ライフサイエンスコーパス: co-regulate

1 evelopmental stages that the clustered genes co-regulate.

2 share activity profiles and may therefore be co-regulated.

3 al antisense transcripts (NATs) are possibly co-regulated.

4 ests that clusters of adjacent CpG sites are co-regulated.

5 in polycistronic arrays but not necessarily co-regulated.

6 ntation of the underlying processes that are co-regulated.

7 er transcytosis and paracellular leakage are co-regulated.

8 th correlated expression profiles may not be co-regulated.

9 of genes that are 'functionally' related or co-regulated.

10 al processes, including cAMP metabolism, are co-regulated.

11 grouping together genes that are putatively co-regulated.

12 l gene clusters and may be transcriptionally co-regulated.

13 in ATP, suggesting that these processes are co-regulated.

14 ass-degrading enzymes were transcriptionally co-regulated.

15 quence, one might expect that they should be co-regulated.

16 er core and spindle pole are independent and co-regulated.

17 ow processes in muscle and myeloid cells are co-regulated.

18 Signal transduction pathways that co-regulate a given biological process often are organiz

19 NBAS act in concert with core NMD factors to co-regulate a large number of endogenous RNA targets.

20 The two Mmp classes co-regulate a Wnt trans-synaptic signaling pathway modul

21 and U2AF65, revealing that JMJD6 and U2AF65 co-regulated a large number of alternative splicing even

22 transcription in MCF7 cells and with TRIM28 co-regulates a set of genes associated with stem cell ma

23 to identify probe pairs that are positively co-regulated across the samples.

24 multiple (rather than single) intermixed and co-regulated actions, even though many species' signal t

25 could account for, at least partially, their co-regulated alternative splicing events, suggesting bot

26 In conclusion, Hox11 genes co-regulate and coordinate the development of zeugopod s

27 The numbers of identified co-regulated and anti-regulated pairs were higher than e

28 the situation in which subsets of genes are co-regulated and correlation is internal to these subset

29 Here, we present methods to robustly detect co-regulated and functionally enriched gene communities

30 d genes, the conditions under which they are co-regulated and sequence-level regulatory motifs.

31 ion changes over time; such molecules may be co-regulated and thus involved in similar biological pro

32 co-expressed microRNA target genes are often co-regulated, and different groups of target genes of th

33 dentify a module of 137 highly variable, yet co-regulated, antiviral response genes.

34 named pcuABCDE, which are co-transcribed and co-regulated as an operon.

35 ries would thus incorporate tissue-specific, co-regulated as well as housekeeping genes based only on

36 t have related functions and are potentially co-regulated, as well as proteins that are associated wi

37 Do functionally associated genes tend to be co-regulated at the transcription level?

38 or components of specific complexes are also co-regulated at the transcriptional level, and share com

39 re we found that miR-19, miR-101 and miR-130 co-regulate ataxin1 levels and that their inhibition enh

40 wo major isoforms of Pfn (Pfn1 and Pfn2) are co-regulated by a common mechanism involving the action

41 r markers of terminal motor neuron fate, are co-regulated by a shared cis-regulatory signature and a

42 genes that form modules that are potentially co-regulated by a small group of transcription factors.

43 ize orthology assignments for pairs of genes co-regulated by bidirectional promoters to map the ances

44 Meanwhile, the expression of IL-6 is co-regulated by both pathways.

45 dicating the ribA gene and T4SS operon 1 are co-regulated by both wBmxR1 and wBmxR2.

46 , as a healthy adult cardiac fibroblast gene co-regulated by cardiogenic transcription factors Gata4

47 nar positioning of cortical neurons are also co-regulated by cell type- and layer-specific transcript

48 erferes with PcG silencing at genes that are co-regulated by cohesin and PcG proteins.

49 d that a significant proportion of genes are co-regulated by DHX34, NBAS and core NMD factors in thes

50 and microarray analyses, to identify targets co-regulated by Eyeless and Hedgehog, Decapentaplegic or

51 show that full expression of somitic Fgf10, co-regulated by GLI3, is required for the anteroposterio

52 o our model of how this central NE system is co-regulated by opioids and stress-related peptides.

53 ntrolled by promoters methylated by CcrM and co-regulated by other global cell cycle regulators, demo

54 a small proportion of targeted events being co-regulated by PTB.

