ライフサイエンスコーパス: gene network

1 yielded over 60% of cells with a functional gene network.

2 d 10 of the 11 links in the well-studied gap gene network.

3 rtance of c-MYC within the miR-203-regulated gene network.

4 ac abundance and expression of the AR target gene network.

5 ntrolling noise in the DAF-16/FOXO-regulated gene network.

6 1/SmarcA4 as one of the key nodes of the ASD gene network.

7 es from The Cancer Genome Atlas into a broad gene network.

8 on controlled by a beta1-adrenergic receptor gene network.

9 n of nonmodel plant genes on the A. thaliana gene network.

10 ion of promoter-promoter contacts in the Hox gene network.

11 ighlights the complexity of the spliceosomal gene network.

12 ht the hierarchical organisation of the otic gene network.

13 stage-specific architecture of the pair-rule gene network.

14 ription of the pro-tumorigenic TNF-NF-kappaB gene network.

15 enable the engineering of complex artificial gene networks.

16 nd control as a useful tool for the study of gene networks.

17 ationships between genes that is provided by gene networks.

18 ciation study (GWAS) signals in miRNA-target gene networks.

19 ic, possibly oscillatory, data for different gene networks.

20 d, capable of discovering large co-regulated gene networks.

21 TEx) pilot data, and we find tissue specific gene networks.

22 ted by complex and still not well understood gene networks.

23 ch, but rather form by co-opting preexisting gene networks.

24 ethods currently used to model molecular and gene networks.

25 stochastic state transitions in multistable gene networks.

26 ll suited to exploring dynamic mechanisms in gene networks.

27 ays involve an increase in the complexity of gene networks.

28 n of latent pro-osteogenic and -inflammatory gene networks.

29 and bioinformatically analyzed their target gene networks.

30 so benefits the rational design of synthetic gene networks.

31 cover redundant genes and to explore complex gene networks.

32 enin), which expressed negatively correlated gene networks.

33 th bioinformaticians who research stochastic gene networks.

34 n correlates with increased heterogeneity of gene networks.

35 of boosting GWAS disease associations using gene networks.

36 ate SCP-gene and up-regulate chromaffin cell-gene networks.

37 uit, a common motif in natural and synthetic gene networks.

38 resent PRODIGEN (PRObability DIstribution of GEne Networks), a web-based visual analysis tool for the

39 ately and efficiently reconstruct nodulation gene network, a crowdsourcing platform, CrowdNodNet, was

40 In gene networks, a gene that has many interactions with ot

41 We observed distinct waves of gene network activation, including the ordered re-activa

42 otic selection, a second electroporation and gene network activation.

43 This technology was enabled by gene networks active during development, which induce gl

44 Modulation of gene network activity allows cells to respond to changes

45 Our results support the hypothesis that gene network activity can evolve by optimizing the stren

46 th and without the network motif, we measure gene network activity in single yeast cells and find tha

47 egrative analysis identified an interrelated gene network affected by copy number and mutation, leadi

48 ng expression of key factors and stabilizing gene networks against aberrant fluctuations.

49 rdant with proosteoblast and proinflammatory gene network alterations in human NOTCH1 heterozygous en

50 Transcription factors control important gene networks, altering the expression of a wide variety

51 ation could be identified, transcriptome and gene network analyses revealed upregulation of genes inv

52 Gene network analysis demonstrates that these CD4(+) T c

53 terleukin-1beta administration, we undertake gene network analysis of the microglial transcriptomic r

54 A gene network analysis revealed putative key regulators o

55 We used unbiased gene network analysis to evaluate functional convergence

56 By co-expression gene network analysis, we deduced that AGM HSCs show low

57 Using data-driven gene network analysis, we identified 17 gene coexpressio

58 y prior to conducting weighted co-expression gene network analysis.

