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1 served in assays such as ChIP Sequencing and bisulfite sequencing.
2 DNMT3L, shown by knockdown assays and sodium bisulfite sequencing.
3 y the pattern of CpG methylation revealed by bisulfite sequencing.
4 ylation to nearby CpG sites, shown by sodium bisulfite sequencing.
5 g half of each male's semen for whole genome bisulfite sequencing.
6 m HumanMethylation450 array and whole genome bisulfite sequencing.
7 ATAC sequencing and single-cell whole-genome bisulfite sequencing.
8 ation landscape, as assessed by whole-genome bisulfite sequencing.
9 ulfite sequencing and reduced representation bisulfite sequencing.
10 Array findings were validated by bisulfite sequencing.
11 s of genomic DNA followed by next generation bisulfite sequencing.
12 uman aorta sample using whole-genome shotgun bisulfite sequencing.
13 idated using enhanced reduced representation bisulfite sequencing.
14 er hypermethylation of ULK2 was confirmed by bisulfite sequencing.
15 ared with control heifers using whole-genome bisulfite sequencing.
16 d can be quantified at base resolution using bisulfite sequencing.
17 CpGs that previously cannot be predicted by bisulfite sequencing.
18 tion occurred for monocytes for both RNA and bisulfite sequencing.
19 in parents and offspring using whole-genome bisulfite sequencing.
20 or Infinium microarrays and various types of bisulfite sequencing.
24 ecipitation, luciferase promoter assays, and bisulfite sequencing analysis of sites in proximity.
28 pecific CpG region in 9 colorectal tumors by bisulfite sequencing and apply a tumor development model
29 enetic mark, was investigated using targeted bisulfite sequencing and characterized at functional lev
30 elopment in NeuN+ neurons using whole-genome bisulfite sequencing and compare them to non-neurons (pr
31 genome-wide, we used reduced representation bisulfite sequencing and found an extensive reorganizati
33 ompares favorably with nucleotide-resolution bisulfite sequencing and has better predictive power wit
35 lastic leukemias (B-ALLs) using whole-genome bisulfite sequencing and high-definition microarrays, al
36 MM), a plasma cell neoplasm, by whole-genome bisulfite sequencing and high-density arrays, we observe
39 ation measurements confirmed by whole genome bisulfite sequencing and offers a better balance between
41 olution through methods such as whole-genome bisulfite sequencing and reduced representation bisulfit
42 bisulfite sequencing, reduced representation bisulfite sequencing and RNA sequencing were performed o
43 re investigated using reduced representation bisulfite sequencing and RNA sequencing, respectively.
46 examine promoter accessibility, we performed bisulfite sequencing and show that none of the MHC class
48 counts from bisulfite sequencing, oxidative bisulfite sequencing and Tet-Assisted Bisulfite sequenci
49 region (-186 to -20), which was confirmed by bisulfite-sequencing and methylation-specific PCR (MSP)
50 oprecipitation with sequencing, whole-genome bisulfite sequencing, and chromosome conformation captur
52 efficient (R = 0.884) between our method and bisulfite sequencing, and for 92.0% of CpG sites, methyl
53 epigenome, replication-timing, whole-genome bisulfite sequencing, and gene expression profiles from
54 ipitation-sequencing, reduced representative bisulfite sequencing, and RNA-sequencing were performed
55 elity, we implemented a genome-scale hairpin bisulfite sequencing approach to generate methylation da
57 everal cost-effective reduced representation bisulfite sequencing approaches (RRBS) have been recentl
58 nt a method to map DNA methylation data from bisulfite sequencing approaches to CpG sites measured wi
59 lation modifications from any combination of bisulfite sequencing approaches, including reduced, oxid
61 omplexes of DNMT3A and DNMT3B, and performed bisulfite sequencing-based single-turnover methylation a
62 nt of high-throughput sequencing technology, bisulfite-sequencing-based DNA methylation profiling met
63 bisulfite sequencing (RRBS) and whole genome bisulfite sequencing (bis-seq) opens the door to study D
64 ulfite sequencing and reduced representation bisulfite sequencing brings the availability of DNA meth
66 tially active gene regulatory sequences; and bisulfite sequencing (BS-seq) quantifies DNA methylation
69 methylation signals with similar accuracy as bisulfite sequencing (BS-Seq; single nucleotide resoluti
70 g methyl-sensitive restriction digestion and bisulfite sequencing cannot distinguish between 5-mC and
71 lated methods such as nasBS-seq (nascent DNA bisulfite sequencing), ChIP-BS-seq (ChIP followed by bis
72 HSD11B2 and FKBP5 are seen in a minority of bisulfite sequencing clones, these epigenetic changes, a
73 replicate these findings using whole genome bisulfite sequencing, comparing epidermis from an additi
76 genes was analyzed using 450K Beadchips and bisulfite sequencing; correlations between maternal and
77 we present customised Reduced Representation Bisulfite Sequencing (cuRRBS), a novel and easy-to-use c
79 ient and convenient tool for high-throughput bisulfite sequencing data analysis that can be broadly u
81 GE properly accounts for the count nature of bisulfite sequencing data and incorporates allele-specif
82 terns with those from Reduced Representation Bisulfite Sequencing data and through comparison with pr
83 we reanalyzed K562 RNA-seq and whole-genome bisulfite sequencing data for allele-specific expression
