ライフサイエンスコーパス: genic

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

2 Two of these recombination hot spots are genic (a1 and yz1) and one is apparently nongenic.

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 Genic and especially nonsynonymous SNPs are overrepresen

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

10 cking elongation eliminated the synthesis of genic and extragenic transcripts and eliminated Pol II f

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 increase and decrease recombination in both genic and intergenic regions over relatively small genet

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

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

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

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

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

21 sequences and have verified our assembly by genic and intergenic Southern blotting.

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

23 e we show that antisense transcription, both genic and intergenic, occurs extensively in the V region

24 Differential methylation of genic and non-genic sequences was observed in all specie

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

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

27 hey are randomly distributed with respect to genic and nongenic intervals and identified one deletion

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

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

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

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

35 Partitioning by genic annotation indicated a greater contribution of SNP

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

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

38 Fanconi anemia (FA) is a rare multi-genic, autosomal and X-linked recessive disorder charact

39 Genic balance is maintained by not removing those genes

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

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

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

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

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

45 ity across the human genome and in different genic categories using two SNP databases: Celera's CgsSN

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

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

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

49 Genic CGs that fail to maintain the parental methylation

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

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

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

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

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

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

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

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

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

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

60 rogram MultiPipMaker was used to compare the genic complement of Chlamydomonas with those of other ch

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

76 Genic demethylation by DML enzymes primarily occurs at t

77 trons, HelA and HelB, account for all of the genic differences distinguishing the two bz locus haplot

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

79 Genic differences per strain pair ranged from 35 to 629

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

81 These genic distribution analyses were more effective as a str

82 th useful markers of active genes, but their genic distribution indicates differing roles.

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

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

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

86 3-rich chromatin raises the possibility that genic DNA methylation is influenced by splicing-associat

87 BC4F3 population and estimated for component genic effects based on the BC4F4 populations.

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

89 Strict selection of non-genic elements which are deeply conserved in vertebrate

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

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

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

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

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

95 particular in the multiplication of related genic fragments across the genome.

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

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

98 tion probabilities of selected alleles under genic, frequency-independent selection.

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

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

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

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

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

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

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

106 For example, genic incompatibilities and differences in chromosome nu

107 However, genic incompatibilities and ecological divergence may al

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

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

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

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

112 creased mortality rate caused by cytonuclear genic incompatibilities.

113 ACSL6 genic inhibition in rat primary myotubes decreased lipid

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

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

116 olation is often caused by the disruption of genic interactions that evolve in geographically separat

117 ed to detect and map recessive dysfunctional genic interactions.

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

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

120 % found in genomic intervals encoding genes (genic intervals), and have occurred in the genomes of bo

121 ese DNA rearrangements are commonly found in genic intervals, and thus provide natural starting point

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

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

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

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

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

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

128 er, as a result of exonic rearrangement, the genic locations of exons IA and IB are reversed in the r

129 elevated DNA methylation at actively spliced genic locations.

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

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

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

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

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

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

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

137 , we conclude that a very high percentage of genic MAGIs accurately reflect the structure of the maiz

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

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

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

141 Genic methylation is strongly influenced by transcriptio

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

143 3b has recently been shown to play a role in genic methylation.

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

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

146 Trans genic mosquitoes stably expressing a RNAi transgene, des

147 rders of magnitude greater than estimates of genic mutation rates.

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

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

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

151 tures was detected in 81% (172/212) of their genic occurrences.

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

153 vidence for this has come from examining how genic parameters vary with expression level, which appea

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

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

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

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

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

159 lutionary rates of coding exons in different genic positions.

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

161 including expression measurements from inter-genic probes.

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

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

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

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

166 hotspot for retrotransposon accumulation and genic rearrangement.

167 sorghum and japonica rice uncovered numerous genic rearrangements and the presence of a transposon-ri

168 At least three genic rearrangements differentiate the maize Orp1 and Or

169 nature, timing, and lineages of most of the genic rearrangements that have differentiated this chrom

170 letions that removed one gene each, while no genic rearrangements were detected in the maize Orp2 reg

171 However, three genic rearrangements were observed.

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

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

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

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

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

177 ed on rice chromosomes with a preference for genic regions (70%).

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

179 Among genic regions affected, a significant enrichment for neu

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

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

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

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

184 posable elements were found as insertions in genic regions and outside the retrotransposon blocks.

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

186 1 (CABIN1), deposits histone variant H3.3 to genic regions and regulates gene expression in various c

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

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

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

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

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

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

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

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

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

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

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

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

199 of sequence, repeat sequences occupy 58% and genic regions occupy 7.5%.

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

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

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

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

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

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

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

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

208 e stage in the evolution of centromeres from genic regions, as in human neocentromeres, to fully matu

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

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

211 s, indicating preferential Ds insertion into genic regions, critical in large genome species.

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

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

214 human genome, in intergenic regions, and in genic regions, respectively.

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

216 n to the conservation of microsynteny in the genic regions, sequences in the intergenic regions, comp

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

218 In genic regions, the SNP density in intronic, exonic and a

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

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

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

222 conservation is high in both intergenic and genic regions, with 14 conserved genes detected in both

223 pecific differences related to the length of genic regions.

224 human genome with statistical enrichment for genic regions.

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

226 ricentromeric regions, but also occur within genic regions.

227 ted DNA blocks and thereby link unmethylated genic regions.

228 ylation and enrichment of CHH methylation in genic regions.

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

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

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

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

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

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

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

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

237 ced and chimeric transcript joining together genic segments of different chromosomal origin contained

238 to Wright's island model of subdivision with genic selection can be related to an idealized panmictic

239 ism and divergence (McDonald-Kreitman) data, genic selection estimates of the selection parameter are

240 on the frequency spectrum of polymorphisms, genic selection estimates of the selection parameter can

241 al. (1994) for inference in a Wright-Fisher genic selection model and corrects for nonindependence a

242 ly biased even for minor deviations from the genic selection model.

243 termines fixation probability in the case of genic selection, is always decreased by extinction and r

244 carrying similar alleles producing a form of genic selection.

245 -ratio test for distinguishing nongenic from genic selection; simulations indicate that this test is

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

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

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

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

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

251 e polymorphic for the presence or absence of genic sequences at various allelic chromosomal locations

252 t, otherwise known as High-Cot DNA, enriches genic sequences by more than fourfold in maize, from 5%

253 indicating an insertion site preference for genic sequences in the genome.

254 Methodologies that enrich for genic sequences might more rapidly generate useful resul

255 copy number, yielding a 7-fold enrichment in genic sequences relative to a random genomic library.

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

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

258 Differential methylation of genic and non-genic sequences was observed in all species tested, from

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

260 Based on enrichment of genic sequences, methylation-filtration offers one optio

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

262 by widespread translational activity in non-genic sequences.

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

280 Two genic states involving H3K36me3 are preferentially assoc

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

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

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

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

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

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

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 Our results indicate that genic transcription and DNA methylation are closely inte

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

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

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

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

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

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