ライフサイエンスコーパス: co-expression

1 and quantify the influence of each factor on co-expression.

2 ced clones demonstrated appropriate MYF5-GFP co-expression.

3 odel training, with canine OS tumor data for co-expression.

4 on, 72 miRNA-target pairs showed significant co-expression.

5 ellular trafficking of HA was affected by NA co-expression.

6 eurons in an experimental design targeted to co-expression.

7 le for multi-factor analysis of differential co-expression.

8 hat CCDDs are associated with increased gene co-expression.

9 that influenced the respective differential co-expression.

10 luence of individual factors on differential co-expression.

11 es we introduce CLIC, CLustering by Inferred Co-expression.

12 We elucidate patterns in gene co-expression across the genome, describe asynchronous t

13 In the primate striatum, Scgn co-expression also identified a topographically distinct

14 analysis (WGCNA), which exploits patterns of co-expression among genes, to brain transcriptome data o

15 More specifically, the combined use of co-expression analyses based on self-organizing maps wit

16 Furthermore, we performed eQTL and co-expression analyses in lung tissue.

17 nts along with systems-based comparative and co-expression analyses of these transcriptome maps ident

18 The co-expression analyses performed by using RNA-Seq data s

19 ckage Bayes Factor approach for Differential Co-expression Analysis (BFDCA) for DC analysis.

20 een developed for single-factor differential co-expression analysis and applied in a variety of studi

21 It is unclear whether co-expression analysis at the single-cell level will pro

22 f publicly available transcriptomic studies, co-expression analysis combining multiple transcriptomic

23 stration could be used as part of a specific co-expression analysis framework.

24 Co-expression analysis has been employed to predict gene

25 Differential co-expression analysis helps further detect alterations

26 However, co-expression analysis is often treated as a black box w

27 Co-expression analysis is widely used to predict gene fu

28 s of incisor renewal and illustrate how gene co-expression analysis of intact biological systems can

29 Intriguingly, co-expression analysis revealed blood gene modules highl

30 Co-expression analysis suggested that pre-priming of def

31 However, co-expression analysis using human cancer transcriptomic

32 Previous co-expression analysis was mainly conducted at bulk tiss

33 d from the following sources: (i) systematic co-expression analysis, (ii) detection of shared selecti

34 Using genetic interaction mapping, gene co-expression analysis, pathway intermediate quantificat

35 (GRACE) to adjust for the effect of SCNA in co-expression analysis.

36 ltiDCoX to perform multi-factor differential co-expression analysis.

37 r and the capsaicin receptor (TRPV1) exhibit co-expression and complex, but largely unknown, function

38 In vivo co-expression and in vitro assays combined with nuclear

39 mmunosorbent assay (ELISA) and (iii) in-vivo co-expression and screening in Escherichia coli.

40 ylation by protein kinase A during bacterial co-expression and subsequent binding at the amphipathic

41 y, we identify technical factors influencing co-expression and suggest how they can be controlled for

42 a tissue microarray format and analyzed the co-expression and the clinicopathologic data of ERG and

43 However, co-expression as well as regulated titration of the puta

44 To better understand gene-gene co-expression based on biological regulation but not SCN

45 tructed cancer or tissue type-specific, gene co-expression based protein interaction networks and dru

46 We found a striking co-expression between ER body-related genes (including P

47 ulation of each IGF-IR gene, revealing tight co-expression between the IGF-IRa paralogues, but expres

48 As current methods for identification of co-expression cannot cope with this level of complexity,

49 ly, we validated the biological relevance of co-expression cluster memberships with an independent ph

50 Gene co-expression clusters containing CAM pathway genes are

51 d at the level of individual cell types, but co-expression clusters provided clues as to their functi

52 ssue and shown that cytoplasmic PML and CRM1 co-expression correlates with reduced disease-specific s

53 and Cgrpalpha was not mutually exclusive and co-expression could be observed, most abundantly in the

54 mprovement, overcoming the limit of enforced co-expression data retrieval and instead enabling the re

55 nd confirmed the candidate effectors by gene co-expression data.

