ライフサイエンスコーパス: homology search

1 d a strand exchange protein that facilitates homology search.

2 tic of ungapped structural alignment for RNA homology search.

3 ad51-mediated synaptic complex formation and homology search.

4 hologues have been difficult to recognize by homology search.

5 ep of meiotic recombination that follows the homology search.

6 ckpoint and is likely an important aspect of homology search.

7 uclear organization and that this exit stops homology search.

8 ce for a key role of RAD51 structures in the homology search.

9 he nucleoprotein complex involved in the DNA homology search.

10 e phenomena may play in the RecA-facilitated homology search.

11 recombination (IR) events that compete with homology search.

12 homologous region on DNA, which is called a homology search.

13 that the full database is sub-optimal for a homology search.

14 hether it is also involved in the chromosome homology search.

15 the state-of-the-art methodology of profile homology search.

16 n genome by performing a BLASTN computerized homology search.

17 d quantified its sensitivity and accuracy on homology search.

18 lecular description of the mechanisms of the homology search.

19 titative theoretical approach to analyze the homology search.

20 o efficiently align DNA sequences during the homology search.

21 emplate through a process referred to as the homology search.

22 ons to help further our understanding of the homology search.

23 ducing the search space and accelerating the homology search.

24 ratively as DNA sequences are aligned during homology search.

25 trand DNA (ssDNA) are generated and used for homology search.

26 and orthology mapping, which rely heavily on homology search.

27 can exploit this fact to greatly accelerate homology search.

28 ed on hidden Markov models to the problem of homology search.

29 A-ssDNA filament have important roles in the homology search.

30 uccessful identification of proteins through homology searches.

31 e of information for refining sequence-based homology searches.

32 ucleases XPF and XPG have been identified by homology searches.

33 that include chemical structure and sequence homology searches.

34 ng, protein structure, and/or scoring remote homology searches.

35 g the information obtained to human genes by homology searches.

36 , and thus could not have been identified by homology searches.

37 ous matches to multiple patterns in sequence homology searches.

38 led to identify any other EST from the dbEST homology searches.

39 ng to highly accurate and sensitive sequence homology searches.

40 , sample sequencing of cosmids and PACs, and homology searches.

41 l digestion, mass spectrometry analysis, and homology searching.

42 y-based expression analysis, and genome-wide homology searching.

43 ressed GEFs, identified by database sequence homology searching.

44 ng that all loci are similarly accessible to homology searching.

45 duced at different granularity for efficient homology searching.

46 ll database in terms of the effectiveness of homology searching.

47 munities, from the retrieval of sequences to homology searching.

48 and has been proposed to play a role in the homology search, a process by which homologous chromosom

49 Using computer homology searching, a S. cerevisiae gene was identified

50 -resistant mutations) and carry out sequence homology searches against other deposited strains.

51 icted C(alpha) backbones by doing structural homology searches against the Dali domain library, and f

52 Homology searches against the GenBank database facilitat

53 Homology searches against the mouse EST database have al

54 statistically based tools are combined with homology searches against the Online Mendelian Inheritan

55 Homology searches against various databases indicated th

56 Pseudofam uses a large-scale parallelized homology search algorithm (implemented as an extension o

57 e difficult to find using single query-based homology search algorithms against large sequence datase

58 creased sensitivity of protein-protein based homology search algorithms, a genome can be deeply mined

59 kage for the comparison of different protein homology search algorithms.

60 reover, the family-specific design and rapid homology search allow SAT-Assembler to be naturally comp

61 probabilistic model can be directly used for homology search, allowing iterative refinement of struct

62 A sequence homology search also supported this finding, which showe

63 DNA and amino acid homology search analysis revealed that JTAP-1 shares a h

64 DNA and amino acid homology search analysis revealed this gene to be identi

65 d small peptides to use as training sets for homology search and ab initio prediction.

66 Most methods for biological sequence homology search and alignment work with primary sequence

67 Rad52 in a wrapped configuration, suggesting homology search and annealing occur via two hRad52-ssDNA

68 previous investigations, how Rad52 mediates homology search and annealing remains unclear.

69 h form filaments on DNA capable of directing homology search and catalyzing formation of homologous j

70 naptic filament with ATP and ssDNA active in homology search and DNA strand exchange, but the precise

71 l for recombination in eukaryotes performing homology search and DNA strand exchange.

