ライフサイエンスコーパス: reference sequence

1 oduction of multiple overlapping gaps in the reference sequence.

2 uence identity with the nearest Stx1 subtype reference sequence.

3 in the human population but absent from the reference sequence.

4 HSat2,3, which lack a consistent repeat unit reference sequence.

5 approximately 15% divergent) related to the reference sequence.

6 enoREAD can determine if a clone matches its reference sequence.

7 uring probe design, because of the lack of a reference sequence.

8 NGS platforms, which have been aligned to a reference sequence.

9 e reads are significantly different from the reference sequence.

10 the alignment of the resulting contig with a reference sequence.

11 ensive catalog of transcripts aligned to the reference sequence.

12 clade species as well as the D. melanogaster reference sequence.

13 that aligns each sequence to a species-wide reference sequence.

14 short next-generation sequencing reads to a reference sequence.

15 ees enables accurate variant calls without a reference sequence.

16 gnment (mapping) of the generated reads to a reference sequence.

17 ented in Ensembl version 62 built on the Zv9 reference sequence.

18 oli strain MG1655 which do not appear in the reference sequence.

19 viduals but are absent from the human genome reference sequence.

20 ccurate and corrects over 2000 errors in the reference sequence.

21 ely parallel DNA sequencing data to the rDNA reference sequence.

22 tive nucleotides are altered compared to the reference sequence.

23 e to sequencing errors in the original H37Rv reference sequence.

24 mble the entire genome without the need of a reference sequence.

25 gaps on shotgun assembled contigs based on a reference sequence.

26 00 microsatellite markers developed from the reference sequence.

27 revised Cambridge Reference Sequence as the reference sequence.

28 ntensive step is the alignment of reads to a reference sequence.

29 ols for visualizing genomic features along a reference sequence.

30 h were validated by comparison to a finished reference sequence.

31 from six diploid genome types) with the rice reference sequence.

32 of the traditional cost and without use of a reference sequence.

33 f functional elements in the D. melanogaster reference sequence.

34 were identified and compared with the HPV16R reference sequence.

35 een any cDNA clone sequence and its expected reference sequence.

36 separately and then merging them to obtain a reference sequence.

37 mple sequence differs significantly from the reference sequence.

38 tions of the sample sequence compared to the reference sequence.

39 a tile path of clones for generation of the reference sequence.

40 plified by primer pairs designed to the 2p11 reference sequence.

41 in Hu128/21 mice match the human HTT exon 1 reference sequence.

42 s Reference Sequence (RSRS) as mitochondrial reference sequence.

43 g a variant with the splice potential of the reference sequence.

44 ieved by alignment against a sample-specific reference sequence.

45 complement and compare with the existing B73 reference sequence.

46 a in addition to variant calls relative to a reference sequence.

47 r only one full-length assembled genome: the reference sequence.

48 ypically rely on the alignment of reads to a reference sequence.

49 tool that is alignment-free and agnostic to reference sequence.

50 ly of microbial genomes without the need for reference sequences.

51 blic databases caused by incorrectly labeled reference sequences.

52 g reads and an indexed database of microbial reference sequences.

53 nsion are based on profile representation of reference sequences.

54 gnments as displayed in the human and rhesus reference sequences.

55 built from the unique k-mers of each of the reference sequences.

56 ared to precursor miRNA and the mouse genome reference sequences.

57 phic sites was 6.09 times that in the genome reference sequences.

58 d their distribution with that in the genome reference sequences.

59 3' ospC sequences were compared to reference sequences.

60 nd sequence accuracy was >=99.8% compared to reference sequences.

61 ions, which are not present in gold standard reference sequences.

62 samples, other North American sequences, and reference sequences.

63 used dynamic time warping to match reads to reference sequences.

64 ating the number of candidate motifs for the reference sequences.

65 duce a standard set of stable, non-redundant reference sequences.

66 by identifying its homologs in a database of reference sequences.

67 e difficulties in annotating and maintaining reference sequences.

68 at producing assemblies closely matching the reference sequences.Additionally, we show that noise in

69 is such that 88% of the reads align to human reference sequences, allowing us to compute the full lis

70 onsensus sequence with Ala, Arg, or Met in a reference sequence and determined how this affects its c

71 ng analyses have largely required a complete reference sequence and employed whole genome re-sequenci

72 usually high nonsynonymous divergence from a reference sequence and from each other.

73 his highlights the inadequacy of the current reference sequence and gene set.

