ライフサイエンスコーパス: short sequence

1 and male) judged stimuli presented within a short sequence.

2 es occurred, always preceded by a short-long-short sequence.

3 is that they adopt defined conformations in short sequences.

4 racy on known prokaryotic genomes split into short sequences.

5 tory pauses occurred resulting in short-long-short sequences.

6 at the smaller scales of individual genes or short sequences.

7 hallenge to sequence comparison not posed by short sequences.

8 approximation substantially for all but very short sequences.

9 e eliminated because of their low quality or short sequences.

10 highly variable, particularly when based on short sequences.

11 m this behavior can be considerable even for short sequences.

12 ntiate single nucleobases and amino acids in short sequences.

13 criptome often produce more than 200 million short sequences.

14 bidentate interaction) to promote binding by short sequences.

15 We then repeated this analysis for short sequences (100-, 150-, 200- and 250-base reads) re

16 leavage sequences exhibit no homology, and a short sequence (7 amino acids) from APP that when placed

17 ene fragment contains several repetitions of short sequences, a careful optimization of the PCR condi

18 inding, but that RNA binding also requires a short sequence adjacent to the N terminus of the central

19 A but notably does require the presence of a short sequence adjacent to the target sequence within th

20 A central region (520-830) and a short sequence adjacent to the zinc cluster DNA-binding

21 Furthermore, antibody recognition of a short sequence (amino acids 92 to 125) of the C2 region

22 ct, we compared the distribution patterns of short sequences among the six categories of SNPs.

23 creened a peptide library and identified two short sequence amylin peptides (12-14 aa) that are prote

24 Here, we tested the effect of deleting the short sequence and/or the poly(U) tract from pGBB; infec

25 y identifies more than 90% of base-pairs for short sequences and 80% overall.

26 ern blotting of small RNAs is biased against short sequences and develop a protocol that removes this

27 t one order of magnitude when searching with short sequences, and improve the alignment of proteins c

28 ions, targeted insertions or replacements of short sequences, and precise base changes in plants(1-7)

29 d for the first time includes information on short sequence- and structure-based RNA motifs present w

30 We found that a short sequence ( approximately 55 bases) in the 5' leade

31 These epitope hotspots comprised relatively short sequences ( approximately 20-80 aa in length) that

32 These short sequences are about 21 nt in length, and when synt

33 Typically, short sequences are captured from the genome of the inva

34 These short sequences are conserved, as other FBF-binding prot

35 sidues 232, 234, 262 and 265, and connects a short sequence before the first helix with the tight tur

36 Most BIR domains bind short sequences beginning with alanine, and in this mann

37 probability of mutational configurations in short sequence blocks under a simple bottleneck model.

38 c models from configurations of mutations in short sequence blocks.

39 y counting mutations in frequency classes in short sequence blocks.

40 We found that very short sequences bound in the genome by Crx activated tra

41 DNA accessible to transcription factors, the short sequences bound varied.

42 We prepared site-specific CTDs within a short sequence bracketed by strong nucleosome-positionin

43 attB is a short sequence composed of one binding site for XerC and

44 ring a strong limb enhancer, we identified a short sequence conserved in therian mammals and capable

45 levels of sequence similarity in relatively short sequences constituting the functionally important

46 ng seed plants, each characterized by a very short sequence containing a central putative zinc finger

47 g of a Per-ARNT-Sim (PAS) domain capped by a short sequence containing an amphipathic helix (Cap doma

48 tion assays showed that AP-2alpha occupies a short sequence containing center 1.

