ライフサイエンスコーパス: regulatory element

1 s for both the structure and function of the regulatory element.

2 tion to promote increased occupancy of their regulatory elements.

3 ed in the proximity of affected genes and in regulatory elements.

4 in determining the differential activity of regulatory elements.

5 e-specific TEs in studying evolution of gene regulatory elements.

6 ndered by our limited knowledge of plant cis-regulatory elements.

7 dense information sources for annotating the regulatory elements.

8 sease yet remain one of the least understood regulatory elements.

9 are predominantly noncoding and enriched in regulatory elements.

10 sion regulation involves thousands of distal regulatory elements.

11 s a repressor that binds chromatin at ER cis-regulatory elements.

12 y diminishing occupancy of sequence-specific regulatory elements.

13 nformation for delineating the annotation of regulatory elements.

14 ikely function through interaction with gene regulatory elements.

15 loops as well as loops linking promoters to regulatory elements.

16 , nor the genomic sequence of genes or their regulatory elements.

17 d several thousand artery- and vein-specific regulatory elements.

18 genomes and provide building blocks for cis-regulatory elements.

19 i are found in non-coding regions that house regulatory elements.

20 al coordination between the states of distal regulatory elements.

21 st the transcriptional responses of putative regulatory elements.

22 ed CpGs with unique localization patterns in regulatory elements.

23 IF-1alpha and ERalpha overlap in SNAT2's cis-regulatory elements.

24 e non-coding, and many overlap with putative regulatory elements.

25 ed set of objectives and controlled by fewer regulatory elements.

26 sub-threshold variants that co-localize with regulatory elements.

27 plays widespread enrichment of repressed cis-regulatory elements.

28 which in turn may affect the activity of the regulatory elements.

29 targeting both the glideosome motor and its regulatory elements.

30 of histone modifications not found at other regulatory elements.

31 expression program through lineage-specific regulatory elements.

32 and enhancers represent distinct classes of regulatory elements.

33 ir induction during differentiation and gene regulatory elements.

34 y to accurately link genes with their distal regulatory elements.

35 is a powerful approach to identify potential regulatory elements.

36 77 bp, some of which disrupt exons and known regulatory elements.

37 are over-represented in memory CD4(+) T cell regulatory elements(1-3).

38 ication indicate the presence of unknown cis-regulatory elements(3).

39 e users to efficiently identify orthologs of regulatory elements across hundreds of species, providin

40 we profiled and compared transcriptional and regulatory element activities across five tissues of Cae

41 ur study shows that genetic variation in cis-regulatory elements affects gene expression in a manner

42 Deletion of these regulatory elements alone or in combination revealed a s

43 odest selection against noncoding SVs in cis-regulatory elements, although selection against protein-

44 H10 are target genes repressed by the HOTAIR regulatory element and that both function in regulating

45 al RNA is sufficient to identify transcribed regulatory elements and capture the dynamics of initiate

46 rriers prevent spurious interactions between regulatory elements and DNA-binding proteins.

47 ng can compensate for the loss of local gene regulatory elements and explains a large component of th

48 Comparisons between synthetic cis-regulatory elements and genomic sequences with comparabl

49 omyocytes to more accurately predict cardiac regulatory elements and identify hundreds of sub-thresho

50 The novel SNPs occur within skin-specific regulatory elements and implicate loci involved in cance

51 Those iMs appear to be genomic regulatory elements and might modulate transcription in

52 r results establish UTR G4s as important cis-regulatory elements and point to a link between disrupti

53 controls CTCF and cohesin binding at the cis-regulatory elements and POL II pausing during the basal

54 eraction loops between enhancer and promoter regulatory elements and promotes expression of a key pro

55 PRDM16 binds to cis-regulatory elements and represses the expression of regi

56 ionary divergence in neuron subtype-specific regulatory elements and show that a substantial fraction

57 o infer the target genes of 70,329 candidate regulatory elements and suggest potential regulatory fun

58 hancers and silencers as separate classes of regulatory elements and suggest the possibility that tho

59 hesin, and mediates their binding across cis-regulatory elements and TAD boundaries in mouse embryoni

60 to alter the functionality of transcription regulatory elements and target gene expression.