55 e that T6SS-dependent secreted effectors are co-regulated by RpoN.

56 if that is present in the promoters of genes co-regulated by SciP and CtrA.

57 encodes relationships between genes that are co-regulated by shared biological mechanisms.

58 r of gene expression via a canonical pathway co-regulated by SREBP and Sp1.

59 In addition, ARGs in specific clusters are co-regulated by the cAMP-response element-binding protei

60 uential reactions in a metabolic pathway are co-regulated by the same TFs.

61 angioblasts and the adjacent heart field are co-regulated, by transcription factors previously associ

62 anisms, genes are arranged in units that are co-regulated (called operons).

63 Phalanx number, although co-regulated, can be uncoupled from joint specification.

64 GA prostate tumour RNA-sequencing identifies co-regulated cancer genes associated with 2-oxoglutarate

65 phatases (PTPs) and protein-tyrosine kinases co-regulate cellular processes.

66 ustering was used to divide these genes into co-regulated clusters based on the similarity of tempora

67 the positioning of microbial genes that are co-regulated, co-expressed or evolutionarily correlated.

68 in shuttling between DNA and RNA ligands to co-regulate COL2A1 expression at the level of transcript

69 We show that two genes in a co-regulated DGP have higher expression covariance compa

70 found that hypermethylation of MITF and its co-regulated differentiation pathway genes corresponded

71 the zinc-finger transcription factor Sp1 to co-regulate Drd2 expression.

72 functions at genes whose transcription they co-regulate during mouse T helper 17 (Th17) cell differe

73 Target genes were collectively co-regulated during normal hematopoietic differentiation

74 tyl-D-glucosamine-utilization genes that are co-regulated during productive symbiosis.

75 Moreover, we demonstrate that genes co-regulated during the cell cycle tend to associate wit

76 set of protein complexes for which genes are co-regulated during the cell cycle.

77 associations and chromosome territories are co-regulated during the cell cycle.

78 microRNA sponges - they communicate with and co-regulate each other by competing for binding to share

79 show that STAT3 and betaA3/A1-crystallin may co-regulate each other in astrocytes.

80 The CSBs of co-regulated enhancers share a large number of sequence

81 ly conserved sequences that are shared among co-regulating enhancers.

82 ations and orientations within the different co-regulating enhancers; these elements contain either k

83 RGAP2A, a Rho-GTPase-activating protein, can co-regulate excitatory and inhibitory synapse developmen

84 Our data indicate that co-regulated expression of neuron subtype-specific and p

85 er, the data suggest that the Wld(S) protein co-regulates expression of a consistent subset of genes

86 Mn(II), and antagonized by Fe(II), PerR may co-regulate Fe(II) homeostasis by modulating BsFur level

87 A co-regulated five-gene cluster has been identified and p

88 These were also universally co-regulated following other bacterial basal resistance

89 A co-regulated fraction of specific wall-modifying protein

90 and 3D chromatin structure, which ultimately co-regulate functionally linked genes.

91 Interdependent binding serves not only to co-regulate gene expression but also to prevent TFs from

92 meiosis-expressed gene 1 (MEIG1) and Parkin co-regulated gene (PACRG) interact, and that sperm-assoc

93 found that MEIG1 associates with the Parkin co-regulated gene (PACRG) protein, and that testicular P

94 combined with motif conservation upstream of co-regulated gene clusters allowed the construction of p

95 The ANN model also predicts specific co-regulated gene clusters associated with differential

96 Genes within the co-regulated gene clusters tend to have relevant functio

97 ion piggybacking, which consequently created co-regulated gene clusters.

98 We confirmed co-regulated gene expression using P-element mutants.

99 ults in increased expression of the Hha/H-NS co-regulated gene hilA without affecting the expression

100 ning and user-friendly platform for building co-regulated gene modules and the tools necessary for th

101 nisms from diverse phylogenetic clades (4678 co-regulated gene modules, 3466 regulators and 9291 cis-

102 he discovery of co-expressed and potentially co-regulated gene modules.

103 s are required, capable of discovering large co-regulated gene networks.

104 ave tentatively named this novel gene Parkin co-regulated gene, or PACRG.

