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1 DMR detection is then carried out via a Wald test proced
2 DMRs located within intergenic regions were heavily enri
3 -0.0013; 95% CI: -0.0023, -0.0003, p = 0.01) DMR methylation, but primarily in females, (beta = -0.00
6 Rs of 648 genes were hypermethylated and 274 DMRs of 336 genes were hypomethylated in trained group c
16 ethylome and returning potentially novel age DMRs, in addition to replicating several loci implicated
17 protein-dependent intracellular calcium and DMR responses, but this receptor isoform remains functio
18 eriments in which accuracy of mC calling and DMR detection is evaluated on simulated data with variou
19 ustment for regional p-value combination and DMR annotation, we provide a method that may be applied
20 texts, read qualities, sequencing depths and DMR lengths, as well as on real data from a wide range o
21 both intracellular calcium mobilization and DMR responses in human embryonic kidney 293 cells, when
24 stricted ASM, and among them are 188 hap-ASM DMRs and 933 mQTLs located near GWAS signals for immune
25 ng sites were over-represented among hap-ASM DMRs and mQTLs, and analysis of the human data, suppleme
32 e define patterns of epigenetic variation at DMRs, identifying rare individuals with global gain or l
33 zed method for determining empirically based DMRs (eDMR) from high-throughput sequence data that is a
35 ARK2, PID1, SLC2A2, and SOCS2, that had both DMRs and significant expression changes in T2D islets.
36 ic DMRs (t-DMRs) and cancer-specific DMRs (c-DMRs), and 5hmC is negatively correlated with methylatio
38 hypomethylated R-DMRs with hypermethylated C-DMRs and bivalent chromatin marks, and colocalization of
39 hypermethylated R-DMRs with hypomethylated C-DMRs and the absence of bivalent marks, suggesting two m
40 hted optimization algorithm eDMR for calling DMRs extends an established DMR R pipeline (methylKit) a
44 ntegrated network analysis, BRCA1 and CRISP2 DMRs were identified as most central disease-associated
47 shows that ABBA has greater power to detect DMRs than existing methods, providing an accurate identi
51 Least squares DNA methylation means at each DMR and birth weight were compared between infants of sm
52 eDMR for calling DMRs extends an established DMR R pipeline (methylKit) and provides a needed resourc
53 al aspects that we can improve over existing DMR detection (i) methylation statuses of nearby CpG sit
55 bles an accurate and scalable way of finding DMRs in high-throughput methylation sequencing experimen
63 that AFF3 can specifically bind both gametic DMRs (gDMRs) and enhancers within imprinted loci in an a
67 e were no significant differences at the H19 DMR, infants born to smokers had higher methylation at t
68 ially methylated region upstream of H19 (H19-DMR), serving as the imprinting control region, determin
69 ion of the maternal but not the paternal H19-DMR reduces adult haematopoietic stem cell quiescence, a
76 on factor binding sites located within human DMRs, suggesting that alteration of regulatory motifs un
77 riod was associated with higher PLAGL1/HYMAI DMR methylation regardless of sex (beta = 0.0075; 95% CI
80 esent a novel program, metilene, to identify DMRs within whole-genome and targeted data with unrivale
81 ergenic differentially methylated region (IG-DMR) is required for expression of maternally expressed
86 has been suggested that the unmethylated IG-DMR acts as a positive regulator activating expression o
88 o smokers had higher methylation at the IGF2 DMR than those born to never smokers or those who quit d
90 19 different chromosomes, defining imprinted DMRs as sites where the maternal and paternal methylatio
91 me-wide approach to identify novel imprinted DMRs in the human placenta and investigated the dynamics
92 Forty-three known and 101 novel imprinted DMRs were identified in the human placenta by comparing
93 aberrant methylation levels of the imprinted DMRs or with changes in overall gene expression for the
94 investigated the dynamics of these imprinted DMRs during development in somatic and extraembryonic ti
97 DMRs, Cdkn1c upstream region, and Inpp5f_v2 DMR and paternal allele-specific CTCF binding at the Peg
98 tionally, the ability to detect short length DMRs is necessary as biologically relevant signal may oc
101 3 is maternally expressed, the paternal Meg3 DMR was methylated, and activating histone modifications
102 e goal of this study was to analyze the Meg3 DMR during imprinting establishment and maintenance for
106 group comparisons, MethylAction detects more DMRs with strong differential methylation measurements c
107 es of neonatal keratinocytes share many more DMRs with adult breast luminal and myoepithelial cells t
108 maternally inherited deletion of the Nesp55 DMR (DeltaNesp55(m)) replicate these Gnas epigenetic abn
114 ct locations of DMRs and better agreement of DMRs with gene expression and DNase I hypersensitivity.