59 bles key applications, such as combinatorial gene-network analysis, in vivo synthetic lethality scree

60 f Egfr gene: the relative expression levels, gene network and expression quantitative trait loci (eQT

61 l expression profiling, mouse knockouts, and gene network and pathway modeling, which have generated

62 e generated a multiscale model that connects gene networks and cells to the experimentally mapped lan

63 To define the gene networks and developmental processes controlled by

64 ications of SCG include the discovery of new gene networks and novel cell subpopulations, fine mappin

65 Additionally, we resolved gene networks and pathways associated with spMN maturati

66 responses and suggest that context-specific gene networks and pathways may shape how the immune syst

67 oach to integrate somatic mutation data with gene networks and pathways, in order to identify pathway

68 ne coexpression network analysis to identify gene networks and profiles associated with SA and its sp

69 SREBP-2 in regulation of sterol biosynthetic gene networks and provides a potential mechanism for cho

70 integration, IDR facilitates the analysis of gene networks and reveals functional interactions that a

71 ving replicability in some prior analyses of gene networks and show that they are unconnected with th

72 ancreatic cancer cells via targeting complex gene networks and signaling pathways.

73 st general strategies for defining mammalian gene networks and synthetic lethal interactions by explo

74 Engineering at the gene, network and whole-genome scale aims to introduce t

75 able to interactively visualize and edit the gene network, and easily access the information about th

76 Functional enrichment, gene network, and k-means clustering analyses were used

77 lated nearly 1800 genes, the specific mRNAs, gene networks, and biological pathways involved were lar

78 structure prediction and association of gene-gene networks, and they enable potential applications to

79 nship is to core components of developmental gene networks, and what is the developmental basis of va

80 tion factors needs clarification in terms of gene network architecture.

81 Gene networks are also complex dynamic systems which can

82 tips of all four species, suggesting that TF-gene networks are generally conserved.

83 in the understanding of gene association and gene networks are providing significant clues to their e

84 ight into the complex, dynamic modulation of gene networks as well as their impact on human disease,

85 nderstand the diverse functions of genes and gene networks, as well as help in the design of specific

86 T2 regulated gene networks associated with cell signalling and transc

87 mbined with wet bench validation to identify gene networks associated with the regenerative state of

88 ent layers of the human eye that unveils the gene networks associated with their biological functions

89 ptional time-series datasets, we generated a gene network based on temporal expression profile simila

90 arch efforts have been focused on estimating gene networks based on gene expression data to understan

91 Here we sought to apply an unsupervised gene-network based approach to a prospective experimenta

92 criptome identified differentially expressed gene networks between WT and knockout mice basally and a

93 ic evidence for control of the gammadeltaT17 gene network by HEB.

94 e of defense is the expression of the innate gene network by infected epithelial cells.

95 ecifically, the top differentially regulated gene network by WD feeding was 'Lipid metabolism, small

96 ilencing (p < 0.05) that were assigned to 25 gene networks by in silico analysis.

97 hese results, we assessed the FOXP3 and EZH2 gene networks by RNA sequencing in isolated intestinal C

98 epair systems be sufficiently effective, the gene network can stabilize so that gene damage remains c

99 Here, we report the identification of a gene network centering on the transcription factor- sign

100 Integrative analysis revealed gene networks composed of critical signaling pathways th

101 m deregulation of FOXP3/EZH2-enforced T cell gene networks contributing to the underlying intestinal

102 olled by interaction of the environment with gene networks controlling development and plasticity.

103 indicate that a conserved Grhl2-coordinated gene network controls trophoblast branching morphogenesi

104 By contrast, the gene networks coordinated by CREB in astrocytes are unkn

105 We found that expression in gene networks correlated with source-population environm

106 alysis of the architecture of the PH disease gene network coupled with molecular experimentation in v

107 of 'research communities' sampling from real gene network data and machine learning methods to charac

108 ccess, and a refined data model for handling gene network data in addition to its original emphasis o

109 Moreover, analysis of the gene network derived from APOE varepsilon3/4 patient ind

110 nodulation include NIN and possibly related gene networks derived from the nitrate signalling pathwa

111 nscriptomic results with human postmortem AD gene networks, differential expression and differential

112 transcriptome is important for studying how gene networks direct cellular functions and how network

113 or that controls the expression of extensive gene networks, driving both up- and down-regulation.

