ライフサイエンスコーパス: genic

1 Genic 21-nt-dominated loci were especially common from d

2 Loss of genic 5hmC was independent of global 5-methylcytosine (5

3 results in differential epigenetic states of genic alleles and, in turn, selection against TEs.

4 We indexed nucleotide variations in 306 genic and 44 intergenic loci among isolates derived from

5 This observation allows the integration of genic and allelic effects into a single scheme, which ma

6 ease (ADPKD) is heterogeneous with regard to genic and allelic heterogeneity, as well as phenotypic v

7 fluences of the germline mutation are at the genic and allelic levels, but intrafamilial variability

8 De novo genic and copy number variants are enriched in patients

9 Genic and especially nonsynonymous SNPs are overrepresen

10 chromatin also surprisingly extends to both genic and expansive intergenic regions.

11 romatin accessibility increase and spread to genic and flanking regions due to destabilization of the

12 (SAHF), as well as specific families of non-genic and genic repeats.

13 ious studies have now demonstrated that both genic and global hypomethylation characterizes the multi

14 ncRNAs were predicted to originate from both genic and intergenic loci.

15 Genic and intergenic parallel evolution occur particular

16 These SNPs were distributed in genic and intergenic regions in the eight pseudomolecule

17 ze, revealed extensive local conservation of genic and intergenic regions, with no evidence of the gl

18 CPD hotspots occur almost equally in genic and intergenic regions.

19 es from other transposon classes, as well as genic and intergenic regions.

20 egions of high and low recombination, and in genic and intergenic regions.

21 cted at various genomic locations, including genic and intergenic regions.

22 sitions nucleosomes at the interface between genic and intergenic sequences.

23 events are distributed about equally between genic and intergenic template sequences.

24 exons followed by extensive binding to other genic and non-genic sites.

25 ecessitating the use of WGS to delineate all genic and non-genic susceptibility variants in research

26 global aggregation of STAT binding loci from genic and nongenic regions highlights a new role for dif

27 rily distributed along the genome, including genic and nongenic regions.

28 [AT] values is significantly enlarged in non-genic and pericentromeric regions.

29 rall, we have quantified the contribution of genic and PKD1 allelic effects and sex to the ADPKD phen

30 in species with complex genomes can focus on genic and promoter regions.

31 but in Europe these alleles are enriched in genic and putatively functional alleles to an extent onl

32 nts (CNVs) stems from both the proportion of genic and regulatory content altered and loss-of-functio

33 We show that genic and regulatory SVs exist at significantly lower fr

34 Including a genic (and allelic) descriptor with the disease name wil

35 ns, one comprising traditional coding genes (genic) and the other comprising intergenic repetitive el

36 s including genic, non-dark, non-coding, non-genic, and dark.

37 ns, on nucleosomal organization at promoter, genic, and transcription termination regions in Saccharo

38 Partitioning by genic annotation indicated a greater contribution of SNP

39 cluding linkage disequilibrium (LD)-weighted genic annotation scores, total LD scores and heterozygos

40 We identified 413 genic associations across 13 brain regions.

41 tion, as well as a series of dosage-mediated genic associations across the medical phenome.

42 iants associated with stability reveal fewer genic associations and enrichment of variants 0-5000 bas

43 These genic associations could elucidate signals in complex ge

44 characterized variation at 9p23, and several genic associations in the context of acute coronary arte

45 ence of a positive effect of the genomic and genic base composition on mammalian gene expression.

46 ns in the nonconserved microsatellites and a genic bias in all detected tandem repeats and confirm th

47 ns in the nonconserved microsatellites and a genic bias in all detected tandem repeats.

48 tenance of sexually selected traits, such as genic capture ('good genes') and sexually antagonistic s

49 d, then sexually selected filtering through 'genic capture' could offset the costs of sex because it

50 Genic CG methylation levels, but not CHG or CHH levels,

51 The vast majority of genic CG methylation patterns are faithfully transmitted

52 Extending this, variably methylated genic CGs in maize and Brachypodium distachyon are also

53 Genic CGs that fail to maintain the parental methylation

54 s of transcription factor binding sites, and genic characteristics of mutations.