72 displacement loop (D loop) is the product of homology search and DNA strand invasion, constituting a

73 es the signature reactions of recombination, homology search and DNA strand invasion.

74 otein in homologous recombination performing homology search and DNA strand invasion.

75 d breaks (DSBs) that efficiently undergoes a homology search and engages in pairing with the compleme

76 Such analyses include homology search and genome-wide detection of new structu

77 This reaction is referred to as the homology search and is akin to the target searches condu

78 allergen identification protein sequencing, homology search and mass spectrometry were applied.

79 Conducting extensive homology search and phylogenetic analysis, we found 64 p

80 In this study, based on homology search and phylogenetic analysis, we identified

81 Homology search and recognition occurs between ssDNA wit

82 e single-stranded DNA ends, which act in the homology search and recombination.

83 Most homology search and sequence alignment algorithms employ

84 we apply this idea to protein-sequence-based homology search and show that it dramatically enhances t

85 Dmc1 catalyzes homology search and strand exchange during meiotic recom

86 ation and recombinational DNA repair through homology search and strand exchange.

87 RecA family proteins are responsible for homology search and strand exchange.

88 Because Rad51 plays a central role in the homology search and strand invasion steps, DSBs either a

89 ichia coli K-12 and other E. coli strains by homology searches and are encoded by the genes acpS, ent

90 Homology searches and biochemical assays did not reveal

91 Batch homology searches and bulk downloads are available upon

92 its mouse syntenic region were identified by homology searches and by gene prediction programs, and t

93 the region were identified through database homology searches and exon-prediction analysis.

94 the AAE superfamily make it difficult to use homology searches and other genomics tools to predict en

95 The method does not rely on homology searches and, therefore, can identify previousl

96 function is typically obtained by in silico homology searches and/or phenotypic analyses of strains

97 as a candidate function of SLC25A19 through homology searching and confirmed it by using transport a

98 In this study, we used homology searching and phylogenetics to identify ELMOD f

99 otein in excising overhanging DNA ends after homology searching and refine the potential role(s) of t

100 e predicted (>90% of the genes identified by homology search), and many novel genes with no homologs

101 PAC clones), Rbx1 and elongin B (by GenBank homology searching); and (c) performed mutation analysis

102 NA, reveal a previously unknown facet of the homology search, and provide insight into the mechanism

103 l-length complementary DNA cloning, database homology searches, and computer-assisted gene prediction

104 five different gene-finding programs, three homology searches, and searches for promoters, splice si

105 Precomputed homology searches are stored to allow meaningful genome

106 conclude that Rad54 participates in the DNA homology search as a component of the Rad51-nucleoprotei

107 oss families and sets the stage for improved homology search as well as quantitative analyses.

108 Homology searches, as well as direct enzymatic assays wi

109 tandem MS followed by identification through homology searches at nonredundant protein databases.

110 hybrid panel screening and in silico GenBank homology searching; (b) determined the genomic organisat

111 nal introduces a new filter pipeline for RNA homology search based on accelerated profile hidden Mark

112 Traditionally, homology search-based methods are often the first approa

113 pathway perhaps by contributing to the RecA homology search before ternary complex formation.

114 In bacteria, homology search begins after RecA binds an initiating si

115 ence queries from a controlled yeast protein homology search benchmark.

116 test an HPM implementation on RNA structure homology search benchmarks, where we can compare directl

117 vates the development of tools for efficient homology search between a query sequence and a database

118 more discrete MN-specifying elements, using homology searches between genomic sequences of evolution

119 In conjunction with synteny homology searching, BLAST searches of sequences obtained

120 odeling suggests that sliding can accelerate homology search by as much as 200 fold.

121 ructure prediction to sequence alignment and homology search by developing what we call a hidden Pott

122 re package for sequence comparison speeds up homology search by preprocessing a query sequence into a

123 To understand the mechanism of homology search by RecA, this sliding model was tested.

124 mes or to the ancient bacterial catalysts of homology search by spontaneous base pairing to mediate c

125 The low sensitivity on short read homology search can lead to inaccurate domain compositio

126 Anatomic and spatial homology searches can be performed from the application

127 mple transfer of function from top hits of a homology search causes erroneous annotation.

128 1-dependent checkpoint that delays exit from homology search-competent stages until all homolog pairs

129 omplexes; however, little is known about the homology searching conformations and the details of how

130 e six invertebrate genomes with the standard homology search criteria (denoted as V.MCL), another app

131 Homology searching demonstrated that approximately 10% o

132 BLAST family of tools will not only speed-up homology search directly but also the huge collection of

133 ganization of its chromosome so as to direct homology search during recombination.