61 te cell states, uncovered linked sets of cis-regulatory elements and target genes unique to each stat

62 equired the exploitation of holozoan genomic regulatory elements and the acquisition of new regulator

63 ovide the tissue specificity afforded by cis-regulatory elements and the conditionality of optogeneti

64 We show that cis-regulatory elements and the gene networks they regulate

65 These regions usually correspond to active regulatory elements and their location profile is unique

66 he RNA m(6)A modification, including the cis-regulatory elements and trans-acting factors that determ

67 Identification of the genetic regulatory elements and transcription factors that contr

68 through the modification of splice sites or regulatory elements and, consequently, led to an interna

69 dent pleiotropic variants, many of which are regulatory elements and/or influence cross-tissue gene e

70 (P<0.01), applied a Markov model to classify regulatory elements, and annotated this model with match

71 is effects are widespread across transcribed regulatory elements, and the strongest cis effects are a

72 ges, we observed that the majority of distal regulatory elements are constitutively unmethylated thro

73 Non-coding transcriptional regulatory elements are critical for controlling the spa

74 We found that multiple injury-activated regulatory elements are distributed throughout the enhan

75 Non-coding cis-regulatory elements are essential determinants of develo

76 Changes in interacting cis- and trans-regulatory elements are important candidates for Dobzhan

77 Although catalogs of noncoding regulatory elements are steadily improving, we have a li

78 Changes in potential regulatory elements are thought to be key drivers of phe

79 n factor binding sites varies widely between regulatory elements, as does the extent to which evoluti

80 sing transgenic mice, we identified a 2.9-kb regulatory element at the Isl1 locus that was active spe

81 TBX5 bound and directly activated cis-regulatory elements at fast conduction channel genes req

82 The critical role of the regulatory elements at the 5' end of the HIV-1 genome in

83 During gene induction, these distal regulatory elements behave in an atypical manner, in tha

84 (GPR146) promotes activity of hepatic sterol regulatory element binding protein 2 (SREBP2) through ac

85 Remarkably, overexpressing sterol regulatory element binding protein 2 in the spinal cord

86 al cord of SOD1(G93A) mice; levels of sterol regulatory element binding protein 2, a transcriptional

87 Promoter analysis of AATF revealed a sterol regulatory element binding transcription factor 1-c (SRE

88 directly regulates genes involved in sterol regulatory element binding transcription factor 2 (Srebf

89 cy on glycosaminoglycan biosynthesis, sterol regulatory element-binding protein (SREBP) signaling, bo

90 xide synthase (iNOS) and induction of sterol regulatory element-binding protein (SREBP).

91 SREBF1 encodes sterol regulatory element-binding protein 1 (SREBP1), which pro

92 ven by de novo enhancer activation by sterol regulatory element-binding protein 1 (SREBP1).

93 under study as drug targets in NAFLD (sterol regulatory element-binding protein [SREBP], acetyl-CoA c

94 of carnitine palmitoyltransferase 1a, sterol regulatory element-binding protein, acetyl coenzyme A ca

95 r proliferation and the activation of sterol regulatory element-binding proteins (SREBPs) has a centr

96 A homologue of the mammalian sterol regulatory element-binding proteins (SREBPs), BbSre1, wa

97 asis in animal cells is maintained by sterol regulatory element-binding proteins (SREBPs), membrane-b

98 activated receptor gamma (PPARgamma), sterol regulatory element-binding transcription factor 1 (SREBF

99 es, and promoted its interaction with sterol regulatory element-binding transcription factor 2 (SREBP

100 w that this score accurately predicts when a regulatory element bound by a TF is in contact with a ge

101 essed in full or by mutating and/or deleting regulatory elements by luciferase assays.