49 cell survival and blocks apoptosis, while a short sequence containing LKKTETQ, the central actin-bin

50 This short sequence contains binding sites for homeodomain tr

51 address the difficulty of linking relatively short sequence contigs to form much larger chromosome as

52 In this study, we identified a short sequence covering residues Lys-20 to Ala-52 in G0S

53 However, deviations from the model for short sequence deletions suggest that RAM contains seque

54 The trafficking effects of short sequences differing in PDZ and SAP97 binding were

55 Multiple short sequences dispersed along the macroH2A1 histone do

56 Across short sequence-distances, an exponential decay dominates

57 e currently often limited to single steps or short sequences due to the complexity involved with oper

58 ults in a high rate of head-to-tail (tandem) short sequence duplications, which are independent of ex

59 A short sequence element in the mouse bcl-x promoter that

60 cific IGF-1 and IGF-2 antibodies, yet only a short sequence element, i.e. the IGF loop, provides enou

61 The argument for the importance of short sequence elements hinged on the relatively-high ac

62 e the direct recognition of D and KEN boxes, short sequence elements in substrates of the anaphase-pr

63 Very short sequence elements or microhomologies were also ide

64 the internal transcribed spacers are several short sequence elements which are identical between the

65 ysis suggested, dependent on the presence of short sequence elements with high amyloid-forming potent

66 differential binding to 8.4 million distinct short sequence elements.

67 ) duplication with long repeats separated by short sequence elements: AB*(CD)*(CD)*E (* = a few bases

68 Moreover, a short sequence encompassing the three footprints was fou

69 available starting material guanosine via a short sequence ending in a Mukaiyama hydration reaction

70 bility to quantify homopolymeric runs, and a short sequencing example of sections of the wild-type an

71 infectious GBV-B clone (pGBB) has a proximal short sequence followed by a poly(U) tract and a 3' term

72 describe an algorithm, Local Distribution of Short Sequences for Prokaryotes (LDSS-P), to identify co

73 nd that for each genome, the majority of its short sequence fragments have highly similar barcodes wh

74 ell, known as RNA-Seq, generates millions of short sequence fragments in a single run.

75 Mapping the vast quantities of short sequence fragments produced by next-generation seq

76 Crucially, our method performs well for short sequence fragments, facilitating evaluation of mic

77 , sulfoxide, and sulfone, were prepared by a short sequence from the ethylene glycol ketal of hydroco

78 t infect bacteria through the insertion of a short sequence from the invader's genome, known as the '

79 First, the host can specifically incorporate short sequences from invading genetic elements (virus or

80 raurelia must eliminate approximately 60,000 short sequences from its genome to generate uninterrupte

81 Upon infection, short sequences from the phage genome, known as spacers,

82 interest," leaving only the desired gene and short sequences from the recombinase recognition site.

83 (SSRs) that consist of multiple copies of a short sequence (from one to several nucleotides), repeat

84 was localized within gamma370-381, with two short sequences, gamma370ATWKTR375 and gamma376WYSMKK381

85 stereochemistry then became viable through a short sequence highlighted by an aldol condensation with

86 ce of TdT are more uniform due to the use of short sequence homologies between the V, D, and J genes.

87 evealed excessive deletions, frequent use of short sequence homologies, and unusually long palindromi

88 ve been reported that characteristically use short-sequence homologies at the DNA ends to facilitate

89 Lastly, we identified short-sequence homologies of surface-exposed residues wi

90 kinase I (CaMKI) through interactions with a short sequence in its regulatory domain.

91 core ADAMTS13-binding site is contained in a short sequence in the A2 domain, but other domains affec

92 a 22-amino acid synthetic peptide based on a short sequence in the extracellular E2 domain of the amy

93 downregulation fails due to a mutation in a short sequence in the lin-28 3' UTR that is complementar

94 Here we present data that define a short sequence in the N-terminal region of PTEN required

95 A short sequence in the RT domain was localized that was d

96 on between a hydrophobic patch in Clb5 and a short sequence in the substrate (the RXL or Cy motif).

97 nts has led to the generation of millions of short sequences in a single run.