74 The existence of a human reference sequence and genomic primate BAC libraries gre

75 ncy present in the reads, it does not need a reference sequence and is, therefore, applicable to data

76 sequence with our own sequence to generate a reference sequence and map that encompass all of the nov

77 Alignments are computed between a contiguous reference sequence and one or more secondary sequences,

78 es a comparative view between the NCBI human reference sequence and the HuRef assembly, and it enable

79 improve the accuracy and completeness of the reference sequence and the order and orientation of sequ

80 ts to be detected from an alignment with the reference sequence and to be properly named according to

81 allenges inherent to both assembling precise reference sequences and accurately assessing structural

82 ion reference graph, which combines multiple reference sequences and catalogs of variation.

83 t Variant (SwissVar) disease-related AASs to reference sequences and confidently mapped 99.96% of all

84 nces, was tested for its ability to generate reference sequences and distinguish functionally signifi

85 of sequence dissimilarity with Stx1 subtype reference sequences and its limited reactivity with anti

86 t identifies junction segment breakpoints on reference sequences and junction structure (blunt-ended

87 nts include extensive curation of additional reference sequences and mutations, development of a uniq

88 tools analyzing metagenomic datasets require reference sequences and read alignments.

89 e and memory usage increase as the number of reference sequences and the repeat content among these s

90 homology detection strategy is guided by the reference sequence, and involves the simultaneous search

91 t method and creates temporary local mapping reference sequences, and finally remaps reads to the loc

92 arent, do not require closely related genome reference sequences, and provide improved resolution (i)

93 ly automated data classes include literature references, sequences, and links to other databases.

94 of reads, and because many reads map to the reference sequence approximately but not exactly.

95 novo, but, instead, variations relative to a reference sequence are identified.

96 iation of these structures when the test and reference sequences are identical.

97 LRG reference sequences are selected in collaboration with t

98 Here, we use the human MSY reference sequence as a basis for sequence capture and r

99 ompression rate, using the revised Cambridge Reference Sequence as the reference sequence.

100 omputational study by using the human genome reference sequences as a model, and analyzed the ditags

101 genes, using geographically diverse subtype reference sequences as well as envelope sequences of kno

102 ed and compared to those of subtype-specific reference sequences as well as local controls.

103 Infections (BEI) resources deviated from the reference sequence at this particular four-amino acid re

104 Comparisons between test and reference sequences at the nucleotide level showed 97.5

105 aset has a corresponding, or closely related reference sequence available.

106 MS fingerprints of the standard MLST loci to reference sequences available in the public MLST databas

107 genome resequencing approach combined with a reference sequence-based chromosome walking strategy and

108 articularly useful as high-quality alternate reference sequences become available and genome sequenci

109 eration sequencing data to a set of relevant reference sequences becomes an important task in pathoge

110 ng the burden of assuming a specific, shared reference sequence between the encoder and decoder.

111 The aTRAM pipeline uses a reference sequence, BLAST, and an iterative approach to

112 meric closure of the human chromosome 1q DNA reference sequence by connecting the molecular 1q telome

113 T. monococcum, which lacks a complete genome reference sequence, by mapping the enriched data set ont

114 Transcriptomic diversity among these non-reference sequences can also be directly assessed.

115 emory usage, and the mapping to the original reference sequences can be recovered with high accuracy.

116 User-defined reference sequences can be used at the same time.

117 Mugsy does not require a reference sequence, can align mixtures of assembled draf

118 Compared with the 2013 reference sequences, changes at the F antigenic sites of

119 atically adding annotation metadata based on reference sequence checksums can greatly facilitate geno

120 roved resource of gastrointestinal bacterial reference sequences circumvents dependence on de novo as

121 rd higher mapping rates of the allele in the reference sequence, compared with the alternative allele

122 Mapping these to a reference sequence consumes large amounts of processing

123 The new sequence closed gaps in the reference sequence, corrected previously misassembled re

124 ce of a majority of mtDNA with the Cambridge Reference Sequence (CRS) are almost impossible to detect

125 s study, we made use of a temporally matched reference sequence data set to inform error correction a

126 ing the mouse and human genomes via the NCBI Reference Sequence database and the Sanger Institute miR

127 These methods replace the reference sequence database in proteomic database search

128 determined the sequences of the genes in the Reference Sequence database in these samples.

129 , extensive pruning, taxonomic profiling and reference sequence databases.

130 reads after screening against all endogenous reference sequence databases.