55 In contrast, genic CHG methylation correlates with genome size, sugge

56 ntact HIV-1 proviruses were enriched for non-genic chromosomal positions and more frequently showed a

57 bserve considerable genetic variation at the genic, chromosomal and subgenomic levels, and use this i

58 ts, will be a useful substrate for detecting genic CNV events, particularly deletions.

59 es, and most (70%) carried at least one rare genic CNV.

60 gh sensitivity and specificity for detecting genic CNVs >/=400 kb including known pathogenic CNVs alo

61 aracterized the rates and properties of rare genic CNVs (<0.5% frequency) in exome sequencing data fr

62 identify effects on gene expression of rare genic CNVs and regulatory single-nucleotide variants and

63 y of exome-focused arrays in surveying large genic CNVs in very large samples; and thereby open the d

64 can reliably be used to discover disruptive genic CNVs missed by standard approaches and should have

65 at cases with SCZ had greater enrichment for genic CNVs.

66 We experimentally proved that all genic components of the extant gadid AFGP originated fro

67 red by the ENCODE project, together with non-genic conservation and the abundance of noncoding RNA ge

68 trated moderate correlation with measures of genic constraint based on single-nucleotide variation (S

69 s, and the importance of latitudinally based genic context in the expression of large-effect alleles.

70 the functions of 5-mC and 5-hmC at distinct genic contexts, including promoter regions, gene bodies,

71 Currently, no data are available on genic control of tendrilled leaf development outside Fab

72 osition (SVD) normalization to discover rare genic copy number variants (CNVs) as well as genotype co

73 xome-based detection and characterization of genic copy number variation.

74 ntify a twofold excess of subjects with rare genic copy number variations in Htx (14.5% vs. 7.4%, P =

75 million insertions and deletions, and 25,923 genic copy-number variants.

76 tionary information that is similar to their genic counterparts--the intron and exon regions.

77 and points toward global hypomethylation at genic CpG loci as an important and early mechanism drivi

78 lasts and lymphoblasts was as follows: a non-genic D4Z4-adjacent sequence (p13E-11, array-proximal)>

79 While non-genic 'dark matter' transcription was found by tiling ar

80 affected families and confirmed an excess of genic deletions and duplications in affected versus cont

81 Rare genic deletions contribute ~4% of the population-attribu

82 We found association of rare genic deletions with CHD risk (odds ratio [OR] = 1.8, p

83 Genic demethylation by DML enzymes primarily occurs at t

84 ween any two individuals and find that these genic differences overwhelmingly correspond to segmental

85 Genic differences per strain pair ranged from 35 to 629

86 istinguish effects of polyploidy per se from genic differences that accumulate after genome duplicati

87 These extensive genic diversity data support the DGH and provide a basis

88 Little is known about patterns of genic DNA methylation across the plant kingdom or about

89 escribe the finding that heterochromatin and genic DNA methylation are highly variable among 725 A. t

90 ator EDM2 is also required for prevention of genic DNA methylation because it maintains IBM1 expressi

91 3-rich chromatin raises the possibility that genic DNA methylation is influenced by splicing-associat

92 We found that genic DNA methylation is inversely correlated with that

93 gest a mechanism of efficient acquisition of genic DNA residing between neighbouring Pack-TYPE transp

94 In particular, detecting conserved non-genic elements (CNEs) as promising cis-regulatory elemen

95 , respectively, and that 6mA accumulation in genic elements corresponds with transcriptional silencin

96 regions from the termini of M. tuberculosis genic elements.

97 r active chromatin states in brain including genic enhancers and active transcription start sites.

98 sing numerous multi-enhancer genes and multi-genic enhancers engaged in the control of divergent mole

99 flammation, and co-localized with eQTLS and (genic enhancers of) of transcription sites in brain and

100 on of IL-6 (P <0.05), and did not modify the genic expression of COX-2 in animals with EP (P >0.05).