134 howed that our method enables more sensitive homology search, especially for PacBio data sets of low

135 expressed sequence tags (ESTs) were used in homology search experiments, together with chromosome wa

136 Nonetheless, homology searches failed to recognize orthologs of previ

137 However, initial homology searches failed to reveal similarities to any p

138 reason, we conducted a computerized sequence homology search for novel acetyltransferases.

139 de novo sequencing and target-decoy database homology search for peptide annotation is also described

140 Homology search for RNAs can use secondary structure inf

141 ompted us to initiate a genome-wide sequence homology search for RTVP1/GLIPR1-like (GLIPR1L) genes.

142 ed, followed by de novo assembly and protein homology searches for divergent viruses in 50 min to 16

143 By using homology searches for genes potentially encoding phospho

144 members, RASSF7-10, have been identified by homology searches for RA-domain-containing proteins.

145 SH2-like motifs are not retrieved by normal homology searches for SH2 domains, but can be found in m

146 genase (IDH; EC 1.1.1.41) were identified by homology searches from the Arabidopsis EST database.

147 of this assembly and the affiliated targeted homology searches greatly enrich the curated transcripts

148 These ideas include homology search, guilt-by-association (GBA), and CRISPR-

149 Profile Hidden Markov Model-based homology search has been widely used in protein domain a

150 A sequence homology search has identified five related genes, estab

151 A structural homology search has shown similarity to phosphodiesteras

152 on of additional peptide signals by sequence homology searches has had limited success due to sequenc

153 ove challenges by conducting family-specific homology search, homology-guided overlap graph construct

154 is to transfer functions from top hits of a homology search; however, this approach has substantial

155 In silico analysis (homology searching, hydropathy plotting, and codon usage

156 A database homology search identified an open reading frame in geno

157 Homology searches identified a 20-gene operon in A. long

158 Distant homology searching identified nearly 200, mostly unannot

159 ons to a range of problems such as improving homology search, identifying cellular location, and so o

160 By homology search in the database of the Washington Univer

161 N-terminal sequencing and homology search in the expressed sequence tag database i

162 From a homology search in the GenBank, we found that an hGCalph

163 Caenorhabditis elegans, and subsequently by homology searches in other metazoans.

164 genome scale, Typhon should provide improved homology searches in time comparable to existing algorit

165 lude that Rad51 is capable of carrying out a homology search independently, whereas Dmc1 requires add

166 Homology searches indicate that ATF6 is the only eukaryo

167 GenBank database homology searches indicate that DSA3 is most similar at

168 Homology searches indicate that the putative DSCAM prote

169 A homology search indicated that these 3 genes are apolipo

170 Sequence homology searches indicated close homology to the mouse

171 Homology searches indicated that the B. fragilis aconita

172 Homology searches indicated that ZNF313 is a paralogue o

173 During alignment-based homology search, insertion or deletion errors in genes w

174 istributed data sources--e.g. BLAST sequence homology search interfaces.

175 processes, a full dynamic description of the homology search is presented.

176 Homology search is still a significant step in functiona

177 This homology search is vital to recombinational DNA repair,

178 -model species and metagenomic data, profile homology search is widely adopted in integrated pipeline

179 restricting its dsDNA-binding and during the homology search it promotes dsDNA binding removing the i

180 During the homology search, it binds double-stranded DNA weakly; up

181 selected band, sequencing, and a nucleotide homology search led to the identification of thrombospon

182 Our findings suggest that the DSB-triggered homology search may mainly serve to proofread and stabil

183 efly highlight early investigations into the homology search mechanism, and then describe more recent

184 These findings implicate a specialized homology searching mechanism in ALT-dependent telomere m

185 RDN1 is physically sequestered from meiotic homology searching mechanisms.

186 Applying a homology search method previously described, we identifi

187 the crystal structure were achieved using a homology search method to predict loop structures.

188 Improvements in homology search methodology and functional predictions a

189 Current sequence-based homology search methods are still unable to detect many

190 Using local sequence homology search methods, we detected similarity of the T

191 aximize the chances of biological discovery, homology searching must use an up-to-date collection of

192 n of profile Hidden Markov Model (HMM)-based homology searches, network analysis and structural align

193 Homology search of all NCBI sequences indicated that the

194 Homology search of EST data banks retrieved a Caenorhabd

195 tandem mass spectrometry and identified by a homology search of public databases.