56 Along this line, analysis of differential co-expression (DC) has gained attention in the recent ye

57 Differential co-expression (DCX) signifies change in degree of co-exp

58 likely to overlap with known functions than co-expression derived from bulk data, with functional va

59 iently systematic framework for decoding the co-expression gene modules in multiple tissues.

60 onal approach, called ICEGM, to Identify the Co-Expression Gene Modules through a novel mathematical

61 By co-expression gene network analysis, we deduced that AGM

62 for familiality prior to conducting weighted co-expression gene network analysis.

63 all traits was found in a xylem preferential co-expression group developed in independent experiments

64 Gene co-expression has been widely used to hypothesize gene f

65 Gene co-expression implicates a network relevant for schizoph

66 risk genes, and showed their interaction and co-expression in a functional network that converged on

67 Results from yeast two-hybrid and co-expression in Escherichia coli confirmed that all thr

68 Following SD, Fos co-expression in Hcrt, HA, and ACh neurons (but not in 5

69 vity of APOBEC-3G (A3G), A3B, and A3C during co-expression in human liver HepG2 cells.

70 nes have been prioritized in silico by their co-expression in the brain.

71 ndicating the scale-free nature of host gene co-expression in W12.

72 We next tested the effects of SMIT1 co-expression, in the absence of extracellular myo-inosi

73 human breast tumors data sets the MTSS1/p63 co-expression is a negative prognostic factor on patient

74 Hence, in silico modeling of brain co-expression is an efficient method for nominating EE-a

75 However, it is not clear to what degree co-expression is informative, whether it can be applied

76 Transcript co-expression is regulated by a combination of shared ge

77 ssion data sets allowed to observe that high co-expression levels of SCD1, beta-catenin, YAP/TAZ and

78 We defined a gene co-expression matrix containing a small number of highly

79 to the brainstem suggesting that Ctip2/Satb2 co-expression may refine their properties rather than de

80 thods (differential expression, correlation, co-expression, microRNA-mRNA target prediction, co-targe

81 d the power of this approach by showing that co-expression module members Lrig1 and Igfbp5 define pop

82 The co-expression module that correlated best with resistanc

83 We identified a co-expression module with peak expression in early brain

84 A subset of these genes belonged to the same co-expression module, mapped to the epidermal differenti

85 Two immune/inflammation-related co-expression modules built from RNA-seq data from both

86 ramework that integrates GWAS data with gene co-expression modules from tissues representing three br

87 sulin resistance and height, as well as gene co-expression modules generated by Weighted Gene Co-expr

88 tational analyses, we identified three major co-expression modules of TF genes that may regulate the

89 Gene ontology (GO) analysis of the co-expression modules suggested that the conserved lncRN

90 Immune/inflammation-related co-expression modules were also built from RNA-seq data

91 Our innovative approach integrates gene co-expression modules with biomolecular interaction netw

92 rom the heterogeneous data, we combined gene co-expression modules with mutation modulators and propo

93 ites, methylation, nucleotide variation, and co-expression modules.

94 As and protein-coding genes, and produced 79 co-expression modules.

95 Barttin co-expression necessarily improves the stability, membra

96 A gene co-expression network (GCN) describes associations betwe

97 elated Nicotiana species revealed a key gene co-expression network (M4 module) which is co-activated

98 A differential gene co-expression network across green and white leaf diel d

99 Co-expression network analyses further define the associ

100 Co-expression network analyses integrated all data and i

101 Weighted gene co-expression network analysis (WGCNA) identified severa

102 highly associated for COPD in Weighted Gene Co-Expression Network Analysis (WGCNA) was enriched for

103 We applied weighted gene co-expression network analysis (WGCNA), which exploits p

104 xpression modules generated by Weighted Gene Co-expression Network Analysis (WGCNA).