101 EA treatment decreased the genic expression of IL-1beta and MMP-8 (P <0.05), increa

102 high level of conservation of gene content, genic feature, and gene order although discordances in s

103 While tomato and potato share genic features, they differ in their repetitive sequence

104 which includes variation for the content of genic fragments, variation in repetitive elements surrou

105 own- or upregulation of A chromosome-encoded genic fragments.

106 nic' (Rg) mice ('retro' from retrovirus and 'genic' from Tg) to avoid confusion with traditional tran

107 o revealing a degree of independence between genic H3K36me3 and DNA methylation, these findings highl

108 rrays revealed that levels of all degrees of genic H3K79 methylation correlate with mRNA abundance an

109 e present dataset, we estimate on average 16 genic heterozygous deletions per individual genome.

110 , TPA-promoted (that is, c-fos-activated) bi-genic HK1.ras-Delta5PTEN(flx) cohorts lost p53/p21 expre

111 R-loop formation occurs over conserved genic hotspots such as promoter and terminator regions o

112 mapping and confirmed that R-loops form over genic hotspots, including gene bodies and terminal gene

113 that R-loops form dynamically over conserved genic hotspots.

114 Here we find that genic HP1gamma colocalizes and enhances enrichment of tr

115 n two steps, with repeat silencing preceding genic inactivation.

116 For example, genic incompatibilities and differences in chromosome nu

117 However, genic incompatibilities and ecological divergence may al

118 bserved MTRD in adult hybrids to cytonuclear genic incompatibilities causing differential mortality d

119 romising model for studying the evolution of genic incompatibilities due to the existence of interfer

120 The identified cytonuclear genic incompatibilities in F2 hybrids with N. vitripenni

121 Sterility may result from chromosomal or genic incompatibilities, and much progress has been made

122 creased mortality rate caused by cytonuclear genic incompatibilities.

123 How non-genic information could be inherited differentially to e

124 ACSL6 genic inhibition in rat primary myotubes decreased lipid

125 In the simplest genic interaction--the case of underdominance--imprintin

126 most pertinent to genomic medicine: directed genic interactions such as pathways and genotype-phenoty

127 ed to detect and map recessive dysfunctional genic interactions.

128 mic SSBs in different regions of the genome (genic, intergenic, and heterochromatic) and at different

129 group, analysing CNVs over the whole genome, genic, intergenic, intronic and exonic regions.

130 nts in genes irrelevant to disease), whereas genic intolerance and de novo excess performed better fo

131 GDI with the leading gene-level approaches, genic intolerance, and de novo excess, and demonstrated

132 gher probabilities of haploinsufficiency and genic intolerance, and significantly interacted and co-e

133 gical pathways related to neurons, synapses, genic intolerance, membrane transport, epilepsy, and men

134 ut also as a repressor of all transcription (genic, intragenic, and intergenic).

135 At the genic level, HPL-2 preferentially associates with well-e

136 A genic linkage map with major representation of sugar and

137 this differs by CpG dinucleotide density and genic location of the DNAm site is not well understood.

138 elevated DNA methylation at actively spliced genic locations.

139 o population-level selection effects against genic loci conferring high mortality, we describe geneti

140 cultivars, alleles were resequenced from 81 genic loci distributed throughout the sunflower genome.

141 assess differential CpG methylation at 1,500 genic loci during MM progression and profiled CD138(+) p

142 l evidence of enrichment at genic versus non-genic loci for these traits, as compared with an analysi

143 nt complexity at different scales, including genic loci subject to clusters of repeated rearrangement

144 agement, the contribution of MSI at distinct genic loci to the phenotype remains largely unexplored.

145 Of the lncRNAs that originated from genic loci, approximately 20% were antisense to the host

146 ental and heritable epialleles arise at many genic loci, including a locus that itself controls DNA m

147 tein-coding genes can arise de novo from non-genic loci.