102 y alter the transactivation potential of cis-regulatory elements by modulating the binding of transcr

103 Genetic variation in regulatory elements can alter transcription factor (TF)

104 We mapped candidate cis-regulatory elements (cCREs) and linked them to putative

105 any genome-wide collections of candidate cis-regulatory elements (cCREs) have been defined using geno

106 ced a set of more than 200,000 candidate cis-regulatory elements (cCREs) that efficiently capture enh

107 The marks serve as sites for candidate cis-regulatory elements (cCREs) that may serve functional ro

108 evelopment and find that Six1-binding to cis-regulatory elements changes dramatically at cell-state t

109 Reprogrammed regulatory elements commissioned in metastatic disease h

110 Distal regulatory elements control gene expression during diffe

111 nophosphate, suggesting a complex network of regulatory elements control transport into these organel

112 Regulatory elements controlling ASCL1 expression are bou

113 PBB153 exposure decreases DNA methylation at regulatory elements controlling imprinted genes.

114 e cell protein 4 Drosophila DTB-specific cis-regulatory elements correspond to regulatory sequences o

115 c control mechanisms utilizing different cis-regulatory elements (CRE) within the TAD.

116 cription depends on interactions between cis-regulatory elements (CREs) and regulatory proteins.

117 The cis-regulatory code, that is, the cis-regulatory elements (CREs) and their combinations that r

118 d the dynamic activities of a variety of cis-regulatory elements (CREs) in ER stress-responsive gene

119 ely reconstruct activities of individual cis-regulatory elements (CREs) in individual cells or rare c

120 Identification of cell type-specific cis-regulatory elements (CREs) is crucial for understanding

121 BiP2 promoters were highly enriched with cis-regulatory elements (CREs) linked to developmental proce

122 e interplay of transcription factors and cis-regulatory elements (CREs) orchestrates the dynamic and

123 We constructed maps of putative cis-regulatory elements (CREs) using publicly available open

124 ies revealed pervasive binding of p53 to cis-regulatory elements (CREs), which are non-coding segment

125 ted control of gene-proximal and -distal cis-regulatory elements (CREs), yet functional analysis of g

126 e high-resolution chromatin structure at cis-regulatory elements (CREs).

127 equence classification, gene tree inference, regulatory element detection, genome-based phylogenetic

128 gene regulatory networks, including variant regulatory elements, dose-sensitive transcription factor

129 and deep learning architectures, for distal regulatory element (DRE) detection.

130 Regulatory elements drive the cortical expression of SCR

131 To discover regulatory elements driving the specificity of gene expr

132 provided limited insight into the biology of regulatory elements due to the difficulty of interpretin

133 ation of accessible chromatin at active gene regulatory elements during cellular differentiation.

134 substantially extended our knowledge of cis-regulatory elements during differentiation.

135 Analysis of reactivated regulatory elements enabled the identification and funct

136 A comparison of zebrafish, human and mouse regulatory elements enabled the identification of both e

137 ment epithelium/choroid) reveals features of regulatory element evolution that shape tissue-specific

138 a conserved Csf1r enhancer: the fms-intronic regulatory element (FIRE).

139 These frequently mutated regulatory elements (FMREs) were ubiquitously active in

140 inding sequence that overlapped with the cis-regulatory element for Yap and Tgf-beta.

141 C(4) Ppc promoters contain all the essential regulatory elements for driving M-cell-specific expressi

142 ndidate root biomass-promoting genes and cis-regulatory elements for further functional validations a

143 evealed that Gli3 and Hand2 were enriched at regulatory elements for genes essential for mandibular p

144 Mutations targeted to distinct cis-regulatory elements for Ptf1a in mice, tested the in viv

145 The relationship between activation of regulatory elements, formation of structural chromatin i

146 ructurally diverse group of cis-acting, gene regulatory elements found mostly in bacterial messenger

147 ficult owing to our limited knowledge of how regulatory elements function.

148 This class of regulatory elements functions only when transcribed into

149 BCL9 occupy a large number of Wnt-responsive regulatory elements, genome-wide.

150 y and single-cell expression data shows that regulatory elements gradually become accessible within p

151 iftover Post-processing for the Evolution of Regulatory Elements (HALPER), a tool for constructing co

152 However, information about such regulatory elements has been limited for Streptomyces ge

153 Physical interactions between distal regulatory elements have a key role in regulating gene e

154 eral transcription factors and their cognate regulatory elements have been implicated in coordinating

155 ct the complement of available genes and cis-regulatory elements, hence allowing specific cell types

156 e a comprehensive map of transcriptomes, cis-regulatory elements, heterochromatin, methylomes and 3D

157 Here, we report that deletion of a regulatory element in the HOTAIR locus increases glioma

158 for the unbiased discovery of cell types and regulatory elements in adult mouse brain.