105 Co-expression network analysis also identified gene modu

106 Gene co-expression network analysis from transcriptomic studi

107 Co-expression network analysis identified 18 transcripti

108 Further, weighted co-expression network analysis identified 19 robust modu

109 Weighted gene co-expression network analysis identified 5 and 3 module

110 Co-expression network analysis identified three expressi

111 Firstly, co-expression network analysis is applied to explore gen

112 In addition, weighted gene co-expression network analysis of human laminar-specific

113 By implementing parallel weighted gene co-expression network analysis of mRNA and lncRNA data s

114 Co-expression network analysis of mRNA with miRNA, lncRN

115 Breen et al. conducted a Weighted Gene Co-expression Network Analysis on PTSD, and identified a

116 Co-expression network analysis predicted altered integra

117 Co-expression network analysis revealed 20 modules of hi

118 Co-expression network analysis reveals that individuals

119 We further used weighted gene co-expression network analysis to identify transcription

120 orming principle component and weighted gene co-expression network analysis, we categorized dorsal ro

121 rtex using RNA- Seq to populate a whole gene co-expression network analysis.

122 OVX) mice, a model of human menopause, using co-expression network analysis.

123 mutations, gene and protein expression, gene co-expression network and drug pharmacological informati

124 s paper, a method is introduced to construct co-expression network and to extract co-expressed module

125 initial perception of drought, we applied a co-expression network approach to associate rhythmic gen

126 Specifically, we generated a co-expression network consisting of 53 gene modules usin

127 In this work, we developed a rice gene co-expression network for anther development (RiceAnther

128 t many tools and methods for construction of co-expression network from gene expression data and for

129 A gene co-expression network identified using TCGA prostate tum

130 Importantly, these processes are coupled to co-expression network modules associated with cell proli

131 ion of two over-represented PD-specific gene co-expression network modules: the Brown Module (Br) con

132 We identified a co-expression network of 320 genes (M30), which is signi

133 menon, we generated and integrated a dynamic co-expression network of heart regeneration in the zebra

134 as well as strong overlap with AD-associated co-expression network structures.

135 Furthermore, a weighted gene co-expression network was constructed from the RNA-Seq d

136 Subsequently, a functional lncRNA-mRNA co-expression network was constructed, which consisted o

137 A xylem co-expression network was reconstructed with 180 wood as

138 d by cis-regulatory motifs from a human gene co-expression network.

139 ols and constructed a functional lncRNA-mRNA co-expression network.

140 Weighted Co-expression Networks Analysis provided support to idea

141 emented with new tools for reconstruction of co-expression networks and feature-and-network-based pri

142 ELAVL2-regulated co-expression networks are also enriched for neurodevelo

143 We constructed co-expression networks based on the expression profiles

144 sualization of any identified biclusters and co-expression networks elucidation.

145 that integration of association mapping and co-expression networks enhances our understanding of com

146 Co-expression networks estimated from single transcripto

147 Here, we consider recovering gene co-expression networks from gene expression data, where

148 pled method to recover context specific gene co-expression networks from the estimated sparse biclust

149 Co-expression networks have been a useful tool for funct

150 It has been used to identify differential co-expression networks or interactomes.

151 Co-expression networks performed better than genes or GS

152 n Hfe(-/-) x Tfr2(mut) brain with human gene co-expression networks suggests iron loading influences

153 iovascular study cohort, and we recover gene co-expression networks that are differential across ER+

154 single-cell RNA-seq data create confounds in co-expression networks which can be identified and expli

155 ic diversity is supported by analyses of RNA co-expression networks, protein-protein interaction netw

156 We have built PC gene and lincRNA co-expression networks, unraveling key biological proces

157 e and linked this to extensive sex-dependent co-expression networks.

158 gene-gene connectivity and replicability in co-expression networks.

159 networks such as protein interaction or gene co-expression networks.

160 labeled test set, and when analyzing general co-expression networks.