105 Sox2 and Pax6 co-regulate genes in neural lineages and the lens by for

106 We identified discrete groups of co-regulated genes (i.e., co-expression modules) and tes

107 Subsequently, 428 highly co-regulated genes (|CC| >/= 0.8) were clustered unsuper

108 goal of these analyses is to define sets of co-regulated genes and identify patterns of gene express

109 fying DNA-binding sites from a collection of co-regulated genes and their nearby non-coding DNA seque

110 ne expression paradigm, implying that active co-regulated genes and their regulatory factors cooperat

111 such as the detection of co-expressed genes, co-regulated genes and transcription factor binding moti

112 Co-regulated genes are likely to reveal themselves by sh

113 Co-regulated genes are not identified in traditional mic

114 y by binding to the same enhancer regions of co-regulated genes as Gli1.

115 Identifying groups of co-regulated genes by monitoring their expression over v

116 ine biosynthetic genes and define a group of co-regulated genes called the A-B regulon.

117 Co-regulated genes consistent between the human and mous

118 he ability to retrieve upstream sequences of co-regulated genes for promoter analysis using MEME (Mul

119 silico tool to identify physical clusters of co-regulated genes from gene expression data.

120 Combinatorial sequence analysis of these co-regulated genes generated a hypothetical regulatory c

121 ing motifs in a set of promoter sequences of co-regulated genes has become an important approach to d

122 mental methods capable of generating sets of co-regulated genes have become commonplace, however, rec

123 Many SlyA- and PhoP/PhoQ-co-regulated genes have functions associated with the ba

124 In fact, all three co-regulated genes have the potential to interact not on

125 It is often used for co-regulated genes identified through experimental appro

126 imulation studies and application to sets of co-regulated genes in bacteria.

127 rogram for predicting regulatory motifs from co-regulated genes in prokaryotes or lower eukaryotes; (

128 cose represses transcription of a network of co-regulated genes in Saccharomyces cerevisiae, ensuring

129 We use our framework to predict co-regulated genes in the bacterium Bacillus subtilis us

130 and on three biologically validated sets of co-regulated genes in yeasts, flies and humans.

131 Identification of modules of co-regulated genes is a crucial first step towards disse

132 ted method to date for identifying conserved co-regulated genes is a two-step approach.

133 transcriptional patterning model is that the co-regulated genes knirps (a short gene) and knirps-rela

134 ression changes, we demonstrate a cluster of co-regulated genes known to have impact in the extracell

135 Furthermore, modules of co-regulated genes may only show tight co-expression acr

136 ression dataset by looking for enrichment of co-regulated genes relative to an empirical null distrib

137 We show that clusters of highly co-regulated genes representing distinct cellular pathwa

138 A major subnetwork containing 61 closely co-regulated genes showed highly significant enrichment

139 xies for CRMs, we endeavor to find PFRs near co-regulated genes that are comprised of similar short,

140 l model for biclustering to infer subsets of co-regulated genes that covary in all of the samples or

141 xamined the phenotypes of mutations in seven co-regulated genes that had no published role in chemota

142 es that are enriched in a set of potentially co-regulated genes with respect to the whole genome.

143 nd developmental stages revealed clusters of co-regulated genes with shared cis promoter elements, wh

144 ntly challenging problem is that of defining co-regulated genes within those gene lists.

145 gulatory modules governing the expression of co-regulated genes, Creme 2.0; and a dynamic portal to m

146 uced well-defined modules of region-specific co-regulated genes, in contrast to standard coexpression

147 1-ICD-overexpressing BS149 cells revealed 42 co-regulated genes, including glycoprotein non-metastati

148 amines the upstream or downstream regions of co-regulated genes, looking for cis-regulatory bipartite

149 To identify co-regulated genes, MicrobesOnline can search for genes

150 asizing common features of large clusters of co-regulated genes, our results highlight the extent to

151 ative positioning of either co-functional or co-regulated genes, stems from two main approaches.

152 deled as a collection of regulatory modules: co-regulated genes, the conditions under which they are

153 transcription cofactors p300/HDAC1 to these co-regulated genes, thereby altering the host gene expre

154 popular technique used to identify groups of co-regulated genes, to infer unknown gene functions.

