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1 rate, and zero significant recurrent somatic single nucleotide variants.
2 all novel associations were driven by common single nucleotide variants.
3 ed domains, phosphorylation sites, and known single nucleotide variants.
4 o correctly call allele frequencies of known single nucleotide variants.
5 , including copy number variants, indels and single-nucleotide variants.
6 c gene fusions, copy number alterations, and single-nucleotide variants.
7 ment for determining genotypes and detecting single-nucleotide variants.
8 lonally independent, having distinct somatic single-nucleotide variants.
9 es of a 16p11.2 deletion affecting TBX6) and single-nucleotide variants (1 nonsense and 4 frame-shift
10 The mutational spectrum was composed of 9 single nucleotide variants, 2 indels, and 1 copy number
12 ur inherited CNVs, de novo CNVs, and de novo single-nucleotide variants all independently contributed
14 riants (approximately 15% of all transcribed single nucleotide variants) alter local RNA structure.
18 rated approach including characterization of single nucleotide variants and CNVs in a large number of
20 verage facilitates simultaneous detection of single nucleotide variants and exonic copy number varian
21 Identified pathogenic variants included both single nucleotide variants and exonic copy number varian
23 e variant allele fractions (VAFs) of somatic single nucleotide variants and indels across 5095 clinic
24 ng has been primarily used for investigating single nucleotide variants and indels, it has the potent
26 t individual exomes contain several thousand single nucleotide variants and insertions/deletions, it
27 als, the AGRP contains >12 M high-confidence single nucleotide variants and short indels, of which 1
29 hly accurate somatic mutation calls for both single nucleotide variants and small insertions and dele
30 ns discovery model to each family and select single nucleotide variants and small insertions and dele
31 function are very important for analysis of single nucleotide variants and their prioritization for
32 -exposed tumours showed increased numbers of single nucleotide variants and we observed mutations (H3
33 stigated patterns of neutral and deleterious single-nucleotide variants and alleles between individua
34 C scores for all 8.6 billion possible human single-nucleotide variants and enable scoring of short i
35 expression of rare genic CNVs and regulatory single-nucleotide variants and found that reactivation o
36 is dominated by loss-of-function/deleterious single-nucleotide variants and frameshift indels (that i
37 ncing data are generated primarily to detect single-nucleotide variants and indels, they can also be
38 iscovEHR study to identify ~4.2 million rare single-nucleotide variants and insertion/deletion events
39 ve clusters reveals prototypical patterns of single-nucleotide variants and is associated with distin
40 imized the signal difference for 11 pairs of single-nucleotide variants and performed tunable hybrid
41 se cases, HPV18 gene expression was low, and single-nucleotide variants and positions of genomic alig
42 ted phylogenetic tree on the basis of binary single-nucleotide variants and projected the more comple
43 ions by identifying previously characterized single-nucleotide variants and small insertions or delet
44 ew of IGV's variant review features for both single-nucleotide variants and structural variants, with
45 opy number amplifications, and that rates of single-nucleotide variants and SVs are not correlated.
46 rt-read data with long reads, we phased both single-nucleotide variants and SVs, generating haplotype
47 ML, we show that the total number of somatic single-nucleotide variants and the percentage of chemoth
48 l of an individual's genetic variants (e.g., single nucleotide variants) and transcript isoforms (tra
50 tructural variants, copy number alterations, single-nucleotide variants, and small insertions and del
55 in cases an excess of de novo nonsynonymous single-nucleotide variants as well as a higher prevalenc
56 olymorphisms, copy number variants, and rare single nucleotide variants, as well as rare de novo vari
59 ind that the proportion of CNV base pairs to single-nucleotide-variant base pairs is greater among no
61 ve been used to enable the discrimination of single-nucleotide variants, but typically these approach
62 ealthy subjects (controls) and then filtered single nucleotide variants by incorporating association
65 Here, we present Reveel, a novel method for single nucleotide variant calling and genotyping of larg
66 into account systematic biases in alignment, single nucleotide variant calling, and sequencing depth
68 ultiplexing of small insertion-deletions and single-nucleotide variants characteristic of CRISPR/Cas9
69 ad an average of 192 non-synonymous, somatic single-nucleotide variants, compared with only six in tu
71 cted by de novo CNVs and/or loss-of-function single-nucleotide variants converged on networks related
72 gnature linked to sun exposure, the expected single-nucleotide variant count associated with the pres
74 tify small gene-disruptive deletions, detect single-nucleotide variants, define breakpoints of unequa
75 % recall of cancer genes impacted by somatic single-nucleotide variants, depending on the method).