114 ial key regulators and reveals unanticipated gene network dynamics that drive cell fate choices.

115 brain development and its role in regulating gene networks dysregulated in neurodevelopmental disorde

116 tein or protein-DNA interactions, leading to gene network dysregulation and human disease.

117 nal methods that enable analysis of multiple gene networks, each of which exhibits differential activ

118 We identify topologically replicable gene networks enriched for diverse immune functions incl

119 In particular, the activity of gene networks enriched for growth related pathways corre

120 genes, cis regulation, and the structure of gene networks, epigenetics, and novel genes.

121 Our high-confidence essential gene network, established using chemical genomics, showe

122 ences, we have very limited understanding on gene network evolution via changes in cis-regulatory ele

123 sgnesR (Stochastic Gene Network Expression Simulator in R) is an R package

124 nal opportunity for testing whether the same gene networks follow different evolutionary trends in ma

125 d a description of a genome-scale functional gene network for A. thaliana, AraNet, which was construc

126 sis uncovered a uniquely interconnected gene-gene network for each trait.

127 provide a rational basis for targeting this gene network for radiosensitization.

128 data permitted development of comprehensive gene networks for two major breeding traits, flowering t

129 Reconstructions of gene networks from gene expression data greatly facilita

130 To test gene network functionality, we developed a flow setup th

131 the constructed context-specific m6A-driven gene networks further revealed the regulatory circuitry

132 ed or user submitted groups of gene sets and gene networks, GeneWeaver empowers users with the abilit

133 uential activation of distinct developmental gene networks governs the ultimate identity of a cell, b

134 el members of gene groups, assess how well a gene network groups known sets of genes, and determines

135 s, especially in the context of miRNA-target gene networks, has not been fully assessed.

136 Gene networks have become a central tool in the analysis

137 By integrating human imprinted gene network (IGN) into functional genomic analyses, we

138 resents a central node in neurodevelopmental gene networks implicated in autism.

139 genetic variants involving key mediators of gene networks implicated in the hypoxic response and the

140 cistrome, implicating a myeloid PU.1 target gene network in AD.

141 machine-learning algorithm to predict a NUE gene network in Arabidopsis (Arabidopsis thaliana).

142 The segmentation gene network in insects can produce equivalent phenotypi

143 uggesting the key role of the BET-controlled gene network in the disorder.

144 through a systems-level analysis of the gap gene network in the scuttle fly Megaselia abdita (Phorid

145 d highly expanded repertoire of AR-regulated gene networks in actively cycling cells.

146 s has been used to elucidate miRNA-regulated gene networks in cancer, focusing especially upon miRNAs

147 rotein dysregulate disease-relevant neuronal gene networks in cells derived from affected individuals

148 However, a robust map of immune-related gene networks in circulating human cells, their interact

149 e is known on whether miRNA control the same gene networks in different tissues.

150 al mechanism whereby cocaine alters specific gene networks in dlPFC neurons.

151 e release of selective constraint on somatic gene networks in embryogenesis, thus leading to accelera

152 sage has played an important role in shaping gene networks in Glycine.

153 e API include 144 tissue-specific functional gene networks in human, global functional networks for h

154 ibility of rapid and advanced engineering of gene networks in LAB, fostering their applications in bi

155 construction and optimization of large-scale gene networks in LAB.

156 ct from those controlling rhythmic metabolic gene networks in liver.

