relative to the TSS, with 38 preferences tight (+/-5 bp).

285 tight positional preferences relative to the TSS.

286 tight positional preferences relative to the TSS.

287 rom -1,000 bp to +200 bp with respect to the TSS.

288 pression, likely directing RNA pol II to the TSSs within the genome.

289 ays relatively important roles when close to TSSs than in other regions.

290 le acidity (TA), total soluble solids (TSS), TSS/TA ratio, and total polyphenolic content).

291 maximum = 6) and total symptom scores (TSSs; TSS = TNSS plus TOSS; maximum = 18) were secondary end p

292 enhancers are more often bound to one or two TSSs and are enriched at chromatin loop anchors.

293 We found hundreds of previously unidentified TSS and PAS which revealed two interesting phenomena: fi

294 esis, suggesting that scrunching and unusual TSS selection contribute to the extraordinary transcript

295 promoters, is also required for the unusual TSS.

296 Given the rapidity with which TSS develops, designing timely and truly targeted therap

297 We found 150 genes whose TSS were downstream of the annotated start codon, and ad

298 of gene expression) to identify genome-wide TSSs used in root and shoot tissues of two maize (Zea ma

299 T promoters were not found to associate with TSSs.

300 ch (W-box) motif, is replaced with a zygotic TSS selection grammar characterized by broader patterns