78 the twin pairs-such as copy number and rare, single-nucleotide variants-did not contribute to phenoty
80 hile exome sequencing is readily amenable to single-nucleotide variant discovery, the sparse and nonu
83 a new method, estimation by read depth with single-nucleotide variants (ERDS), and use various appro
84 orest, to prioritize candidate nonsynonymous single nucleotide variants for a specific type of diseas
85 of software pipelines available for calling single nucleotide variants from genomic DNA but, no comp
86 e apply pong to 225 705 unlinked genome-wide single-nucleotide variants from 2426 unrelated individua
87 lve faster than other regions with regard to single-nucleotide variants, gene/exon duplications and d
88 the frequency of the preferred sequence with single-nucleotide variants has the risk of generating mo
91 Illumina data, ALE recovers 215 of 222 (97%) single nucleotide variants in a training set from a GC-r
92 ased load of de novo copy number variants or single nucleotide variants in individuals with neurodeve
94 eq is able to identify splicing variants and single nucleotide variants in one experiment simultaneou
96 emonstrate that multiple independent de novo single nucleotide variants in the same gene among unrela
99 , suggests that the impact of any individual single-nucleotide variant in this disease is small, and
100 erefore, we classified actionable pathogenic single-nucleotide variants in 500 European- and 500 Afri
101 g, we have identified two novel heterozygous single-nucleotide variants in FAM136A and DTNA genes, bo
104 present the distribution of over 150 million single-nucleotide variants in the coding and noncoding g
105 sensitive genotyping assay to detect somatic single-nucleotide variants in the telomerase reverse tra
108 sus macaques revealed more than 43.7 million single-nucleotide variants, including thousands predicte
109 together, we identified more than 13 million single-nucleotide variants, indels, and structural varia
110 of germline and somatic variants, including single-nucleotide variants, indels, and structural varia
112 out prior knowledge of the fusion partners), single nucleotide variants, insertions, deletions and co
113 ncing and de novo genome mapping to identify single-nucleotide variants, insertions and deletions, an
114 ly identified somatic alterations, including single-nucleotide variants, insertions and deletions, co
116 ted that rare haplotypes may tag rare causal single-nucleotide variants, making SNP-based rare haplot
117 s, exon counts, fusion candidates, expressed single nucleotide variants, mapping statistics, visualiz
118 covered more than 65,000 variants, including single-nucleotide variants, multiple-nucleotide variants
121 sands of nonsynonymous (amino acid altering) single nucleotide variants (nSNVs) of protein-coding DNA
122 background rate of rare SCN5A nonsynonymous single nucleotide variants (nsSNVs) among healthy indivi
126 ing the disruptive impacts of non-synonymous single nucleotide variants (nsSNVs) on human health and
128 E uses variant allele frequencies of somatic single nucleotide variants obtained by deep sequencing t
133 Neither variant was observed in databases of single-nucleotide variants or in 634 chromosomes from et
140 ng highly significant P-values also for GLRB single-nucleotide variants rs17035816 (P=3.8 x 10(-4)) a
141 ned against 44 sequences of different target single-nucleotide variants showed between a 200- and 3,0
142 alidates a wide range of variants, including single nucleotide variants, small indels and large struc
144 key features include assessment of impact of single nucleotide variants (SNPs) on TF binding sites an
148 ework including multiple variant callers for single nucleotide variant (SNV) calling, which leverages
151 sequenced exomes and a set of gold-standard single nucleotide variant (SNV) genotype calls for each
152 tic variants including copy number (CNV) and single nucleotide variant (SNV) in a small set of genes
156 likelihood-based method for detecting ASE on single nucleotide variant (SNV), exon and gene levels fr
159 ric single-nucleotide polymorphism (SNP) and single-nucleotide variant (SNV) data, we see that genes
161 sequencing depth, and demonstrate excellent single-nucleotide variant (SNV) detection using targeted