161 re, we document that EGFR and PDGFRA protein co-expression occurs in 37% of GBM.

162 Transient co-expression of 14-3-3- and AtWRI1-encoding cDNAs led t

163 Co-expression of 4-1BB and LAG-3 was seen on a majority

164 Similar TRPV4 activation was induced by co-expression of a cognate channel, AQP1.

165 the DNA methyltransferase DNMT3A targeted by co-expression of a guide RNA to any 20 bp DNA sequence f

166 Based on co-expression of a progenitor marker, Sox2, we identify

167 pression (DCX) signifies change in degree of co-expression of a set of genes among different biologic

168 ts showed that RPE65 activity was reduced by co-expression of ACSLs or FATP2.

169 Our results suggest that co-expression of active SMAD2/3 could enhance multiple t

170 Co-expression of AKT and c-Met triggered rapid liver tum

171 Here, co-expression of alpha-syn and polo-like kinase 2 (PLK2)

172 In this study, we exploited co-expression of an artificial fusion protein, based on

173 vitro and in vivo, which was mitigated upon co-expression of an Eos mutant lacking miR-17 target sit

174 d by dampening neuronal excitability through co-expression of an inwardly rectifying potassium channe

175 We demonstrate that the selective co-expression of another calcium-binding protein, secret

176 Co-expression of ATGL reverses the changes in LD phenoty

177 g re-assembly of Complex V) following stable co-expression of ATP8 and ATP6 Thus, we report the stabl

178 Co-expression of barttin increased protein abundance and

179 We find, however, that co-expression of beta2-adrenergic receptors (beta2AR) in

180 Co-expression of bip CENP-A and bip CAL1 in mel cells re

181 Co-expression of Bordetella nadC with the nadB and nadA

182 Co-expression of both a multiplex of HIV-1-specific gRNA

183 We found abundant co-expression of both avian (SA alpha2,3-Gal) and human

184 Co-expression of both WT and mutant CSPalpha cause a blo

185 ammalian N-BAR domains bound calmodulin, and co-expression of calmodulin with endophilin A2 potentiat

186 Persistent co-expression of Cas9 and the specific targeting guide R

187 Co-expression of cathepsin B and cathepsin B-resistant m

188 Co-expression of CaValpha2delta1 with CaVbeta/CaValpha1

189 ls from human primary NSCLC samples based on co-expression of CD73 and CD90 while lacking hematopoiet

190 basal tumor cells (BTCs), as defined by the co-expression of CD90, CD44 and CD49f, directly from pat

191 were implicated in resistance to GLS through co-expression of COI1 and enrichment of genes with the G

192 Co-expression of constitutively active Galphao prevented

193 The VLP-RNAi assembles upon co-expression of CP and the RNAi scaffold in E. coli.

194 ional studies of Cx26 in HeLa cells revealed co-expression of Cx26-Asp50Asn and wild-type Cx26 in gap

195 Among the CYPs tested, co-expression of CYP1a2 significantly affected the respo

196 Isolation of pure Th22 cells without co-expression of cytokines of other T-cell subsets is es

197 L was a potent inhibitor of Kv4.2 and Kv4.3; co-expression of cytosolic beta subunit KChIP2, which re

198 Co-expression of engineered BacNav with endogenous mamma

199 We also show that co-expression of Fat4 and Ds1 in the same cells is suffi

200 t mesendoderm regulatory state is defined by co-expression of Foxa.a, Foxd and Fgf9/16/20.

201 Here, we show that co-expression of full-length IcsA and the Shigella membr

202 In contrast, co-expression of full-length tau isoforms did not result

203 ectrometry can be utilized to screen for the co-expression of functionally related biomarkers to be r

204 2 cells also increased TAG accumulation, and co-expression of FUS3 and diacylglycerol acyltransferase

205 Co-expression of Gbetagamma, but not constitutively acti

206 understanding of how microRNAs influence the co-expression of genes and pathways, and thus ultimately

207 was associated with stronger inter-regional co-expression of genes enriched for neuronal terms.