131 ach does not rely on alignment, assembly and reference sequence databases; making it fast and scalabl

132 Pi. marina EF-Tu amino acid sequence against reference sequences demonstrated the presence of a uniqu

133 The new 143.9-Mb reference sequence, designated Release 6, effectively ex

134 ds contain internationally recognized stable reference sequences designed specifically for reporting

135 ds contain internationally recognized stable reference sequences designed specifically for reporting

136 aps for subtelomere gap regions in the human reference sequence, detect many new large subtelomeric v

137 of storage space and is capable of selecting reference sequences efficiently and effectively.

138 A reference sequence enables the use of short read length.

139 These new genomes provide habitat-specific reference sequences enabling detailed, lineage-specific

140 BAC DNA aligns with the human chromosome 22 reference sequence except for a 75-kb region, suggesting

141 lso accommodates analysis with user-provided reference sequence files.

142 for shigellae in the form of a high-quality reference sequence for a publicly available isolate.

143 We demonstrate the importance of the barley reference sequence for breeding by inspecting the genomi

144 ch includes curated gene information and the reference sequence for C. glabrata, as well as orthology

145 The reference sequence for each human chromosome provides th

146 We also deposited the orthologous chimpanzee reference sequence for each predicted haplotype block co

147 Here, we constructed a reference sequence for lncRNAs in P. vera (Pistacia vera

148 We created a reference sequence for NCTC1, investigated the isolate f

149 e high-quality peach (Prunus persica) genome reference sequence for single nucleotide polymorphism (S

150 Finally, the Wuhan-Hu-1 reference sequence for the Spike protein, which is the b

151 the Atlantic salmon assembly can serve as a reference sequence for the study of other salmonids for

152 s, thereby providing the first high-fidelity reference sequence for thylacine population genetics.

153 s (>80 bp) provide more accurate matching to reference sequences for gene annotation and allow in-dep

154 We generate new reference sequences for heterozygous samples including a

155 have a comprehensive directory for genes and reference sequences for key genomes.

156 LAST to compare a query sequence to a set of reference sequences for known genotypes.

157 lizing customized scaffolds as supplementary reference sequences for read alignment was developed, an

158 0-800 base pair) reads, but the existence of reference sequences for the human and many other genomes

159 nomenclature and provide well-characterized reference sequences for the phylogenetic transmission cl

160 The recent release of high-quality reference sequences for these crops underpins a suite of

161 highlighting the lack of publicly available reference sequences for this economically important spec

162 paves the path toward in vivo, quantitative, reference sequence-free analysis of mtDNA transcription

163 are being mapped to a relatively unfinished reference sequence from e.g. a non-model organism in its

164 t the ancestral allele be used to define the reference sequence from which a core human reference gen

165 Second, an in-house database, with 16S reference sequences from bacteria producing FE, was cons

166 genetic linkage maps, the official gene set, Reference Sequences from NCBI (RefSeq), predicted gene m

167 nephrin-encoding Nphs1 to express the APOL1 reference sequence (G0) or the G2 risk variant in podocy

168 interfaces to a rich range of data including reference sequence, gene models, transcriptional data, g

169 These provide access to data including reference sequence, gene models, transcriptional data, p

170 differences from their corresponding mature reference sequences, generating multiple variants: the i

171 data with previous mutation analyses of the Reference Sequence genes in these same tumor types and h

172 Full length 16S rRNA reference sequences have been obtained for 353 canine ba

173 Exceptionally accurate genome reference sequences have proven to be of great value to

174 compared with the Human Genome Project (HGP) reference sequence (hg18).

175 This required first reinterpreting the reference sequence in this region of the genome, which i

176 computed alignments from a focus sequence to reference sequences in addition to the genome annotation

177 oci, underlining the importance of these non-reference sequences in functional genomics.

178 limit on the number or the total size of the reference sequences in its database.

179 not be assigned to any taxa associated with reference sequences, indicating the lack of knowledge on

180 ondensed approximately 1 billion bp of viral reference sequence into <200 million bp of unique, repre

181 ger (S/N)(t) than for the (1)H-(13)C SE-HSQC reference sequence is achieved, for the sigma(32) peptid

182 In species such as wheat, no finished genome reference sequence is available.

183 NP discovery pipeline but the quality of the reference sequence is clearly of paramount importance.

184 NCBI RefSeq database is used for this; if a reference sequence is not available, a Blast search find

185 identified regions where the current set of reference sequences is substantially incomplete.

186 Using a fragmented reference sequence led to a dramatic increase in the num

187 This motif, not reported in the reference sequence, localized to an Alu element and repl

188 n-synonymous substitution and that the GPR42 reference sequence matched only 4.4% of the alleles.