162 t (CNV) or candidate de novo gene-disruptive single-nucleotide variant (SNV) had been detected by mic
164 nes RNA-seq datasets to find reads that span single-nucleotide variant (SNV) loci and nearby splice j
166 ffected by rs9383590, a functional inherited single-nucleotide variant (SNV) that accounts for severa
169 N2 reference, the CB4856 genome has 327,050 single nucleotide variants (SNVs) and 79,529 insertion-d
170 hermore, sensitive and accurate detection of single nucleotide variants (SNVs) and indels from cfDNA
172 s, we developed the ANNOVAR tool to annotate single nucleotide variants (SNVs) and insertions/deletio
173 focus of studies of sequence variation is on single nucleotide variants (SNVs) and large structural v
174 methods capable of predicting the impact of single nucleotide variants (SNVs) are assuming ever incr
175 crucial to determining the full spectrum of single nucleotide variants (SNVs) as well as structural
176 earlier studies identified and validated 56 single nucleotide variants (SNVs) associated with BP fro
179 wing these predictions identified the causal single nucleotide variants (SNVs) for several allele-spe
180 hniques, drawing upon 10 029 disease-causing single nucleotide variants (SNVs) from Human Gene Mutati
181 hort reads containing more than 3 million of single nucleotide variants (SNVs) from the whole human g
183 pplied our method to approximately 1 million single nucleotide variants (SNVs) identified in high-cov
185 ant knowledge pertaining to the role of rare single nucleotide variants (SNVs) in rare disorders and
186 in nearly 70,000 individuals indicated that single nucleotide variants (SNVs) in the gene encoding t
188 allele frequency, and an increased number of single nucleotide variants (SNVs) included in the test a
191 quenced, yielding millions of non-synonymous single nucleotide variants (SNVs) of possible relevance
194 pipeline, LocHap that searches for multiple single nucleotide variants (SNVs) that are scaffolded by
196 uman and cancer genomes, range in scale from single nucleotide variants (SNVs) through intermediate a
197 ficity of the 2 techniques to identify known single nucleotide variants (SNVs) using 6 control sample
198 ent multiSNV, a software package for calling single nucleotide variants (SNVs) using NGS data from mu
200 -CEH patterns of variation and uncovered 127 single nucleotide variants (SNVs) which are missing from
202 The library contains over 800,000 unique single nucleotide variants (SNVs) with an average of eig
203 on/deletion (indels) accumulating as fast as single nucleotide variants (SNVs), and elevated amounts
204 hexamers, or the full exon with all possible single nucleotide variants (SNVs), and measure strong ef
205 performed targeted sequencing of a panel of single nucleotide variants (SNVs), deletions, and IgH se
206 n read counting, identification of expressed single nucleotide variants (SNVs), detection of fusion t
207 ad genome-wide genotypes for ~300,000 common single nucleotide variants (SNVs), from 98 whole genome
208 ealed that rare sequence variants, including single nucleotide variants (SNVs), in glutamatergic syna
209 clinical information were genotyped using 25 single nucleotide variants (SNVs), including five SNVs w
212 merases, TOP1MT possesses two high frequency single nucleotide variants (SNVs), rs11544484 (V256I, Mi
214 red, the estimated rates of the evolution of single nucleotide variants (SNVs), summed tandem-repeat
215 tumour-specific antigen analyses has been on single nucleotide variants (SNVs), with the contribution
226 se exome sequencing to analyse nonsynonymous single-nucleotide variants (SNVs) across the whole genom
229 , we generated a comprehensive set of exonic single-nucleotide variants (SNVs) and copy number varian
231 Ls) in 13 tissues via joint analysis of SVs, single-nucleotide variants (SNVs) and short insertion/de
232 onsensus coding genome), the mean numbers of single-nucleotide variants (SNVs) and small insertions/d
233 cile evolutionary rates, paired samples </=2 single-nucleotide variants (SNVs) apart were considered
234 the attenuated replicates revealed 41 to 95 single-nucleotide variants (SNVs) at 2% or higher freque