115 there is little evidence for association of DMRs with genes that show quantitative differences in ge
116 nal statistical test allows the detection of DMRs in large methylation experiments with multiple grou
117 method classifies both the directionality of DMRs and their genome-wide distribution, and we have obs
119 1 knockout mice revealed hypermethylation of DMRs of imprinted genes in sperm, which can be traced ba
121 s insights into the origin and influences of DMRs in a crop species with a complex genome organizatio
122 he sequence specificity of DMRs, location of DMRs relative to genes and transposons, and patterns of
123 imates of mC levels, more exact locations of DMRs and better agreement of DMRs with gene expression a
125 cows, and mice contains differing numbers of DMRs, but the PEG3-CpG island is the only DMR that is co
127 racterization of the sequence specificity of DMRs, location of DMRs relative to genes and transposons
130 ed GPR120L receptors, no specific calcium or DMR responses were observed in cells transfected with th
132 To demonstrate further the utility of our DMR set, we use it to classify unknown samples and ident
136 on and further exploratory analysis of six P-DMRs highlight the critical role of gestational timing.
138 restingly, differential methylation of the P-DMRs extends along pathways related to growth and metabo
140 sociated with a significant decrease in PEG3 DMR methylation (beta = -0.0014; 95% CI: -0.0023, -0.000
143 blocker profiling showed that the pinacidil DMR is due to the activation of SUR2/Kir6.2 KATP channel
144 , FAM92A1, MIR155HG, and VWA8) with promoter DMRs and expression associated with overall survival (OS
146 (DMRs) in the reprogrammed cells (denoted R-DMRs) were significantly enriched in tissue-specific (T-
147 rks, and colocalization of hypermethylated R-DMRs with hypomethylated C-DMRs and the absence of bival
148 observed colocalization of hypomethylated R-DMRs with hypermethylated C-DMRs and bivalent chromatin
149 cells are derived from fibroblasts, their R-DMRs can distinguish between normal brain, liver and spl
152 is by comparing the distant metastasis rate (DMR) on initial (18)F-FDG PET/CT in a group of breast ca
153 Whole cell dynamic mass redistribution (DMR) assays enabled by label-free optical biosensor were
154 free whole cell dynamic mass redistribution (DMR) assays under persistent and duration-controlled sti
155 obilization and dynamic mass redistribution (DMR) assays, together with quantitative imaging measurem
157 tically similar dynamic mass redistribution (DMR) signals in A431, A549, HT29 and HepG2C3A, but not i
159 the NESP55 differentially methylated region (DMR) (delNESP55/ASdel3-4(m), delNAS(m)) from the GNAS lo
161 y the Meg3 differentially methylated region (DMR), but the mechanism by which this DMR acts is unknow
162 e upstream differentially methylated region (DMR), which also included the site motifs for the enhanc
165 Multiple differentially methylated regions (DMR) could be identified in atherosclerosis patients, re
167 nreported differentially methylated regions (DMR): one in the promoter region of mouse Zim3 and anoth
169 for differentially methylated gene regions (DMRs) using a methylated DNA immunoprecipitation on chip
170 germline differentially methylated regions (DMRs) and 23 previously unknown DMRs, with some occurrin
171 5 hap-ASM differentially methylated regions (DMRs) and 3,082 strong methylation quantitative trait lo
172 ificantly differentially methylated regions (DMRs) and 963 differentially methylated genes (DMGs) wer
173 that differentially DNA-methylated regions (DMRs) and enhancers are two major classes of cis-element
174 tional 11 differentially methylated regions (DMRs) and found that, in general, H3K79me3 was associate
175 D-related differentially methylated regions (DMRs) and replicate the top signals in 42 unrelated T2D
176 ues, 2481 differentially methylated regions (DMRs) are cancer-specific, including numerous novel DMRs
177 ependent, differentially methylated regions (DMRs) are identical to the DMRs recently identified in u
179 nreported differentially methylated regions (DMRs) associated primarily with genomic imprinting or DN
180 fied 1027 differentially methylated regions (DMRs) associated with parental THC exposure in F1 adults
181 dentified differentially methylated regions (DMRs) associated with prognostic mutations in older (>/=
185 to detect differentially methylated regions (DMRs) from whole-genome bisulfite sequencing (WGBS).