189 rther expand the utility of each centromeric reference sequence model, we evaluate sites within the a

190 Using pairwise alignment with reference sequences, MPs have been annotated and their s

191 hat, typically, only a small fraction of the reference sequence must be encoded along with the reads

192 put in numerous forms, including gene names, reference sequence numbers and physical location.

193 We have leveraged the reference sequence of a boxer to construct the first com

194 Generating a contiguous, ordered reference sequence of a complex genome such as hexaploid

195 The recently released reference sequence of barley represents a valuable genom

196 based contigs for assembling a high-quality, reference sequence of hexaploid wheat.

197 We produced a reference sequence of the 1-gigabase chromosome 3B of he

198 mpleteness of the genome project, the latest reference sequence of the common chimpanzee genome, PT 2

199 as made it difficult to construct a reliable reference sequence of the horse MHC region.

200 Here, we report an improved reference sequence of the single-copy and middle-repetit

201 The caprine reference sequence of this gene was completed and 29 pol

202 Recently, we produced a high quality reference sequence of wheat chromosome 3B (774 Mb), whic

203 us against all currently available annotated reference sequences of 22 C. albicans strains, thus offe

204 Included are six alternative MHC reference sequences of the human genome that we complete

205 gning ARG-like sequence to type, subtype and reference sequence) of sequences identified through simi

206 ncing revealed 3 797 207 deviations from the reference sequence, of which 9726 were nonsynonymous sin

207 e-copy genes, which were only present in the reference sequence or the Ler assembly, and 334 single-c

208 extant sequence representation and enhanced reference sequence products to serve the needs of the va

209 uration and automated processing from NCBI's Reference Sequence project (RefSeq), collaborating model

210 nd automated integration of data from NCBI's Reference Sequence project (RefSeq), from collaborating

211 nd automated integration of data from NCBI's Reference Sequence project (RefSeq), from collaborating

212 m repetitions of short segments (5-20 bp) of reference sequence proximal to the breakpoints in six in

213 variants in the sequences as compared with a reference sequence, rather than with the complete genomi

214 pping-based variant calling - quality of the reference sequence, read length, choice of mapper and va

215 or human and mouse genes extracted from NCBI Reference Sequence (RefSeq) and Drosophila genes from Fl

216 provide an accurately curated and annotated Reference Sequence (RefSeq) data set of antizyme transcr

217 Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database is a collection of

218 Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database is a collection of

219 NCBI's Reference Sequence (RefSeq) database is a curated non-re

220 NCBI's reference sequence (RefSeq) database is a curated non-re

221 Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database provides a non-redu

222 The Reference Sequence (RefSeq) database, built by The Natio

223 e model organisms and integrated into NCBI's Reference Sequence (RefSeq) dataset, resulting in 247 se

224 NCBI Reference Sequence (RefSeq) genomes for viruses, prokary

225 The NCBI Reference Sequence (RefSeq) project and the NIH Mammalia

226 The goal of the NCBI Reference Sequence (RefSeq) project is to provide the si

227 on by web-based downloads and ftp protocols: Reference Sequence (RefSeq) protein accession numbers, E

228 ed downloads and ftp protocols and includes: Reference Sequence (RefSeq) protein accession numbers, N

229 odes through sequence similarity to the NCBI Reference Sequences (RefSeq).

230 CR (e-PCR), Open Reading Frame (ORF) Finder, References Sequence (RefSeq), UniGene, HomoloGene, ProtE

231 Exonic GC of human mRNA reference sequences (RefSeqs), as well as A, C, G, and T

232 ic variants that are highly divergent from a reference sequence remains a major challenge in genome s

233 that as a result of structural variation, a reference sequence representing a genome of a single ind

234 e nucleotides reported correctly relative to reference sequences, results sufficient for accurately i

235 r a user-provided or automatically generated reference sequence, retrieve genome annotation features

236 Whole-genome comparison against the reference sequence revealed 564 transpositions and 47 in

237 uest for segmental duplications (SDs) in the reference sequence revealed many low-copy repeats, most

238 Evolutionary analysis of this genome reference sequence reveals interesting patterns of linea

239 D has expanded through extensive curation of reference sequences, revision of the ontological structu

240 e G of the functional polymorphism 118A > G (reference sequence rs1799971) showed a smaller decrease

241 nesian representation in publicly accessible reference sequences, rs373863828 or its proxies could no

242 implementation of the Reconstructed Sapiens Reference Sequence (RSRS) as mitochondrial reference seq

243 is more likely to align codons flush with a reference sequence's amino acids and can be modified to

244 ping model to fast map them against external reference sequence(s) and produce concise alignment resu

245 The user submits a FASTA reference sequence(s), a Gene Transfer Format (.GTF) fil

246 077del], and 20% [H558R;Q1077del], where the reference sequence SCN5A is GenBank AC137587.