235 ), 21.2 million, including 12 million novel, single-nucleotide variants (SNVs) at an estimated false
240 us alleles and the 72 validated heterozygous single-nucleotide variants (SNVs) from 512 Mb of autozyg
241 classified potentially actionable pathogenic single-nucleotide variants (SNVs) in all 4300 European-
242 me profiling studies have identified somatic single-nucleotide variants (SNVs) in cancer, the extent
243 ncreasingly uncovering large numbers of rare single-nucleotide variants (SNVs) in coding regions of t
244 We present a FISH-based method for detecting single-nucleotide variants (SNVs) in exons and introns o
245 10(-4)) and an excess of private deleterious single-nucleotide variants (SNVs) in female compared to
248 rates of rare inherited sequence-disrupting single-nucleotide variants (SNVs) in these individuals c
250 so show that the spectrum of induced de novo single-nucleotide variants (SNVs) is strikingly differen
251 all tumor time points also shared 10 common single-nucleotide variants (SNVs) on WGS comprising shar
252 e sequenced, and we used the threshold of 40 single-nucleotide variants (SNVs) or fewer to define sub
253 ed "Platinum" variant catalog of 4.7 million single-nucleotide variants (SNVs) plus 0.7 million small
254 gene-level analysis of rare (<1% frequency) single-nucleotide variants (SNVs) revealed that the gene
256 OXA-232 CRKP isolates (1-7 per patient) and single-nucleotide variants (SNVs) were analyzed, with re
259 uces a broad spectrum of mutations including single-nucleotide variants (SNVs), chromosomal deletions
260 ltifocal tumors are highly heterogeneous for single-nucleotide variants (SNVs), CNAs and genomic rear
261 respect to sequence coverage and calling of single-nucleotide variants (SNVs), insertions and deleti
267 ncing studies of SCZ have uncovered numerous single-nucleotide variants (SNVs); however, the majority
268 3 mutations and a relatively large number of single-nucleotide variants (SNVs; average of 11.2 per me
269 harbour schizophrenia de novo non-synonymous single-nucleotide variants (SNVs; P=5.4 x 10(-4)) and ta
270 stly increased pairwise diversity (mean 17.5 single nucleotide variants [SNVs] [95% confidence interv
271 me sequencing to perform genome-wide somatic single-nucleotide variant (sSNV) identification on DNA f
273 he combined effects of coding and non-coding single nucleotide variants, structural variants, and DNA
274 t methods for detecting germline and somatic single-nucleotide variants, structural variants, inserti
275 ota, Colombia, we identify 28 non-synonymous single nucleotide variants that are considered damaging
276 We have developed PVAAS, a tool to identify single nucleotide variants that associated with aberrant
277 1 variant) was 0.056 or 0.040 if only those single nucleotide variants that had previously been repo
278 on of smaller intragenic mutations including single-nucleotide variants that are not accessible even
279 es are patterns in the occurrence of somatic single-nucleotide variants that can reflect underlying m
281 great diversity of the mutation types--from single nucleotide variants to large genomic rearrangemen
283 argue that STR variants are more likely than single-nucleotide variants to have epistatic interaction
284 predictions of the impact of non-synonymous single nucleotide variants, to facilitate the correct cl
285 e, Shimmer, which accurately detects somatic single-nucleotide variants using statistical hypothesis
287 ning 4 NCMD probands, and 2 additional novel single nucleotide variants (V2 in 3 families and V3 in 1
288 k probes can be used to robustly distinguish single-nucleotide variants, we combined this technique w
290 n Outcomes and Measures: Butyrophilin-like 2 single-nucleotide variants were associated with UM risk;
295 matic variant-calling algorithms to identify single nucleotide variants with higher sensitivity and a
297 and deletions followed a similar pattern to single-nucleotide variants, with some notable exceptions
298 ormatic analyses identified disease-specific single nucleotide variants within or near transcription
299 ication of an increasingly large spectrum of single nucleotide variants within the human genome, many
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