208 mune/inflammatory response, as determined by co-expression of genes, which is associated with the maj

209 coupling from Gi/o to Gs/olf, but only upon co-expression of GHS-R1b.

210 Moreover, the co-expression of GM-CSF and its receptors as well as pho

211 Currently, FRET/BRET assays rely on co-expression of GPCR and G protein, and hence depend on

212 engineered to express Myc and Akt1 in liver, co-expression of Igf2 accelerated formation of liver tum

213 Co-expression of its beta subunit inhibits misfolding an

214 xicity of RelE2sca could be abolished by the co-expression of its cognate RelB2sca antitoxin.

215 CHO cells expressing integrin alphaIIbbeta3, co-expression of K2 with talin head domain resulted in r

216 rated by wild-type Kar2 can be replicated by co-expression of Kar2 mutants that mimic either the unmo

217 Co-expression of Kras(G12V) and Braf(D631A) in mouse lun

218 After combining these strategies with co-expression of LEU1 (two copies), LEU4, LEU2 (two copi

219 Enforced co-expression of luciferase together with Myc and a domi

220 on is conserved in the human orthologue, and co-expression of Minion and the transmembrane protein My

221 alyses include global expression comparison, co-expression of miRNA clusters and the prediction of mi

222 n transport pathway, codon optimization, and co-expression of molecular chaperones to promote express

223 More importantly, co-expression of MsDorsal-RHD with MsRel2-RHD suppressed

224 ys with moricin mutant promoters showed that co-expression of MsFkh with Relish-RHD did not have an a

225 basic and translational studies that require co-expression of multiple factors or multi-units of comp

226 stacle is the ambiguity that arises from the co-expression of multiple HLA alleles.

227 Co-expression of MyoA with its two light chains revealed

228 Co-expression of NifH and NifM with Nif-specific Fe-S cl

229 l requires both anoxic growth conditions and co-expression of NifH and NifM with NifU and NifS.

230 Co-expression of Nodal and Vg1 results in heterodimer fo

231 o endocytic vesicles, which was dependent on co-expression of P2Y12.

232 In human PanIN lesions, co-expression of PEDF and SOD2 was observed in the major

233 Co-expression of physically linked genes occurs surprisi

234 In the current study, we show that co-expression of PIKE-A and CDK4 in TP53/PTEN double kno

235 However, our results reported here indicate co-expression of PKM1 and PKM2 and their possible physic

236 n consonance, phosphoproteins obtained after co-expression of PknA with mPDE/S20A/T240A/4A displayed

237 Co-expression of PLM and NCX1 inhibited NCX1 current (bo

238 Moreover, co-expression of PLM with NCX1(F407P) (mutated K(I/V)FF

239 This method, called mito-priming, uses co-expression of pro- and anti-apoptotic Bcl-2 proteins

240 This inhibition was alleviated by co-expression of proteins that bind the betagamma subuni

241 genes is supported by the eQTL analyses and co-expression of PTTG1lP with vimentin and E-cadherin1,

242 We report unprecedented cellular co-expression of rhabdomeric opsin and a visual pigment

243 Moreover, we found that co-expression of RNF11 and SMURF2 dramatically reduced S

244 d that poor survival is associated with high co-expression of SCD1, beta-catenin and the YAP/TAZ down

245 constructs for the temporary, stoichiometric co-expression of six different combinations of the four

246 Co-expression of Slug with Kras also attenuated chronic

247 Co-expression of SP1 with LRRK2 increased LRRK2-induced

248 Lentiviral co-expression of specific BacNav orthologues, an inward-

249 izable promoter function, particularly where co-expression of synthetic TFs is not suitable.