247 In this paper, we build the reference sequence selection problem and propose a metho

248 samples lacking a complete or well-annotated reference sequence set.

249 RefSeq provides reference sequence standards for genomes, transcripts an

250 rieval of gene-based information and provide reference sequence standards.

251 align short sequencing reads against a large reference sequence such as the human genome, allowing mi

252 e or no [PSI+] transmission barrier from the reference sequence, suggesting that they could assume a

253 transfectants with similar efficiency as did reference sequence Sup35NM amyloid.

254 cture in vitro when seeded with filaments of reference sequence Sup35NM.

255 h mutant, seeding with amyloid formed by the reference sequence Sup35NM.

256 t format for storing read alignments against reference sequences, supporting short and long reads (up

257 This program compares sequence sets to a reference sequence, tallies G --> A hypermutations, and

258 n Genome Project provides researchers with a reference sequence that covers about 99% of the gene-con

259 omputer program was generated that maps on a reference sequence the positions of all introns in homol

260 Using the consensus sequence as the reference sequence, the data can be stored using only 13

261 eference chromosome composed of concatenated reference sequences, the "concatesome," as the BW input.

262 roved the accuracy of the human X-chromosome reference sequence through single-haplotype sequencing o

263 unigene clusters and establish a gene-space reference sequence, thus providing a framework for assem

264 Sequence data were aligned with the known reference sequence to assay biophysical parameters of po

265 est sites were compared to a "gold standard" reference sequence to determine the percent agreement.

266 encing run are first "mapped" (aligned) to a reference sequence to infer the read from which the geno

267 etion of the Human Genome Project provided a reference sequence to which researchers could compare se

268 ms usually use k out of t input sequences as reference sequences to generate candidate motifs, and th

269 We show how Spidey was used to align reference sequences to known genomic sequences and then

270 , Electronic PCR, OrfFinder, Spidey, Splign, Reference Sequence, UniGene, HomoloGene, ProtEST, dbMHC,

271 arrying barcode tags and to align reads to a reference sequence using a mutation-tolerant process.

272 prints from a query genome are compared to a reference sequence using the Genomic Variation Analysis

273 fferent sequence identifiers to their common reference sequence using the UniGene database, allowing

274 differences between a genome sequence and a reference sequence, using absolute or relative coordinat

275 new features including direct editing of the reference sequence, variant and error detection, display

276 Compared to a reference sequence, variants were detected at 107 nucleo

277 Compared to 2013 reference sequences, variations at F protein antigenic s

278 with a hierarchical structure (type-subtype-reference sequence) was then constructed to facilitate c

279 al analyses of the publicly available canine reference sequence, we estimate that segmental duplicati

280 nce pairs (ESPs) aligned to the human genome reference sequence, we have developed a simple method to

281 alignment of several homologous viruses to a reference sequence, we may thus achieve an annotation bo

282 Using our reference sequence, we re-analyse association transcript

283 s in 40 clones and three deviations from the reference sequence were detected.

284 tions in the sample DNA relative to the chip reference sequence were developed.

285 Quark makes use of a reference sequence when encoding reads, but produces a r

286 The human genome provides a reference sequence, which is a template for resequencing

287 most closely related to either delta or zeta reference sequences, while all SVR sequences grouped wit

288 This reference sequence will accelerate our understanding of

289 s to validated type specimens, cultures, and reference sequences will provide the foundation on which

290 We systematically compared the human genome reference sequence with a second genome (represented by

291 alignment to the diploid progenitor D-genome reference sequence with densely spaced BES anchor points

292 he human or mouse genomes can be used as the reference sequence with direct links from the search res

293 eotide substitutions difficult to align to a reference sequence with existing tools, preventing the p

294 An amplicon of known reference sequence with length usually between 100 and 1

295 tity plots, called a MultiPip, comparing the reference sequence with subsequent sequences, and a nucl

296 The RefSeq project augments these reference sequences with current knowledge including pub

297 d on a multiple alignment that contains both reference sequences with known structures and the sequen

298 novel platform that incorporates a synthetic reference sequence within a polymerase chain reaction (P

299 y take the first k sequences in the input as reference sequences without elaborate selection processe

300 These vaccine reference sequences yield unique genome signatures for m