159 idly emerging transient contacts between cis-regulatory elements in ana/telophase that are dissolved

160 enrichment of ETS-IRF and AP1-IRF composite regulatory elements in antigen-presentation genes, coinc

161 FACTORs (ARFs), through their binding to cis-regulatory elements in auxin-responsive genes.

162 he critical roles that several genes play as regulatory elements in CBB development.

163 ecame relieved because of the loss of distal regulatory elements in chimeric human/mouse BAC reporter

164 Genetic engineering of cis-regulatory elements in crop plants is a promising strate

165 tion-associated variants and provide variant regulatory elements in each region that link genetic var

166 riptional outputs of thousands of individual regulatory elements in embryonic stem cells and measure

167 as a widely used tool for identifying active regulatory elements in eukaryotes.

168 Our findings suggest that cis-regulatory elements in FaEnSpm-2 are responsible for enh

169 try to identify and refine multiple putative regulatory elements in Heliconius melpomene and its comi

170 analysis to validate cell-type-specific cis-regulatory elements in heterogeneous populations of prim

171 vity of transcriptional enhancers and splice regulatory elements in human induced pluripotent stem ce

172 y genomics have led to the identification of regulatory elements in individual species, but these gen

173 nd GATA3 at a substantial number of putative regulatory elements in mouse T cell progenitors.

174 ISPR interference screens of activity of cis-regulatory elements in over 3 Mb of genome sequence.

175 Previously, a paucity of data for cis-regulatory elements in plants meant that it was challeng

176 RNA genes were the most strongly methylated regulatory elements in S. japonica.

177 Recent success in identifying gene-regulatory elements in the context of recombinant adeno-

178 Here, we identify a set of six cis-regulatory elements in the FOXA1 regulatory plexus harbo

179 get of HNF-1beta through binding to negative regulatory elements in the gene promoter.

180 OCRs usually indicate active regulatory elements in the genome and are directly assoc

181 H3K27ac, and annotate thousands of putative regulatory elements in the human liver.

182 romoter and bridging the promoter with other regulatory elements in the locus.

183 elerate the discovery of phenotypic negative regulatory elements in the noncoding genome.

184 eveals the underlying specificity of central regulatory elements in the pathway.

185 location and nature of the corresponding cis-regulatory elements in the pre-messenger RNA.

186 Physical interaction of regulatory elements in three-dimensional space poses a c

187 ion, we dissected the functions of these two regulatory elements in vivo in the mouse, at the endogen

188 asma cells showed an extensive activation of regulatory elements, in part affecting coregulated adjac

189 We identify 25 frequently mutated regulatory elements, including an enhancer at 6p22.1 whi

190 hylation turnover is enriched at gene distal regulatory elements, including enhancers, and can give r

191 further investigate how risk SNPs in active regulatory elements influence predisposition to ovarian

192 egion of open chromatin, suggesting a nearby regulatory element is involved.

193 n factors (TFs), how the DNA sequence of cis-regulatory elements is decoded and orchestrated on the g

194 omoters physically contacted by these distal regulatory elements is essential for understanding devel

195 te that studying the evolution of individual regulatory elements is pivotal to understand the tempo a

196 The groundwork for tracing the evolution of regulatory elements is provided by the recent assembly o

197 If the CRS is a functional regulatory element, it will lead to the transcription of

198 ylation between parental alleles at specific regulatory elements known as imprinting control regions

199 Here, we first define uncharacterized cis-regulatory elements likely containing silencers and find

200 early cochlear development controlled by cis-regulatory elements located within an approximately 500-

201 maintain open chromatin at hundreds of gene regulatory elements, many of which control subsequent st

202 le-nucleotide polymorphisms (SNPs) in active regulatory elements marked by H3K27Ac in HGSOCs.

203 ies, however, have shown that 8-oxoG in gene regulatory elements may serve as an epigenetic mark, and

204 ects on neurodevelopment, diverse actions of regulatory elements, mediated effects, and spurious asso

205 AD risk variants in these regulatory elements modify disease susceptibility by reg

206 ter activity via the involvement of a sterol regulatory element motif.