157 el targets for future mechanistic studies of gene networks in nucleus accumbens and gene regulatory m

158 Identification of mechanisms coordinating gene networks in patients with temporal lobe epilepsy wi

159 first-generation model, built from existing gene networks in Saccharomyces, captures most known auto

160 on for future exploration of miRNA-regulated gene networks in the eye to facilitate the development o

161 of global reprogramming of the inflammatory gene networks in the innate immune cells are poorly unde

162 slation on a broad scale, influencing entire gene networks in the process.

163 ification may provide a new hybrid model for gene networks in vertebrate developmental systems.

164 rs the opportunity to map gene functions and gene networks in vivo at single-cell resolution using ce

165 erized by reduced expression of an imprinted gene network including Nnat, Peg3, Cdkn1c, and Plagl1 an

166 Together, E2F and HSF-1 directly regulate a gene network, including a specific subset of chaperones,

167 Transcription analyses identified a gene network, including the chemokine IL-8, regulated by

168 Using causative gene network inference to compare the genes regulated in

169 ructed by integrating multiple co-functional gene networks inferred from diverse data types, and we d

170 To insert the gene network into a high proportion of cells, a hybrid t

171 the probiotic interacts to regulate a novel gene network involved in glucose metabolism and appetite

172 on of the gut microbiome, highlights a novel gene network involved in lipid metabolism, provides an i

173 t the DNMT3a-deficient cells had deactivated gene networks involved in calcium, endothelin-1, renin-a

174 ted human islet cells, with up-regulation of gene networks involved in cell autonomous immune respons

175 all of which are encoded by Idd9 and part of gene networks involved in cellular growth and developmen

176 that can be correlated with the expansion of gene networks involved in light sensing and signaling.

177 transcription factors regulates the complex gene networks involved in lipid, carbohydrate, and prote

178 jective was to identify individual genes and gene networks involved in metabolizing fenbendazole (FBZ

179 In summary, our study implicated a gene network involving Tbx5, Osr1 and Pcsk6 interaction

180 Learning the underlying details of a gene network is a major challenge in cellular and synthe

181 and that at least part of the vernalization gene network is conserved throughout the subfamily.

182 lthough the qualitative structure of the gap gene network is conserved, there are differences in the

183 that under most common circumstances, such a gene network is inherently unstable.

184 y of predictors even in cases where the full gene network is unknown.

185 conserved and divergent response patterns in gene networks is becoming increasingly important.

186 echnologies for the functional dissection of gene networks is discussed.

187 By translating gene network knowledge from the data-rich model Arabidop

188 ations in transcription factor dosage affect gene networks leading to human disease and reveal nodes

189 regulated upon geminin deletion, revealing a gene network linked with geminin that controls fetal hem

190 le-tissue experiments focusing on uncovering gene networks linked to genetic variation.

191 These loci related to gene networks linked to the central nervous system (CNS)

192 on shared systems of disease and non-disease gene networks may have broad implications for future con

193 er tight genetic control, and that placental gene networks may influence postnatal risk of multiple h

194 f the highly conserved retinal determination gene network members Eyes absent (Eya), Sine oculis (So)

195 iseases and physiologic states, and advanced gene network modeling, we predicted the microRNA-130/301

196 We describe three plausible gene network models that incorporate features of lncRNAs

197 ts underlying two other influential types of gene network models: first, the combinatorial, hierarchi

198 A gene network module involving Tbx5 and Osr1 was identifi

199 Altered expression of gene network modules and FOXG1 are positively correlated

200 In this study, we focus on finding gene-gene network modules which are functionally similar in n

201 coexpression network analysis constructed 64 gene network modules, including modules corresponding to

202 silience of phenotypic states in a synthetic gene network near a critical transition.

203 Recently, we reported a gene network of ADAMTS (A Disintegrin-like and Metallopr

204 A considerable number of genes in the gene network of Egfr are sex differentially expressed.

205 ied a statistically significant gene set and gene network of rare variants that are over-represented

206 RACIPE was further applied to a proposed 22-gene network of the Epithelial-to-Mesenchymal Transition

207 We further created an integrated regulatory gene network of the salt response in P. euphratica by co

208 Testosterone-sensitive up-regulated gene networks of HVC of singing males concerned neuronal

209 tworks within the 16p11.2 region and broader gene networks of schizophrenia-associated CNVs.