155 To identify virB co-regulated genes, we searched the Brucella suis 1330 a

156 For a given set of co-regulated genes, WGRV returns statistically enriched

157 p- and down- regulation of several groups of co-regulated genes, with ADR1-dependent genes being the

158 cing experiments further reveals clusters of co-regulated genes, with in situ hybridization confirmin

159 (TFs) and associated target genes in sets of co-regulated genes.

160 ave opposing effects on the transcription of co-regulated genes.

161 association, identifying a large spectrum of co-regulated genes.

162 vary greatly among the elements of different co-regulated genes.

163 catter plots, and dissection into cliques of co-regulated genes.

164 ework and algorithm PHYLOCLUS for predicting co-regulated genes.

165 biologist in detecting activity patterns of co-regulated genes.

166 zation of cis-regulatory elements in sets of co-regulated genes.

167 omoter regions of a given set of potentially co-regulated genes.

168 regulatory motifs in the upstream regions of co-regulated genes.

169 roximal promoter sequences for large sets of co-regulated genes.

170 ond step, thus difficult to detect conserved co-regulated genes.

171 ing classifies co-expressed, and potentially co-regulated, genes into biologically informative catego

172 de insights into how competing behaviors are co-regulated.Genes and circuits involved in sleep and se

173 re, we show that Set1 and Jhd2 predominantly co-regulate genome-wide transcription.

174 vailability of free PRC2 at the proximity of co-regulated genomic loci.

175 cero-phosphorylcholine), was identified in a co-regulated group of genes enriched for components of t

176 transcriptional control circuits that affect co-regulated groups of genes: a key to understanding how

177 wild-type p53 and hypoxia-inducible factor 1 co-regulate hDBR1 expression, and insufficient hDBR1 lea

178 ribe an approach to comprehensively identify co-regulated, heterogeneously expressed genes among cell

179 analyses show that Nup153 and Sox2 bind and co-regulate hundreds of genes.

180 We report that astrocytic insulin signaling co-regulates hypothalamic glucose sensing and systemic g

181 ilitate the identification of genes that are co-regulated in a cell type-specific or developmental st

182 nscriptional modules--sets of genes that are co-regulated in a set of experiments, through a common m

183 iling identified a network of genes that are co-regulated in dysferlinopathic mice.

184 y binding sites in upstream regions of genes co-regulated in embryonic stem cells.

185 In agreement, EZH2 and Lat1 expression are co-regulated in models of cancer cell differentiation an

186 lin-dependent protein kinase II (CaMKII) are co-regulated in nucleus accumbens (NAc), a brain reward

187 oral fate and progenitor decommissioning are co-regulated in protracted neuronal lineages.

188 y common biochemical processes; how they are co-regulated in response to specific stressors; and how

189 Ube2S and UbcH10 are tightly co-regulated in the cell cycle by APC/C-dependent degrad

190 n and the Pi stress response are intricately co-regulated in the soil bacterium Agrobacterium tumefac

191 Salmonella genes that are transcriptionally co-regulated in vitro with SPI-2 genes was used to ident

192 urons into different subtypes and discovered co-regulated injury-response genes including novel regen

193 Whatever the molecular mechanism by which CO regulates ion channels, endogenous production of this

194 PTEN and c-Met co-regulated many genes involved in cell growth regulati

195 ough heritable genetic polymorphisms or as a co-regulated mediator of the pathology, and may play a r

196 neurons, upregulated miRNA target genes are co-regulated members of prosurvival pathways associated

197 that TrmB transduces a growth rate signal to co-regulated metabolic pathways including amino acid, pu

198 in mice over its related, co-transcribed and co-regulated miRNA, miR-212.

199 lustering algorithm identifies conditionally co-regulated modules of genes (biclusters).

200 h ASD and controls and identified miRNAs and co-regulated modules that were perturbed in ASD.

201 mprove discovery of biologically informative co-regulated modules.

202 roteins, indicating the possible presence of co-regulated mRNA cohorts.

203 Translationally co-regulated mRNA subsets share common upstream regulato

204 n is that RNA-binding proteins and microRNAs co-regulate mRNAs.

205 red that the three genes IPL1, DAM1 and KIP3 co-regulate MT dynamics.

206 transcription factors (TF) that as a group, co-regulate multiple, functionally related genes.