207 open chromatin reveals differentially active regulatory elements near Fgf10 and Sall-1 in the emu win

208 sed numbers or greater proximity of enhancer regulatory elements near the gene.

209 tes that plastocyanin diffusion is a crucial regulatory element of plant photosynthetic electron tran

210 Transcription Factor E3 (TFE3), binding to a regulatory element of Prox1, thereby enhancing its venou

211 strate that the disulfide bond is a critical regulatory element of SrrB function during S. aureus inf

212 cessible chromatin showed key changes in the regulatory elements of core pluripotency genes, and orch

213 expression and function are directed by cis-regulatory elements of developmental control genes that

214 re we survey, using ATAC-seq, the active DNA regulatory elements of eight types of primary cells in n

215 ughout the whole brain and are recognized as regulatory elements of excitatory synaptic transmission.

216 iption factors bind directly to the putative regulatory elements of many stemness- and cell cycle-rel

217 on or is a reflection of the activity of the regulatory elements of the genome.

218 ough conditional recombination driven by the regulatory elements of the stem cell-expressed genes GLI

219 will allow further functional studies of the regulatory elements of the TNF locus.

220 We generated maps of regulatory elements on hypertrophic cardiomyopathy patie

221 ze multiple independent variants to the same regulatory element or gene.

222 (HALPER), a tool for constructing contiguous regulatory element orthologs from the outputs of halLift

223 ghtforward identification of transcriptional regulatory elements out of combinatorial libraries.

224 We find that the HBV post-transcriptional regulatory element (PRE), specifically the CNGGN-type pe

225 n chromatin regions (OCRs), termed predicted regulatory elements (pREs), that are likely to function

226 ol and show cytoplasmic recapping can impact regulatory elements present at the ends of mRNA molecule

227 in-based light switch fused to an allosteric regulatory element, preserves the native structure, acti

228 eam promoter of WsMYC2 presented several cis-regulatory elements primarily related to phytohormone re

229 an be applied to modify the activity of gene-regulatory elements - promoters, enhancers, silencers an

230 metazoans are controlled by three classes of regulatory elements: promoters, enhancers and boundary e

231 h a chromatin loop connecting PDGFRA to GSX2 regulatory elements, promoting PDGFRA overexpression and

232 To identify regulatory elements (RE) and genes perturbed by acquired

233 The analysis identified 57,048 novel regulatory elements regulating cerebellar development, s

234 sease, although identification of functional regulatory elements remains challenging.

235 the genome, especially locating critical cis-regulatory elements, requires deletion analysis.

236 Regulatory elements (REs) consist of enhancers and promo

237 hat modulate the function of transcriptional regulatory elements (REs) such as enhancers.

238 understand the functional role of non-coding regulatory elements (REs).

239 We deployed cis- and trans-regulatory elements scanning through saturating mutagene

240 sequential methodologies including Reel-seq (Regulatory element-sequencing) to identify fSNPs in a hi

241 nd that deletion and repression of these cis-regulatory elements significantly decreases FOXA1 expres

242 on, the coordinated actuation of neighboring regulatory elements, single-molecule nucleosome position

243 transcription factor binding site (TFBS) of regulatory elements specifically active in neuroblastoma

244 h ENCODE data to locate somatic mutations in regulatory elements specifically active in neuroblastoma

245 on into the nucleus where it binds to sterol regulatory elements (SRE).

246 sitions of valleys pinpoint locations of cis-regulatory elements such as enhancers and insulators.

247 cis and trans effects differentially impact regulatory elements such as enhancers and promoters rema

248 n-coding and typically attributed to altered regulatory elements such as enhancers and promoters.

249 of molecule aggregates that can join distant regulatory elements, such as gene promoters and enhancer

250 e, it is important to understand the role of regulatory elements, such as miRNAs.

251 e throughput and resolution of the survey of regulatory elements (SuRE) reporter technology to survey

252 c diseases are concentrated within noncoding regulatory elements termed enhancers(1).