148 trate strong and widespread coupling between genic LoF intolerance and promoter CpG density across th

149 To obtain empirical data, we used codominant genic markers in genetic mapping of the dioecious plant

150 The addition of 1141 sequence-based genic markers to the soybean genome map will provide an

151 thylation and gene expression and a role for genic methylation in response to clinical DNA methylatio

152 sues of Brachypodium distachyon and compared genic methylation patterns to those of rice (Oryza sativ

153 3b has recently been shown to play a role in genic methylation.

154 , we generated a similar wild-type NPM trans-genic model (hMRP8-NPM).

155 (Triticum spp.), with the aim of identifying genic modifications that contribute to its plant-parasit

156 The non-genic, non-coding and dark-matter had the highest F1 sco

157 ivity over several genomic regions including genic, non-dark, non-coding, non-genic, and dark.

158 For comparison of whole-genome (genic + nongenic) sequences, multiple sequence alignment

159 The thermodynamic stability of genic/nongenic regions was tested in terms of nucleotide

160 ese transcripts is accompanied by changes at genic nucleosomes and Pol II redistribution.

161 fic approach taken by remodelers to organize genic nucleosomes into arrays.

162 , the mechanism of H2B ubiquitination across genic nucleosomes remains unclear.

163 the -1 and +1 nucleosomes, NDR and proximal genic nucleosomes, at genes highly dependent on its func

164 stabilized, which leads to the reduction of genic nucleosomes.

165 RNAs, which directly target the 3'UTR of the genic oligouridylate binding protein 1B (UBP1b) mRNA.

166 We show that non-genic part of the genome has a greater contribution than

167 cessary for WC1 genes to function as a multi-genic pattern recognition receptor array is encoded in t

168 e pronounced in genomic regions that are non-genic, pericentromeric, transposable elements; methylate

169 Collectively, the ovary data reveal new genic piRNA loci, including unusual configurations of pi

170 First, genic piRNAs do not accumulate in proportion to the leve

171 macronuclear genome is whittled down to the genic portion of a small fraction ( approximately 5%) of

172 en located in intergenic regions, making the genic portions of the human genome an interleaved networ

173 ops within gene structures (hereafter named "genic position").

174 lutionary rates of coding exons in different genic positions.

175 onary) features of coding exons in different genic positions.

176 proach yielded approximately 2x more smaller genic rare CNVs.

177 We searched for disruptive, genic rare copy-number variants (CNVs) among 411 familie

178 oles, while others may exist to insulate the genic reading frame from the negative impacts of upstrea

179 from the mRNA 5' end to reach the downstream genic reading frame.

180 ro1 gene in either heterozygote, making it a genic recombination coldspot.

181 In allohexaploid wheat, however, genic redundancy results in rarity of such mutants, with

182 rs1014971, (P = 8 x 10(1)(2)) maps to a non-genic region of chromosome 22q13.1, rs8102137 (P = 2 x 1

183 identify the Yr6 locus - defining a smaller genic region than was previously possible; associate the

184 In the genic region, distribution of 5hmCpG and 5fCpG differed

185 ature" centromere that recently arose from a genic region.

186 ative controls targeting non-functional, non-genic regions (termed safe-targeting guides), in additio

187 Among genic regions affected, a significant enrichment for neu

188 silent or weakly transcribed intergenic and genic regions and accompanied by an increase of H3K27ac

189 s of altered methylation are enriched around genic regions and are often correlated with changes in s

190 ded sites, and the proportion located within genic regions and exons.

191 tern occurs not only in promoter but also in genic regions and is significantly correlated with highe

192 non-TGCA Copia elements are often located in genic regions and preferentially insert nearby or within

193 1 (CABIN1), deposits histone variant H3.3 to genic regions and regulates gene expression in various c

194 genome-wide disruption in 5hmC, primarily in genic regions and repetitive elements.

195 eptides emerge de novo from thymine-rich non-genic regions and subsequently accumulate changes molded

196 me also revealed localization of enzyme-rich genic regions and transporters near known biosynthetic e

197 this is the first time that non-recombining, genic regions as large as 86% of a full chromosome (or 8

198 anization at very different scales, from sub-genic regions associated with DNA-binding proteins at th

199 into nucleosomes, along with histone H4, at genic regions by the histone chaperone HIRA, whereas H3.