207 By co-regulating multiple targets, ATFs can be used as mast

208 iry, and clockwork orange) were predicted to co-regulate nearly half of the genes that were upregulat

209 is unique switch arrangement of overlapping, co-regulated NES/NLS sequences is vital to delineating t

210 were clustered unsupervised to obtain small co-regulated networks.

211 In the present study, co-regulated neurogenic enhancers that are activated by

212 cal for maintenance of the ES cell state and co-regulated on differentiation.

213 kinases (RTK) and the tumor suppressor PTEN co-regulate oncogenic cell signaling pathways.

214 These two signals co-regulate one another such that 5-HT stimulates the ex

215 arch for conserved overrepresented motifs in co-regulated operons identified likely -35 and -10 promo

216 each consists of a set of transcriptionally co-regulated operons.

217 ering groups of correlated genes potentially co-regulated or associated to the disease or conditions

218 The new concept of a cluster of co-regulated orthologous operons allows the user to dist

219 Finally, we identify clusters of co-regulated ovary genes flanked by Su(Hw)(f) bound site

220 We show that the expression of a set of co-regulated ozone-induced genes is Ca(2+)-dependent and

221 We suggest that hRAD9 and p53 co-regulate p21 to direct cell cycle progression by simi

222 pression are generally correlated within the co-regulated pairs and are anti-correlated within the an

223 nalysis showed that most of the genes in the co-regulated pairs participate in biological regulation.

224 alogs of testis-biased genes, we identified "co-regulated" paralogous pairs in which both genes are t

225 ant for revealing the related mechanisms and co-regulated pathways involved in the development of agi

226 beginning to understand the microbiota-host co-regulated pathways underlying these processes, paving

227 thereby preventing elaboration of the toxin co-regulated pilus (TCP) and cholera toxin in vitro and

228 teria by host immune defences, and the toxin co-regulated pilus (TCP) required for colonization.

229 tion of two key virulence factors: the toxin co-regulated pilus (TCP), a colonization factor, and cho

230 s encoding cholera toxin (ctx) and the toxin co-regulated pilus (tcp), as well as accessory colonizat

231 flagellar rotation and independent of Toxin Co-regulated Pilus function.

232 genes including cholera toxin and the toxin co-regulated pilus.

233 of virulence factors cholera toxin and toxin-co-regulated pilus.

234 ation of specific glycans are organized into co-regulated polysaccharide utilization loci, with the a

235 All three were co-regulated post-transcriptionally by hnRNP K, as hnRNP

236 gene promoter scan, that discriminates among co-regulated promoters by simultaneously considering bot

237 ted, Mot1 was found to control TBP levels at co-regulated promoters.

238 type VI secretion system (T6SS), haemolysin co-regulated protein (Hcp), binds directly to effectors,

239 f secreted proteins, specifically haemolysin co-regulated protein and an RTX toxin-like membrane fusi

240 d procedure yields a 50.9-fold enrichment of co-regulated protein candidates and a 2.5-fold improveme

241 and the founding substrate of the haemolysin co-regulated protein secretion island II T6SS (H2-T6SS).

242 lex interactions are strongly enriched among co-regulated proteins and transcription factors.

243 ur discovery of highly localized operon-like co-regulated regions of chromatin modification is unprec

244 oratory has demonstrated that the haemolysin co-regulated secretion island I (HSI-I)-encoded type VI

245 s, analysing expression profiles in terms of co-regulated sets of genes or in terms of higher-order e

246 ght into determining functionally related or co-regulated sets of genes, suggest annotations of previ

247 Analysis of the co-regulated subunits of a stage-specific enzyme is ther

248 Some endocytic pathways may be co-regulated such that disruption of one pathway leads t

249 defined by Oamb and Octbeta3R respectively, co-regulate sugar consumption according to changes in en

250 and several blocks of duplicated genes were co-regulated, suggesting some type of epigenetic or posi

251 ivity of the enhancer in vivo MIST1 and PTF1 co-regulate target genes synergistically or additively,

252 iments have initially validated about 30% of co-regulated target genes identified by ChIP-BIT as bein

253 el sRNA seed regions and sets of potentially co-regulated target mRNAs.

254 y influence expression and middle-level ones co-regulate targets to mitigate information-flow bottlen

255 3 RIP-seq library, suggesting that PTBP2 may co-regulate TDP-43 RNA targets.