253 Enhancers are distal cis-regulatory elements that activate the transcription of t

254 Here, we reveal new cis- and trans-regulatory elements that are crucial for efficient PHO2

255 sion, and a starting point for investigating regulatory elements that are involved in human developme

256 R may represent potent de novo developmental regulatory elements that can be interrogated with specie

257 Enhancers are important regulatory elements that can control gene activity acros

258 cataloged hundreds of thousands of candidate regulatory elements that exhibit cell type-specific chro

259 quantitative scores, including translational regulatory elements that function in living cells.

260 l scenarios can explain the emergence of cis-regulatory elements that govern novel aspects of a gene

261 says, we mapped eQTLs overlapping active cis-regulatory elements that interact with their target gene

262 rent knowledge about putative cis- and trans-regulatory elements that may affect the expression of th

263 translated regions (3'UTRs) of mRNAs include regulatory elements that modulate gene expression; howev

264 ubiquitous and cell type-specific network of regulatory elements that p53 engages; reviewing our unde

265 ication, we identify neuron-subtype-specific regulatory elements that previously went undetected in b

266 ole chromosomes to the detailed loops of cis-regulatory elements that regulate gene expression.

267 However, identifying changes to regulatory elements that underlie human-specific traits

268 ity of loci are thought to affect non-coding regulatory elements, the second question is often refram

269 retroviruses (ERVs) are known to harbor cis-regulatory elements, their role in modulating cellular i

270 en proposed to spatially sequester genes and regulatory elements through chromatin looping.

271 WAS association signals and reports relevant regulatory elements, tissue contexts and plausible targe

272 n by communicating with atypical distal gene regulatory elements to achieve appropriate gene expressi

273 ries indicated a significant contribution of regulatory elements to EOC heritability.

274 This approach maps regulatory elements to footprint-level resolution.

275 bHLH-PAS factor NPAS4 to activity-dependent regulatory elements to induce transcription and thereby

276 ssion, and genome annotations (e.g. gene and regulatory elements) to discover, annotate, and visualiz

277 TimeReg can be used to prioritize regulatory elements, to extract core regulatory modules

278 is comprehensive analysis of tissue-specific regulatory elements, transcription factor binding, and g

279 Understanding the mechanisms by which cis-regulatory element turnover generate emergent phenotypes

280 As, lncRNAs, chromatin accessibility and cis-regulatory elements uncover a core mRNA-ncRNA transcript

281 that a substantial fraction of pan-neuronal regulatory elements undergoes subtype-specific evolution

282 tion, a 15-bp homozygous deletion in the cis-regulatory element upstream of the noncoding exon 1 of G

283 and cell- or tissue-type specificity of the regulatory elements used to express the Cas9 (CRISPR Ass

284 characterized using histone ChIP-seq and cis-regulatory elements were identified in chondrocytes.

285 , we observed that prostate lineage-specific regulatory elements were strongly associated with PCa ri

286 chromatin peaks, representing candidate SAN regulatory elements, were located near established SAN g

287 oaches to investigate a Nanog-associated cis-regulatory element, which has been reported by others to

288 tion and recent constraint and drift on knee regulatory elements, which also overlap osteoarthritis v

289 n gene expression patterns are controlled by regulatory elements, which interact within topologically

290 ic profiling enabled discovery of over 3,000 regulatory elements whose activity is modulated by genet

291 98% of the genome is non-coding and includes regulatory elements whose normal cellular functions can

292 pecific gene expression programs and defines regulatory elements with the potential to contribute to

293 We found that multiple cis-regulatory elements, with distinct chromatin accessibili

294 In characterizing ribosome binding to a regulatory element within a Homeobox (Hox) 5' UTR, we id

295 ENO is able to interact with the GGC-box cis-regulatory element within the SlWUS promoter region, sug

296 ignals, insulators prevent the cross-talk of regulatory elements within adjacent loci and safeguard t

297 e created by mutations that disrupt splicing-regulatory elements within genes and impair splicing rec

298 way inhibition to reduce c-MYC levels at cis-regulatory elements within the AR gene.

299 Collectively, our results identify cis-regulatory elements within the FOXA1 plexus mutated in p

300 ne promoters to integrate inputs from distal regulatory elements, yet how this is achieved remains po