86 I 0.91-0.98) from the reduced representation bisulfite sequencing data from 35 whole blood samples.
90 ute deviations support the validity of using bisulfite sequencing data in combination with Illumina b
93 d validation with 101 reduced-representation bisulfite sequencing data sets and 637 methylation array
94 pe blocks, after analysis of 61 whole-genome bisulfite sequencing data sets and validation with 101 r
95 ion sequencing (MeDIP-seq), and whole-genome bisulfite sequencing data to generate and orthogonally v
98 h results correlating well with whole genome bisulfite sequencing data, and demonstrate that human DN
99 tus and DNA polymorphisms, from whole-genome bisulfite sequencing data, and nucleosome occupancy from
100 dreds of transcription factors, whole-genome bisulfite sequencing data, ChIA-PET data, and functional
101 on analysis of DNA methylation patterns from bisulfite sequencing data, including the detection of re
102 Using high resolution hairpin oxidative bisulfite sequencing data, we precisely determine the am
109 a mixture of binomial model to characterize bisulfite-sequencing data, and based on the model, we pr
112 o increase coverage of existing whole genome bisulfite sequencing datasets by imputing CpG methylatio
113 re, we have analyzed 34 diverse whole-genome bisulfite sequencing datasets in human and identified 31
114 nalysis of both human and mouse whole genome bisulfite sequencing datasets reveals read-level signatu
115 ally methylated regions from high-throughput bisulfite sequencing datasets, DMRfinder is the first th
116 present a set of preprocessing pipelines for bisulfite sequencing DNA methylation data that include a
124 e information from whole genome and targeted bisulfite sequencing from 910 samples to perform genotyp
129 sulfite sequencing or reduced representation bisulfite sequencing) has become popular for studying hu
133 hlights the utility of low pass whole-genome bisulfite sequencing in identifying methylome variation
134 We examined DNA methylation by whole-genome bisulfite sequencing in neuronal and non-neuronal popula
135 tastable epialleles by performing genomewide bisulfite sequencing in peripheral blood lymphocyte (PBL
137 s, publicly available reduced representation bisulfite sequencing in the human embryo and germ cells,
138 cers and promoters, genome-wide, by targeted bisulfite sequencing in two independent sample cohorts.
144 by the Illumina 450K array and whole genome bisulfite sequencing is still too expensive for many sam
146 dy, we describe low-input methylase-assisted bisulfite sequencing (liMAB-seq ) and single-cell MAB-se
147 ifications, including but not limited to RNA bisulfite sequencing, m(1)A-Seq, Par-CLIP, RIP-Seq, etc.
148 have recently developed a methylase-assisted bisulfite sequencing (MAB-seq) method that allows base-r
149 Here, we describe M.SssI methylase-assisted bisulfite sequencing (MAB-seq), a method that directly m
150 Study (MACHS) were profiled by whole-genome bisulfite sequencing (median coverage: [Formula: see tex
151 ular biology and optical approaches, such as bisulfite sequencing, microarrays, quantitative real-tim
152 ity within tumors, we performed genome-scale bisulfite sequencing of 104 primary chronic lymphocytic
154 ethylation states assessed from whole-genome bisulfite sequencing of 83 RILs uncovered widespread evi
155 ystem, we performed RNA-seq and whole-genome bisulfite sequencing of adult females and males from two
157 ying whole-exome sequencing and whole-genome bisulfite sequencing of cell free DNA (cfDNA) and of mat
158 ethylation profile of the same CpG-island by bisulfite sequencing of DNA obtained from blood of 34 FT
160 methylation is measured by deep whole-genome bisulfite sequencing of genomic DNA from tissues represe
162 lower KLF4 and nitric oxide synthase 3, and bisulfite sequencing of KLF4 promoter identified a hyper
165 to leukemogenesis, we performed whole-genome bisulfite sequencing of primary leukemic and non-leukemi
166 By employing a protocol for whole-genome bisulfite sequencing of single cells, we show that the l
169 nalysis, and enhanced reduced representation bisulfite sequencing on a cohort of paired diagnosis and
170 Other studies have performed whole-genome bisulfite sequencing on a few individuals, but these lac
172 To illustrate MCC-Seq, we use whole-genome bisulfite sequencing on adipose tissue (AT) samples and
173 in social insects, we performed whole-genome bisulfite sequencing on brains of the clonal raider ant
174 nd laser-capture microdissection followed by bisulfite sequencing on DNA isolated from prostate tissu
176 analyze DNA methylation data generated from bisulfite sequencing or Illumina methylation arrays.