210 cated the significant impact of miRNA-target gene networks on the genetics of human complex traits, a

211 ts - either by modifying toggle switches and gene networks, or by producing synthetic entities mimick

212 suppression of certain regulatory genes and gene networks, our study demonstrates how chromatin remo

213 or organ samples, but most of the functional gene networks overlapped.

214 ation, Differential gene expression and gene-gene network, Phenotype information, Pharmacological inf

215 Here, we demonstrate that a gene network previously implicated in somite boundary fo

216 servation in the developmental processes and gene networks regulated by LEC1 in two dicotyledonous pl

217 As knowledge of the gene networks regulating inflorescence development in Ar

218 ainstay in immunology, but subtle changes in gene networks related to biological processes are hard t

219 ession of miR-203 showed dramatic changes in gene networks related to cell cycle and proliferation.

220 ts revealed that the p53- and FOXO1-mediated gene networks related to homeostasis are disturbed upon

221 n regions, HVC and RA, and find the seasonal gene networks related to neuronal differentiation only i

222 t, but the underlying disease susceptibility gene networks remain poorly understood.

223 at alterations of the cholesterol metabolism gene network represent a molecular link between obesity/

224 ion factor Pax6 and upstream of Ptf1a in the gene network required for generating the horizontal and

225 redictions of the disrupted NOTCH1-dependent gene network revealed regulatory nodes that, when modula

226 idopsis are controlled by a well-established gene network revolving around the key regulator SHORT-RO

227 evise a novel scoring scheme to quantify key genes-network routers, which influence many genes, key t

228 variable profiles identified secondary xylem gene networks, showed their remodelling over a growing s

229 le of not only modeling but also controlling gene networks since the experimental environment is most

230 have identified a novel NF-kappaB-regulated gene network specific to migratory DCs.

231 ion initiation is common to and preserved in gene network structure with the ASD cortical transcripto

232 Expression Resource (MuTHER), the Depression Genes Networks study (DGN), the Netherlands Study of Dep

233 he capacity for rapid engineering of complex gene networks, such as natural biosynthetic pathways and

234 Our results uncover a trithorax group gene network that controls quiescence, niche occupancy,

235 ecific enhancer repertoire associated with a gene network that controls self-renewal.

236 are components of an ancient auxin-regulated gene network that controls the development of tip-growin

237 lopmental stages, we obtained a coexpression gene network that highlights interactions between known

238 alyses of brain tissue, we identified an A2M gene network that includes regulator of calcineurin (RCA

239 , designated TARGET(218), defines a neuronal gene network that is selectively tuned down in motoneuro

240 e-like behavioral phenotypes and a candidate gene network that may mediate its effects.

241 lncPRESS1 revealed that lncPRESS1 controls a gene network that promotes pluripotency.

242 ng data, we identify components of the shape-gene network that regulate NF-kappaB in response to cell

243 structural strategy to identify co-expressed gene networks that are important for chronic myelogenous

244 aster circuits: virus-encoded autoregulatory gene networks that autonomously control viral expression

245 We identify sparse gene networks that can then be tested for association ag

246 been made in the identification of genes and gene networks that control the ionome.

247 However, the gene networks that control their development are unclear

248 raint in the evolution of phenotypes and the gene networks that control their development.

249 ollaborate with transcription factors in the gene networks that determines neuronal cell fate.