200 nt species-specific structural variations in genic regions changed the expression of many important g

201 We found that genic regions demethylated by DML enzymes are enriched f

202 genic regions, which then spread across most genic regions during differentiation.

203 n and gene silencing, primarily by targeting genic regions in the Arabidopsis genome.

204 Tnt1 preferentially inserted into genic regions in the potato genome and the insertions we

205 enic regions play a more important role than genic regions in trait heritability in rice, which is co

206 tudies indicates that viral integration into genic regions is accompanied by local amplification, inc

207 andidates, but interpreting variants outside genic regions is more difficult.

208 Antisense transcription through genic regions is pervasive in most genomes; however, its

209 es, many others originating de novo from non-genic regions of the genome.

210 ts and allelic variation in the promoter and genic regions of the GmCHX1 gene.

211 association into 15 chromatin states (CS) in genic regions of the P. patens genome.

212 kb are highly fragmented, with even low-copy genic regions showing degradation at 20 x depth.

213 We show that it can detect genes and inter-genic regions using the selection rate and detect select

214 We find that the fraction of SNPs in or near genic regions varies widely by phenotype.

215 Modifications in methylation patterns within genic regions were often associated with transcriptional

216 s induces a large number of DHSs enriched in genic regions which are frequently associated with diffe

217 ion of the genes from promoters and captures genic regions with a sensitivity of 0.94.

218 Comparison of RF number and position on genic regions with fragmented total and polysomal mRNA i

219 sical boundaries and genomic organization of genic regions with noncoding transcripts often overlappi

220 ictabilities using the genetic variants from genic regions with those using nongenic regions.

221 of the insertion/deletion events occurred in genic regions, and new Alu insertions occurred in exons

222 y applying a focal points approach to enrich genic regions, but also to reach a uniform coverage of n

223 ding genes, H3T3ph density was minimal in 5' genic regions, coincidental with a peak of H3K4me3 accum

224 epositing histone variant H3.3 into distinct genic regions, including promoters, enhancers, and gene

225 Like Pol II-transcribed genic regions, Pol IV-transcribed regions are flanked by

226 ly capture pathogenic non-coding variants in genic regions, resulting in overlooking synonymous and i

227 motif; notably, 80% of these were located in genic regions, suggesting that these sequences may fold

228 s a remarkable preference for insertion into genic regions, which makes it particularly suited for ge

229 ocalization analysis reveals CBX3 binding at genic regions, which strongly correlates with gene activ

230 t CpG islands and other genomic sites within genic regions, which then spread across most genic regio

231 but also to reach a uniform coverage of non-genic regions.

232 regions are generally greater than those in genic regions.

233 ands of individuals assayed at a few hundred genic regions.

234 occur more frequently in early-replicating, genic regions.

235 H2Bub is required for FACT activity in genic regions.

236 human genome with statistical enrichment for genic regions.

237 e, we have catalogued all triplet repeats in genic regions.

238 ic mutations may be concentrated in specific genic regions.

239 variants (SNVs) and appear to be enriched in genic regions.

240 pecific differences related to the length of genic regions.

241 ylation and enrichment of CHH methylation in genic regions.

242 tion of transposable element insertions near genic regulatory elements followed by positive selection

243 s well as specific families of non-genic and genic repeats.

244 >8200 tumor-normal pairs, we discover broad genic repression domains (BGRD) on chromatin as an epige

245 effects would occur for quantitative, multi-genic resistance, but found that the HAD Gain increased

246 These TSIs were derived from genic, retrotransposon, or telomere sequences and were n

247 ciated phenotypes in 2775 middle aged men (a genic scan).

248 ting genes, but some de novo origin from non-genic sequence also seems plausible.

249 the milieu of repeat elements and other non-genic sequence features at a given chromosomal locus, he

250 as a mapping reference that are based on the genic sequence used for sequence enrichment.