98 We found three conserved short sequences in RRM3 that were essential for the inte

99 Some homology was found with short sequences in the expressed sequence tag (EST) data

100 The talin F3 domain also binds to short sequences in the layilin cytoplasmic domain, and h

101 kinase, C-Src, undergoes splicing to insert short sequences in the SH3 domain to yield N1- and N2-Sr

102 We found that CpG-containing short sequences, in general, had more representation in

103 The key step of this short sequence is a [4 + 2]/retro-[4 + 2] cycloaddition

104 ntains a third phiXXphiphi motif (LX3) and a short sequence, KQL, which has similarity to a region in

105 entional phylogenetic approaches, including: short sequence length, lack of primary sequence conserva

106 Dark proteins also had short sequence length, low evolutionary reuse, and few k

107 t lineage in the fetal pancreas depends on a short sequence located approximately 2 kb upstream of th

108 A short sequence, located between the A14L and A15L open r

109 ess, their intrinsic characteristics such as short sequence, low concentration and sequence homology

110 arget mimic (STTM), which is composed of two short sequences mimicking small RNA target sites, separa

111 They highlight the significant effect that short sequence mismatches can have upon microarray hybri

112 In contrast, a short sequence (mjTFIIB A81-K89) between these two clust

113 inger array that, in humans, can recognize a short sequence motif associated with hot spots, with bin

114 Finally, we identify a short sequence motif in HtsRC that is necessary for Kelc

115 discovered that all Paramyxovirinae share a short sequence motif in their first 40 amino acids, whic

116 We have identified a common short sequence motif present in miRNAs that are selectiv

117 rs429358 that defines APOE4 is located in a short sequence motif repeated several times within exon

118 pattern of Nuclear Export Signal (NES) is a short sequence motif that is commonly identified in prot

119 Intriguingly, the p9 sequence contains a short sequence motif that is similar to a surface-expose

120 In the last case, short sequence motifs (termed late domains) within human

121 strong correlation between the inclusion of short sequence motifs and the activity level of an oligo

122 known as WD40 and beta-transducin repeats), short sequence motifs appearing in clusters of 4-16 foun

123 Short sequence motifs are an important class of models i

124 for multiple scales, the spatial patterns of short sequence motifs associated with indel mutagenesis.

125 We identified short sequence motifs in rice promoters that are shared

126 EST database searches with short sequence motifs shared by known phosphate transpor

127 e been proposed to specify FMRP binding, the short sequence motifs TGGA and GAC were corroborated, an

128 Transcription factors (TFs) recognize short sequence motifs that are present in millions of co

129 and predicted secondary structures revealed short sequence motifs that mediate binding to the She co

130 Bcl-2 homology 3 (BH3) domains are short sequence motifs that mediate nearly all protein-pr

131 ectronic search based on the conservation of short sequence motifs within the variable region of immu

132 proteins, which contain multiple repeats of short sequence motifs, form a large but seldom-studied g

133 and the frequencies of occurrence of several short sequence motifs.

134 codons when the ribosome encounters specific short sequence motifs.

135 We identified 2 short-sequence motifs in human NTCP that were required f

136 , however, the significance and scope of the short-sequence motifs in these cellular events is not we

137 Concurrent with this progress, fast (or short sequence) MRI represents an emerging technology th

138 The approach involves cloning a short sequence of a targeted plant gene into a viral del

139 A short sequence of amino acids at the C terminus of ZFP80

140 We localized the DHBV 5E element to a short sequence of approximately 30 nucleotides that is 1

141 s to acidic phospholipids in vitro through a short sequence of basic and hydrophobic amino acids, BH

142 A short sequence of catalytic C(sp(3))-H amination-cycliza

143 Interestingly, a short sequence of FtsN (Leu(75)-Gln(93), known as (E)Fts

144 If the template strand contains a short sequence of G residues, it is copied in the presen

145 We report that a short sequence of ICP0 is similar to a sequence in the a

146 the regions responsible for the binding to a short sequence of Kidins220/ARMS, termed KLC-interacting

147 t(Mx8) terminator sequence, in addition to a short sequence of Mx8 DNA downstream of trnD.

148 at a raft-localizing marker, consisting of a short sequence of positively charged amino acid residues

149 iarylacrylonitriles to be prepared in a very short sequence of reactions.