250 This morphological phenotype was rescued by co-expression of TCF4 plus calmodulin in a calcium-depen

251 Finally, with co-expression of the Aldo-induced protein serum- and glu

252 Co-expression of the AP-2 alpha subunit enhanced the Nef

253 Interestingly, co-expression of the glbN-lprI gene pair elevated the in

254 ent virus-like particle trap assay, based on co-expression of the HIV Gag protein, confirmed that thi

255 Co-expression of the mutant with wild-type PANX1 suggest

256 ide-deletion mutant but could be restored by co-expression of the propeptide in trans SBT3 was inhibi

257 The co-expression of these genes in the same plant tissues t

258 in breast cancer is further supported by the co-expression of these molecules in multiple subtypes of

259 However, co-expression of these proteins stabilized the polypepti

260 Co-expression of TLR5 receptor and agonist in Mobilan-in

261 Here we found that co-expression of truncated and full-length human tau in

262 Here we show that post-lesional AAV-assisted co-expression of two soluble proteins, namely insulin-li

263 Moreover, co-expression of variable ratios of hERG1a and hERG1b RN

264 dult spinal neurons defined by developmental co-expression of VGLUT3 and Lbx1 (VT3(Lbx1) neurons): th

265 However, co-expression of wild type caveolin-1 with mutated caveo

266 ed that ABCD4 lysosomal targeting depends on co-expression of, and interaction with, LMBD1.

267 logical pathways are modular and may exhibit co-expression only in specific contexts.

268 k significantly enriched for transcriptional co-expression (P<0.0001) in the frontal cortex during fe

269 We observed a differential co-expression pattern between lincRNAs and their neighbo

270 516 pairs of lncRNA-mRNAs have differential co-expression pattern, in which the correlation between

271 ast tissue; (2) 291 pairs have dose-response co-expression pattern, in which the correlation is simil

272 e upregulated in human cancers, exhibiting a co-expression pattern.

273 Ms help discover tumor subtype specific gene co-expression patterns (modules) that are significantly

274 We revealed two distinctive co-expression patterns associated with breast cancer, re

275 ere genes under one condition have different co-expression patterns compared with another.

276 y-associated) derived from effector function co-expression patterns were used to analyze the results.

277 tween human and dog datasets based on strong co-expression patterns.

278 This is useful both in improving co-expression performance and in characterizing single-c

279 ents in HEK-293T cells demonstrated that D1R co-expression promotes a switch in GHS-R1a-G protein cou

280 Functionally, KIT and DNMT1 co-expression promotes, whereas dual inactivation of the

281 that ID-AGs are substantially enriched with co-expression, protein-protein interactions, and specifi

282 ological functions for different patterns of co-expression regulations.

283 work was constructed, which consisted of 681 co-expression relationships between 164 lncRNAs and 201

284 n, we performed an unbiased analysis of gene co-expression relationships to identify modules of co-ex

285 pacts transcriptional heterogeneity and gene co-expression remains unknown.

286 form the first major analysis of single-cell co-expression, sampling from 31 individual studies.

287 The co-expression signature is conserved across 31 TCGA canc

288 opy number alterations (SCNA), which produce co-expression signatures based on physical proximity rat

289 s expressed in Pichia pastoris and through a co-expression strategy with a molecular chaperone, yield

290 Using an improved viral 2A peptide co-expression strategy, we demonstrate that CDK1 control

291 Here, we estimate the proportion of co-expression that is due to shared genetic variance.

292 ict the function of unstudied genes based on co-expression to well-studied pathways.

293 ines, and GDU1 protein levels decreased upon co-expression with active, but not enzymatically inactiv

294 Co-expression with AQP4 facilitated the cell swelling in

295 subunit palmitoylation was increased by ENaC co-expression with DHHC 7.

296 Co-expression with distinct ClC-3 splice variants target

297 lls, but shifts to a dimer after HP shock or co-expression with M.HhaII.

298 We measured Fos co-expression with markers for wake-promoting cell group

299 PTTG1IP showed significant co-expression with pituitary tumour-transforming 1, the

300 n in the endoplasmic reticulum (ER), however co-expression with Rom1 rescued this phenotype.