250 ene expression data-may illuminate genes and gene networks that have key roles in the pathogenesis of

251 This work illuminates gene networks that interact with TBX20 to orchestrate ca

252 , transient (lasting <24 hours) induction of gene networks that promote lipolysis and adipogenesis in

253 ATFs enable the high-throughput screening of gene networks that trigger cell fate decisions or phenot

254 s analysis, candidate genes clustered within gene networks that were associated with a blunted effect

255 tion-seq analyses of NRSF targets identified gene networks that, in addition to Crh, likely contribut

256 ion data to systematically describe a "shape-gene network" that couples specific aspects of breast ca

257 flap tissue thereby bringing new functional gene networks; these presumably enabled the T2/T3 wing's

258 has been developed to study the rewiring of gene networks through microarray data, which is becoming

259 This process often results in genes network through which a certain biological mechani

260 strate that LIN-22 acts within the epidermal gene network to antagonise the Wnt signalling pathway.

261 The method can be applied to data from any gene network to both quantify the proportion of oscillat

262 e first mammalian mechanosensitive synthetic gene network to monitor endothelial cell shear stress le

263 ing approach based on a human brain-specific gene network to present a genome-wide prediction of auti

264 ding ' uilt-by- ssociation' by egree) allows gene networks to be evaluated with respect to hundreds o

265 tigated how TBX20 interacts with endocardial gene networks to drive the mesenchymal and myocardial mo

266 53 is a central regulator that turns on vast gene networks to maintain cellular integrity in the pres

267 l- and chronologic model of cardioprotective gene networks to prevent left ventricular (LV) adverse r

268 is a critical factor controlling metastatic gene networks to promote PCa metastasis.

269 We related expression in co-expressed gene networks to trait phenotypes measured in the common

270 rams, including the redirected expression of gene networks toward the synthesis of core hypoxia-respo

271 d radioresistant properties of cancer cells, gene networks triggering the HIF-1-mediated reprogrammin

272 explore this organelle organization and the gene network underlying it.

273 We identify key regulators of sex-specific gene networks underlying MDD and confirm their sex-speci

274 mework for system-level understanding of the gene networks underlying such behaviours.

275 Surprisingly, prominent hub genes of the gene network unique to ependymal CD133(+)/GFAP(-) quiesc

276 o simulate gene expression data from a given gene network using the stochastic simulation algorithm (

277 dy, we developed a method for reconstructing gene networks using a partial correlation-based approach

278 city to stimulate antiviral and inflammatory gene networks using influenza virus-like particles (VLP)

279 Activation of the gene network varied logarithmically as a function of she

280 ts an unprecedented opportunity to construct gene networks via the evolutionary rate covariation (ERC

281 Using a cell-free gene network we programmed molecular interactions that c

282 To permit high-throughput analysis of gene networks, we have implemented a set of very efficie

283 f the identified genes that were involved in gene networks were cellular development, cell growth and

284 Functions related to these gene networks were consistent with a better cardiac cont

285 In addition, 2 distinct Sox9-regulated gene networks were identified in the Sox9(low) and Sox9(

286 ression microarray studies, four significant gene networks were identified.

287 These changes in mitochondrial gene networks were validated by quantitative reverse tra

288 at modulate transcription of vast downstream gene networks, whereas signaling kinases and transporter

289 nd gain-of-function datasets reveals complex gene networks which control drug response and illustrate

290 als, showed that KCTD17 is part of a putamen gene network, which is significantly enriched for dyston

291 ressed a hepatocyte nuclear factor 4A-driven gene network, which was down-regulated in mouse hepatocy

292 ferentiation under the control of regulatory gene networks, which include the distal-less (Dlx) gene

293 Concurrently, TNF-alpha regulated a broad gene network with cobinding activities for cREL, DeltaNp

294 We uncover several gene networks with a genetic basis and clear biological

295 Using natural and synthetic gene networks with and without the network motif, we mea

296 Other gene networks with enrichments for photosynthesis relate

297 We uncovered gene networks with overlapping feedback loops that are m

298 Evaluating gene networks with respect to known biology is a common

299 c and comparative analysis of the p63 target gene network within the integrated framework of the tran

300 dissecting this microRNA-138/SIN3A-regulated gene network would identify individual proteins contribu