150 A well studied short sequence of the p53 transactivation domain, p53(15

151 S cysteine desulfurase and the presence of a short sequence of ThiI in these bacteria pointed to mech

152 Previous work demonstrated that a short sequence of U1A protein is essential for autoregul

153 little is known about the behavior of these short sequences of amino acids within cells, particularl

154 an localize the sites of DNA binding to very short sequences of amino acids.

155 on initiation region of target mRNAs through short sequences of complementarity, blocking their ribos

156 es has lead to their use in testing specific short sequences of DNA as a "barcode" for the identifica

157 ants heard, read, or viewed demonstration of short sequences of instructions, and recalled either by

158 Riboswitches are short sequences of messenger RNA that can change their s

159 hown that not only single residues, but also short sequences of non-proline residues can adopt the P(

160 30-40-base-pair repeats separated by equally short sequences of plasmid and bacteriophage origin know

161 ation of such a first-in first-out buffer of short sequences of spike patterns includes noise and dif

162 e strong evidence that they are representing short sequences of states.

163 Many peptides contained short sequences of two to three acidic residues.

164 four genomic breakpoints that are joined by short sequences of unknown origin.

165 thin the rhythm domain for the processing of short sequences of up to seven tones.

166 strategy was applied to the synthesis, in a short sequence, of a constrained mimetic of the privileg

167 We quantitatively evaluate their impact when short-sequence oligonucleotide arrays are applied (Affym

168 ed kojic acid-tripeptides, mimosine-FFY, and short-sequence oligopeptides at inhibiting mushroom tyro

169 However, mutants lacking either the short sequence or the poly(U) tract were viable.

170 A short sequence overlapping the primer binding site acts

171 In one proposed mechanism, short sequences (packaging sites) within the genomic RNA

172 Many PTMs are associated with short sequence patterns called 'motifs' that help locali

173 Short sequence patterns frequently define regions of bio

174 A search for short sequence patterns revealed a number of motifs whic

175 to the cell interior is mediated by specific short-sequence peptide signals within the cytoplasmic do

176 ucleolar localization were observed with the short sequence PFVYLI, but not with SIPPEVKFNK, and the

177 ese results suggest a specific function of a short sequence present in the N-terminal domain in contr

178 ing effort is best focused on gathering more short sequences rather than fewer longer ones, provided

179 methods use massively parallel detection of short sequencing reactions, making them ideal for the an

180 In addition, de novo short sequence read assembly strategy identified several

181 bserved, mostly related to the limitation of short sequence read assembly.

182 ease risk cutoffs are close to or beyond the short sequence read length of 100 to 150 bases.

183 ements due to inherent sequencing errors and short sequence read lengths.

184 cing has heretofore been used for generating short sequence reads (1-100 nucleotides) because certain

185 optimal construction of these genomes using short sequence reads are key to this process.

186 jor technical hurdle lies in the need to map short sequence reads back to their correct locations in

187 Here, we show that short sequence reads can be aligned to a genome assembly

188 Second, relatively short sequence reads contain little to no haplotype info

189 entify viral recombination directly from the short sequence reads created by next-generation sequenci

190 repetitive DNA, which makes the assembly of short sequence reads difficult.

191 In these assays, short sequence reads enriched for loci of interest are m

192 Typically, short sequence reads from ChIP-Seq are mapped to a refer

193 Metatranscriptomic analysis of the short sequence reads identified a 10.5-kb sequence from

194 d and used to measure the number of matching short sequence reads in feces from the 92 animals in the

195 lleles with single base pair resolution from short sequence reads is challenging due to several sourc

196 ge to accurately identify mRNA isoforms from short sequence reads owing to the substantial informatio

197 Traditional techniques used for assembly of short sequence reads produced by deep sequencing, such a

198 antitative PCR, and proportion of subsequent short sequence reads that aligned to the O. nubilalis re

199 h-throughput sequencing technologies produce short sequence reads that can contain phase information

200 we describe using the overlap of paired-end, short sequence reads to identify error-prone reads in ma

201 erited variation of microsatellite loci from short sequence reads without paired-end information.