177 by sequencing (BS-Seq, such as whole genome bisulfite sequencing or reduced representation bisulfite
178 sequencing cost in the case of whole-genome bisulfite sequencing, or from reduced resolution (inabil
179 mic DNA, we combined redBS-Seq and oxidative bisulfite sequencing (oxBS-Seq) to generate the first co
180 To this end, we have developed oxidative bisulfite sequencing (oxBS-seq), which can quantitativel
181 t a method to jointly model read counts from bisulfite sequencing, oxidative bisulfite sequencing and
184 ition, we validated the MeDIP-Seq results by bisulfite sequencing PCR (BSP) in some of the differenti
186 s, RRBS, WGBS sequencing, and locus-specific bisulfite sequencing performed on the same human embryon
187 g of short reads by and high cost of current bisulfite sequencing platforms make them impractical for
192 dative bisulfite sequencing and Tet-Assisted Bisulfite sequencing, providing simultaneous estimates o
196 biased omics profiling, such as whole genome bisulfite sequencing, reduced representation bisulfite s
197 deoxyuridine labeled nascent DNA followed by bisulfite sequencing (Repli-BS) measures post-replicatio
206 te sequencing (WGBS), reduced representation bisulfite sequencing (RRBS) and hybrid selection (captur
208 g was performed using reduced representation bisulfite sequencing (RRBS) and RNA-sequencing (RNA-Seq)
209 e wide application of reduced representation bisulfite sequencing (RRBS) and whole genome bisulfite s
210 e apply our method to reduced representation bisulfite sequencing (RRBS) data from multiple regions o
212 raditional MspI-based Reduced Representation Bisulfite Sequencing (RRBS) protocol to all restriction
213 could be queried in a reduced representation bisulfite sequencing (RRBS) study of adult [Formula: see
214 We initially used reduced representation bisulfite sequencing (RRBS) to generate a methylome-wide
215 g mutated HTT, we use reduced representation bisulfite sequencing (RRBS) to map sites of DNA methylat
217 and 450 K arrays) and reduced representation bisulfite sequencing (RRBS), only cover a small proporti
218 lation differences by reduced representation bisulfite sequencing (RRBS), we determined that, over ti
221 Here, we employed an enhanced version of bisulfite sequencing (RRBS/oxRRBS) followed by next gene
223 me maps from single cells, using single-cell bisulfite sequencing (scBS-seq), allowing the quantitati
224 ture with single-cell reduced representation bisulfite sequencing (scRRBS), to measure the CpG methyl
229 encing studies, including RNA sequencing and bisulfite sequencing studies, are becoming increasingly
231 e sequencing), ChIP-BS-seq (ChIP followed by bisulfite sequencing), TAB-seq, oxBS-seq, and fCAB-seq.
232 onic stem cells and show that, compared with bisulfite sequencing, TAPS results in higher mapping rat
234 we developed RBS-Seq, a modification of RNA bisulfite sequencing that enables the sensitive and simu
235 sign, particularly in reduced representation bisulfite sequencing, there is a need to develop more fl
236 ltiplexed single-cell reduced-representation bisulfite sequencing to B cells from healthy donors and
237 s hypothesis, we used reduced representation bisulfite sequencing to examine the cross-sectional geno
240 microdissection with reduced representation bisulfite sequencing to identify cancer-associated DNA m
241 we employed Enhanced Reduced Representation Bisulfite Sequencing to interrogate the epigenome of the
245 on, DeepSignal achieves 90% correlation with bisulfite sequencing using just 20x coverage of reads, w
246 g (n = 12 per group), unbiased capture array bisulfite sequencing was combined with subsequent matrix
247 lation and hydroxymethylation with oxidative bisulfite sequencing was conducted and correlated with c
262 equencing and high-coverage sequence-capture bisulfite sequencing were applied to mutant lines to det
265 RNA sequencing and reduced representation bisulfite sequencing were used to create transcriptomic
266 tes sequencing (DNase-seq), and whole-genome bisulfite sequencing (WGBS or BS-seq) data revealed inte
268 hylation patterns comparable to whole-genome bisulfite sequencing (WGBS) along genes and regulatory e
275 ole-genome sequencing (WGS) and whole-genome bisulfite sequencing (WGBS) data on populations of moder
276 for detecting such events from whole-genome bisulfite sequencing (WGBS) data perform statistically i
277 oach to methylation analysis of whole genome bisulfite sequencing (WGBS) data permitted a high level
278 igenetic energy landscapes from whole-genome bisulfite sequencing (WGBS) data that enable us to quant
279 tematic comparisons of GPS with whole-genome bisulfite sequencing (WGBS) found that methylation diffe
285 m DNA methylation, we performed whole genome bisulfite sequencing (WGBS) on an equimolar pool of sper
289 increased disease risk we used whole genome bisulfite sequencing (WGBS) to analyze changes in DNA me
291 Pipelines are provided for whole genome bisulfite sequencing (WGBS), reduced representation bisu
295 e increases in methylation were validated by bisulfite sequencing, where they occurred in a minority
297 dresses statistical challenges introduced by bisulfite-sequencing while controlling for complex sourc
298 e used whole-genome sequencing, whole-genome bisulfite sequencing, whole transcriptome (RNA-seq) and
299 ned using single cell reduced representation bisulfite sequencing, with a 66-fold increase in the fra
300 rporation of the 5D4 DNA polymerase into the bisulfite sequencing workflow thus promises significant