251 ous Mutator-like elements (MULEs) that carry genic sequence(s), are potentially involved in generatin

252 s providing a picture of the distribution of genic sequences across the mapped portion of the genome.

253 Overall, LTR sequences and genic sequences showed more rapid nucleotide substitutio

254 n an evolutionary continuum ranging from non-genic sequences to genes.

255 tion relative to the genes in the region and genic sequences, later shown to be carried by two helitr

256 In addition to genic sequences, rice MULEs capture guanine-cytosine (GC

257 le; and de novo emergence from ancestral non-genic sequences, such that homologues genuinely do not e

258 by widespread translational activity in non-genic sequences.

259 ic open reading frames (ORFs) located in non-genic sequences.

260 lation of sequences devoid of genes, or 'non-genic' sequences, is expected to produce insignificant p

261 In contrast, genic silencing initiates at the morula-to-blastocyst st

262 Xist, and occurs several divisions prior to genic silencing.

263 by extensive binding to other genic and non-genic sites.

264 sity analysis based on a 36-plex genome wide genic-SNP assay grouped these genotypes into two major c

265 As the genomewide genic SNPs become available, our entropy-based gene-cent

266 f the genome has a greater contribution than genic SNPs to the [AT]-increase observed between wild an

267 nking genes explained additional risk beyond genic SNPs, suggesting a potential regulatory role, but

268 s a near-comprehensive representation of the genic space that revealed the genomic context of key poi

269 ucture were analyzed based on 55 polymorphic genic-SSR data among 59 accessions.

270 The genic-SSR identified in this study constitute a set of m

271 The 7,936 genic-SSR markers were identified.

272 Of the 80 genic-SSR primer sets, 62 were amplified in C. ensifoliu

273 Genic-SSR's coupled with the functional annotations prov

274 sequence repeats derived from gene regions (genic-SSR).

275 well as a dataset of the recently published genic SSRs (eSSRs) generated on the same germplasm.

276 Unigenes containing the 62 genic-SSRs were searched against Non-redundant (Nr), Gen

277 A total of 80 genic-SSRs were selected, and primers were designed acco

278 ene expression, while an H3K27me3-containing genic state is associated with differentially expressed

279 Two genic states involving H3K36me3 are preferentially assoc

280 ing data revealed A. azarai to have a unique genic structure for AVPR1A that varies in coding sequenc

281 Here we evaluate the intolerance of genic sub-regions using two biological sub-region classi

282 he use of WGS to delineate all genic and non-genic susceptibility variants in research and in clinica

283 ere, we employed prostate-specific murine bi-genic systems to investigate the effects of gain and los

284 Cleavage of genic targets began at the pachytene stage and resulted

285 ind both in cis to telomeres and in trans to genic targets.

286 trasomy leads to an enhanced accumulation of genic TE insertions, some of which likely contribute to

287 structural sequence motif enriched near the genic termini of the pathogenic Actinobacteria, Mycobact

288 -associated CG-DMPs arise more frequently in genic than in nongenic regions of the genome.

289 e genome and are more likely to occur in the genic than intergenic regions, especially common in the

290 suppress intragenic cryptic promoters during genic transcription and to repress gene promoters by tra

291 The results suggest that intergenic and genic transcription complexes are independent and possib

292 tic status of TEs could widely influence the genic transcriptome.

293 single regulatory unit within which eRNA and genic transcripts are coordinately regulated.

294 luded a higher ratio of anti-sense and inter-genic transcripts, reflecting a pervasive transcription

295 ilitated by the pervasive translation of non-genic transcripts, which exposes a reservoir of variable

296 apidly evolving in sequence, expression, and genic turnover than male-biased genes.

297 d to genetic variants located outside genes, genic variants are more likely to affect disease risk.

298 The new entropy-based approach considers genic variants within one gene simultaneously and is dev

299 (SNPs) chosen to optimally account for intra-genic variation.

300 de and statistical evidence of enrichment at genic versus non-genic loci for these traits, as compare