186 Of 811 differentially methylated regions (DMRs) identified in ACF, 537 (66%) were hypermethylated
188 identify differentially methylated regions (DMRs) in diabetic islets, and to investigate the functio
190 ndreds of differentially methylated regions (DMRs) in humans compared to non-human primates and estim
191 K46 at 11 differentially methylated regions (DMRs) in reciprocal mouse crosses using multiplex chroma
193 in known Differentially Methylated Regions (DMRs) including reprogramming specific DMRs and cancer s
195 ection of differentially methylated regions (DMRs) is a necessary prerequisite for characterizing dif
197 ified 167 differentially methylated regions (DMRs) of DNA at baseline that distinguished responders f
198 on in the differentially methylated regions (DMRs) of Peg3 and Gnas imprinted domains, which are know
199 important differentially methylated regions (DMRs) of the genome that are altered during development
200 addition, differentially methylated regions (DMRs) often contain single nucleotide polymorphisms asso
201 -specific differentially methylated regions (DMRs) often overlap tissue-specific distal cis-regulator
202 ssociated differentially methylated regions (DMRs) passed Bonferroni correction (P-value < 1.15 x 10(
203 on at two differentially methylated regions (DMRs) regulating Insulin-like Growth Factor 2 (IGF2) and
204 cation of differentially methylated regions (DMRs) revealed that DMRs mostly cosegregated with the ge
205 everaging differentially methylated regions (DMRs) specific to cell type, identified from DNAm measur
206 ulated by differentially methylated regions (DMRs) that are established in the germline and maintaine
207 alter the differentially methylated regions (DMRs) that control the monoallelic expression of imprint
208 gnificant differentially methylated regions (DMRs) using a bump hunting approach and a permutation-ba
209 ion at 12 differentially methylated regions (DMRs) was analyzed in cord blood samples from 58 offspri
210 secondary differentially methylated regions (DMRs) were identified by an overlapping pattern of H3K4
212 to reveal differentially methylated regions (DMRs) with context-specific functional correlations.
213 ontaining differentially methylated regions (DMRs) with negative correlation between their expression
214 ection of differentially methylated regions (DMRs) with small effect size is a necessary feature of t
215 level of differentially methylated regions (DMRs), and bootstrapping determines false discovery rate
216 d 2485 CG differentially methylated regions (DMRs), both of which show patterns of divergence compare
217 n several differentially methylated regions (DMRs), including Xist, Nespas and Peg3, which all become
218 and their differentially methylated regions (DMRs), whereas broad local enrichment of H3K27me3 (BLOC)
219 Ps) and 5 differentially methylated regions (DMRs), which we study in detail using whole genome bisul
220 ue set of differentially methylated regions (DMRs)--including many CpG island promoters--that are mai
227 ied 2,130 differentially methylated regions (DMRs; <5% false discovery rate), of which 738 are associ
230 eam that retrospectively evaluated high-risk DMR patients enrolled in the EVEREST (Endovascular Valve
239 eQTLs where a methylation change at a single DMR is associated with transcriptional changes in a subs
240 fic chromatin marks at the Peg13 and Slc38a4 DMRs, Cdkn1c upstream region, and Inpp5f_v2 DMR and pate
242 rogramming specific DMRs and cancer specific DMRs, while the rest (10,315) involving 4,106 genes coul
243 e-specific DMRs (t-DMRs) and cancer-specific DMRs (c-DMRs), and 5hmC is negatively correlated with me
245 ions (DMRs) including reprogramming specific DMRs and cancer specific DMRs, while the rest (10,315) i
246 fy thousands of developmental stage-specific DMRs (dsDMRs) across zebrafish developmental stages.
247 gnificantly enriched in both tissue-specific DMRs (t-DMRs) and cancer-specific DMRs (c-DMRs), and 5hm
248 ised methods for use when cell-type specific DMRs are not available, allowing scientists to estimate
252 tly enriched in both tissue-specific DMRs (t-DMRs) and cancer-specific DMRs (c-DMRs), and 5hmC is neg
253 el DNA sequences motifs overrepresented in T-DMRs were identified as being associated with positive a
254 pecific differentially methylated regions (T-DMRs) were preferentially located in exons and introns.
255 significantly enriched in tissue-specific (T-DMRs; 2.6-fold, P < 10(-4)) and cancer-specific DMRs (C-
259 re, gene ontology analysis demonstrated that DMRs associated with promoters were enriched for genes i
260 ted genetic variation provided evidence that DMRs can occur without local sequence variation, but the
261 ally methylated regions (DMRs) revealed that DMRs mostly cosegregated with the genotype from which th
263 G PET/CT examinations were reviewed, and the DMR was recorded for each clinical stage subgroup (stage
264 , where Meg3 is biallelically expressed, the DMR showed variable DNA methylation, with biallelic meth
266 cytosine guanine dinucleotide status of the DMR correlated with expression of the miRNAs following a
268 Pathway deconvolution revealed that the DMR of epinephrine is originated mostly from the remodel
271 how that AG-haESCs carrying deletions in the DMRs (differentially DNA methylated regions) controlling
272 -specific DNA methylation differences in the DMRs of PEG3, IGF2/H19, and PLAGL1/HYMAI in adulthood.
274 ele-specific DNA methylation patterns of the DMRs of Peg3, Zim2 and Zim3 were not affected in the mic
276 sociation scan found that nearly half of the DMRs with common variation are significantly associated
283 esis did not cause any major change in these DMRs although the same YY1 KD caused hypermethylation in
286 a substantial number of genes; four of these DMRs are near transcription factors (castor zinc finger
289 The methylation level for each of these DMRs was also assayed in 31 additional maize or teosinte
296 ecific differentially methylated regions (TS-DMRs) observed at intragenic CpG islands and low CG dens
300 ences in gene expression are associated with DMRs, and there is little evidence for association of DM
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