202 we present SISSRs (Site Identification from Short Sequence Reads), a novel algorithm for precise ide

203 verage and B-allele frequencies, from mapped short sequence reads, and we assess both the method's po

204 us providing a framework for assembly of the short sequence reads.

205 as their relative abundances, directly from short sequence reads.

206 tions is still challenging with low-coverage short sequence reads.

207 ntion to what is lost by sole application of short sequence reads.

208 h PML without the bias caused by assembly of short sequence reads.

209 robial community, based on classification of short sequence reads.

210 ta typically consists of tens of millions of short sequenced reads from different transcripts.

211 heeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequenc

212 tep in analyzing WGS and WES data is mapping short sequencing reads back to the reference genome.

213 terpretation is complicated by the fact that short sequencing reads can match multiple organisms and

214 he AB SOLiD technology generates millions of short sequencing reads in color-space; that is, the raw

215 A novel and robust method to detect CNV from short sequencing reads is proposed in this study.

216 a. the transcript assembly problem) from the short sequencing reads produced by RNA-seq protocol play

217 Many programs for aligning short sequencing reads to a reference genome have been d

218 h RNA-Seq requires the mapping of relatively short sequencing reads to a reference genome or transcri

219 es) that iteratively aligns deep coverage of short sequencing reads to correct errors in reference ge

220 mplexities involved in properly apportioning short sequencing reads to highly repetitive regions of t

221 olymorphisms into viral haplotypes from very short sequencing reads.

222 fragments retains long-range information in short sequencing reads.

223 s a novel reference-free approach to analyze short sequencing reads.

224 e identification of genomic alterations from short sequencing reads.

225 n confound SNP-typing microarrays or mapping short-sequence reads and therefore must be accounted for

226 highly heterozygous polyploids from Illumina short-sequencing reads.

227 In many workflows, each of the short sequences ("reads") resulting from a sequencing ru

228 erforming 'binning' or 'windowing' on mapped short sequences ('reads') is critical to extract genomic

229 human homologue FEN1 complement the elevated short-sequence recombination (SSR) phenotype of a rad27-

230 ength, indicating that they are required for short-sequence recombination (SSR).

231 Two homologous short sequences, referred to as the A and B boxes, near

232 enetic methods, with the rest involving very short sequence regions (15 to 30 nt).

233 enerating accurate structure models for even short sequences remains difficult.

234 We describe a multilocus short sequence repeat (MLSSR) sequencing approach for th

235 subsp. paratuberculosis, regardless of their short sequence repeat (SSR) genotype, induced similar gl

236 of a recently identified M. paratuberculosis short sequence repeat (SSR) region enabled the different

237 We identified 87 short sequence repeat loci within the genome of the M. t

238 variation in two of the most discriminatory short sequence repeat loci, i.e., mononucleotide G and t

239 The short sequence repeat locus is located at position - 55

240 We conclude that this short sequence repeat motif is located upstream of the d

241 ve samples using two polymorphic (G and GGT) short sequence repeat regions identified varying levels

242 n A and, more specifically, the Xr domain, a short sequence-repeat region encoded by DNA that consist

243 Using a multilocus short-sequence-repeat technique, we found 15 different s

244 improve the alignment of proteins containing short sequences repeated in tandem.

245 We analyzed the multilocus short sequence repeats (SSRs) of 211 and 56 isolates of

246 was aimed to determine whether the number of short sequence repeats (SSRs) present in the polymorphic

247 ations identified a subset of 11 polymorphic short sequence repeats (SSRs), with an average of 3.2 al

248 Analysis of short sequence repeats of Mycobacterium avium subsp. par

249 al phenotypic variation via HFMs, deletions, short sequence repeats, and single-nucleotide polymorphi

250 half of the recent gains are associated with short sequence repeats, suggesting an origin via repair

251 st evidence of transcriptional regulation by short-sequence repeats in a Gram-positive organism.