256 nnels, introduce a unique mechanism by which CO regulates the activity of a target protein, and revea

257 ctivation, suggesting that VIAF functions to co-regulate the apoptotic cascade.

258 GAP2A and its human-specific paralog SRGAP2C co-regulate the development of excitatory and inhibitory

259 le, miR-18a-3p, -320a, -193b-3p, and -92b-3p co-regulate the glycolysis/gluconeogenesis and focal adh

260 functional modules where different microRNAs co-regulate the same functional process.

261 articles, we demonstrated that PlpA and MglA co-regulated the direction of gliding motility through d

262 Here we reported that GATA-1 and GATA-2 co-regulated the expression of two microRNA genes, micro

263 as a novel IBP cofactor, which specifically co-regulates the chromatin accessibility of hundreds of

264 We found that MKL co-regulates the expression of Pfn isoforms indirectly b

265 NRF-2 is of special significance because it co-regulates the expressions of mediators of energy meta

266 g those with undetectable plasma HIV-1 RNA), co-regulates the glucocorticoid receptor and PPARgamma a

267 knock-out rat model, we show that GalNAc-T2 co-regulates the metalloproteinase-mediated limited prot

268 lex is a component of a genetic pathway that co-regulates the stability of the p53 and E2F-1 transcri

269 53 maintains plasticity of imaginal discs by co-regulating the maintenance of genome integrity and di

270 hat leptin and TRH, acting in the hindbrain, co-regulate thermogenesis.

271 The mechanisms by which CO regulates these ion channels are still unclear and re

272 anscytosis and paracellular permeability are co-regulated through a signaling pathway linking dynamin

273 n, CrMYC2 is capable of activating ORCA3 and co-regulating TIA pathway genes concomitantly with ORCA3

274 hreonine kinase (Stk1) and a TCS (CovR/CovS) co-regulate toxin expression in GBS.

275 insights into the mechanisms by which Atxn1 co-regulates transcription.

276 e patterned tissue specification, in part by co-regulating transcription.

277 Significant over-representation of co-regulated transcripts encoding leucine rich repeat re

278 However, whether active deubiquitination co-regulates ubH2A levels in ESCs and during differentia

279 al role in flagellar assembly and evolved to co-regulate various cellular processes with motility.

280 Additionally, we show that Wnt8 and Bmp2b co-regulate vent and vox in a dynamic fashion.

281 ndependent contribution of the three H1-T6SS co-regulated vgrG genes, vgrG1abc, to bacterial killing.

282 d identified gene sets that are likely to be co-regulated via shared regulatory motifs.

283 proteins with similar abundance profiles are co-regulated, we clustered the proteins with abundance p

284 cordant, suggesting that their imprinting is co-regulated, whereas the imprinting of the NESPAS/XLalp

285 identified several groups of genes that are co-regulated with characterized marker genes.

286 mplexan invasion-related motility genes were co-regulated with genes encoding the flagellar apparatus

287 acterium salinarum that is transcriptionally co-regulated with genes of the aerobic physiologic state

288 ne generated in which the ICS1:luc fusion is co-regulated with ICS1.

289 We show that Nctc1 is co-regulated with Igf2 and H19 and physically interacts

290 an intestinal copper transporter (Atp7a) was co-regulated with iron transport-related genes by a hypo

291 stinct mouse strains to identify transcripts co-regulated with itch behavior.

292 These analyses identified novel targets co-regulated with Maspin in human short-term cultures de

293 Finally, TRAIL and CCL2 are co-regulated with MDSC/M2 markers in lung adenocarcinoma

294 ng key enzymes of the C4 pathway are already co-regulated with photosynthesis genes and are controlle

295 eam of the neighbouring gene Map17, which is co-regulated with Scl in haematopoietic cells.

296 The closely related protein Dichaete is co-regulated with SoxN and has a partially redundant fun

297 ch to identify genes, pathways and processes co-regulated with the query.

298 t proteins translocated by the T4SS would be co-regulated with the virB operon.

299 yeast, we discovered that most RBP genes are co-regulated with their target genes, but the RBPs tend

300 find that Set2 has a short half-life and is co-regulated, with RNAPII CTD phosphorylation levels, du