252 The PTGS-competent short sequences resulted in similar patterns of methylat

253 In the accompanying article, three short sequence segments (nucleic acid binding sequences

254 Beacon 10 also shared short sequence segments with other published BoNT aptame

255 emphasis has been given to the functions of short-sequence signal motifs responsible for the itinera

256 For short sequences, SneakySnake accelerates Edlib (state-of

257 zoite promoters led to the identification of short sequence spans that are involved in control of bra

258 he binding of transcription factors (TFs) to short sequence-specific DNA motifs, usually located at t

259 unctions at most TATA-less genes, recognizes short sequence-specific promoter elements in metazoans,

260 A short sequence stretch within this exon has the unique f

261 data structure to find exact matches between short sequence strings (k-mers) and an MLST allele libra

262 I-sites motifs are short sequence/structure motifs that populate the protei

263 vity than previous methods, performs well on short sequences such as those produced by the 454 Life S

264 ulatory module: (1) Positive elements (PEs), short sequences sufficient for strong muscle expression

265 a fragmenting enzyme (for example, NlaIII), short sequence tags can be obtained and uniquely mapped

266 ture sequencing (MPSS) generates millions of short sequence tags corresponding to transcripts from a

267 Digital karyotyping uses short sequence tags derived from specific genomic loci t

268 fficient sequential method for concatenating short sequence tags for any serial analysis of gene expr

269 In this remarkable pathway, short sequence tags from invading genetic elements are a

270 ch involves the isolation and enumeration of short sequence tags from specific genomic loci.

271 ene expression level, generating millions of short sequence tags per library.

272 h a view to scaling ecological analyses, the short sequence, taxonomic resolution and accurate automa

273 eave double-stranded (ds) DNA targets near a short sequence termed a protospacer adjacent motif (PAM)

274 in the deleted peptide, we have identified a short sequence, termed the chromatin-binding motif (CBM)

275 yrimidine ribonucleotides can be formed in a short sequence that bypasses free ribose and the nucleob

276 Surprisingly, the Nanog homeodomain, a short sequence that contains the only recognizable conse

277 among the RGS-RhoGEFs, PDZ-RhoGEF contains a short sequence that localizes the protein to the actin c

278 Here, we used mutagenesis to identify a short sequence that supports long-term expression.

279 nal analysis, we first created a database of short sequences that are highly conserved among 12 Droso

280 ily of proteins, and it includes a number of short sequences that are related to SUMO interaction mot

281 develop diagnostic DNA signatures, which are short sequences that are sufficient to uniquely identify

282 elements to the E6/E7 region and identified short sequences that could serve as binding sites for tr

283 of TcdB (amino acid residues 1753-1851) for short sequences that function as cell-penetrating peptid

284 ge-display technologies, in the selection of short sequences that have affinity to (noble) metals, se

285 Because the probes recognize short sequences, they encounter multiple cognate sites o

286 entation, SeqMap can map tens of millions of short sequences to a genome of several billions of nucle

287 SeqMap is a tool for mapping large amount of short sequences to the genome.

288 onformation, resulting in sequestration of a short sequence tract otherwise required for downstream g

289 Variation of key ligand residues within the short sequence was undertaken, and the interaction of th

290 gment) of the genome while repair-initiating short sequences were distributed more uniformly in gamma

291 The results revealed that the short sequences, which contained at least one CpG dinucl

292 ls have a limited ability to recognize these short sequences, which range in length up to 25 bp.

293 y, sequencing runs produce a large number of short sequences whose exact origin is unknown.

294 re murine oocytes revealed the presence of a short sequence with partial homology to a cyclin-like hu

295 Among such signals are short sequences with high AU contents that constitute re

296 Because we found numerous short sequences with IRES activity, there might be many

297 vidual sites under selection when applied to short sequences with low divergence.

298 Previous work has shown that Gol, a short sequence within the major capsid protein gp23, act

299 We identified short sequences within each variant that determine the e

300 Analyses of mutations indicated that 2 short sequences within the element, about 15 base pair a