196 A homology search of the Drosophila melanogaster and Caeno

197 An amino acid sequence homology search of the GenBank and EMBL databases reveal

198 A homology search of the GenBank/EMBL database revealed th

199 A homology search of the zebrafish NCCRP-1 protein reveale

200 Homology searches of bacterial genomes, structural annot

201 The GSRs were assembled, annotated by BLAST homology searches of four public protein annotation data

202 kin-1 receptor (IL-1R) family, identified by homology searches of human genomic sequence data bases,

203 Structural homology searches of known structures revealed that the

204 to preclude their identification by standard homology searches of primary protein sequences.

205 Homology searches of the Arabidopsis genome, using the R

206 By using computer-based homology searches of the Arabidopsis genome, we identifi

207 Homology searches of the E. coli genome suggest yrbH may

208 Homology searches of the encoded protein products indica

209 mouse homologue of Drosophila alien through homology searches of the EST database.

210 r member of the beta-spectrin gene family by homology searches of the GenBank databases and by 5' rap

211 Amino acid homology searches of the human genome revealed three mem

212 has been constructed based on the results of homology searches of the major public sequence databases

213 Sequence homology searches of the public S. aureus genomic databa

214 Homology searches of the sequenced cDNAs against the Gen

215 Based on homology searching of a private database, a receptor for

216 er novel G protein-coupled receptors through homology searching of expressed sequence tag databases,

217 er novel G-protein-coupled receptors through homology searching of genomic databases, we identified a

218 From homology searching of the Methanococcus jannaschii genom

219 are degraded below the threshold of sequence homology searches or have been deleted completely.

220 need for multiple alignment steps, extensive homology searches, or genome assembly--which are time-co

221 is a need for better methods to improve the homology search performance for short reads.

222 are consistent with a role for Rad51 in the homology search phase of chromosome pairing in addition

223 We propose a model for the DNA homology search process termed 'intersegmental contact s

224 This presynaptic filament participates in a homology search process that leads to the formation of a

225 gous from nonhomologous sequences during the homology search process.

226 e unwinding of potential target DNA with the homology search process.

227 binds double-stranded DNA (dsDNA) during the homology search process.

228 ticle we present GRASPx, a fast and accurate homology-search program implementing a simultaneous alig

229 bonding is unlikely to be an intermediate in homology searching promoted by RecA.

230 During homology search, Rad51 nucleoprotein filaments probe and

231 its eukaryotic homologs conduct genome-wide homology searches, Radding and colleagues report in this

232 Rather, a model in which RecA-mediated homology searching requires unwinding of the duplex DNA

233 Consequently, additional ways of presenting homology search results have been developed, allowing th

234 Surprisingly, sequence and structural homology searches reveal no other cell-surface or secret

235 A homology search revealed a peptide from human leukocyte

236 Protein homology search revealed that hRTVP-1 gene cluster membe

237 s been determined recently, and a structural homology search revealed that SpoVAD shares significant

238 Protein homology search revealed that the three Legionella enzym

239 A computer-based homology search revealed that the yjdE (now called adiC)

240 Homology searches revealed no significant similarities t

241 Homology searches revealed rsmS conservation across path

242 et of 4,793 clones were sequenced, for which homology searches revealed that 750 (15.6%) of the seque

243 Homology searches revealed that GPP mutations alter evol

244 Homology searches revealed that TGP1 is a novel protein

245 Homology searches revealed that the predicted MAR reflec

246 A BLAST homology search service was also made available, allowin

247 Homology searches show it is most closely related to ACS

248 Homology searches show that icmP and icmO bear significa

249 Sensitive homology searches showed that C9ORF72 is a full-length d

250 Through inclusion of Chd1 sequences in homology searches SLIDE domains were identified in CHD6-

251 Homology searches suggest that Heterosigma trgl has an o

252 is family of proteins might function because homology searches suggest that members of the LRRC8 fami

253 Structural homology searches suggest that the ATP-binding domains o

254 Computer-assisted homology searches suggest that the TSP1 recognition moti

255 A structure-based homology search suggests that it functions in protein-pr

256 51/Rad54 form a functional unit operating in homology search, synaptic complex and D-loop formation.

257 First-end release would create a homology-searching "tentacle." Rec8 and Red1/Mek1 also i

258 a filtration strategy for genome-wide ncRNA homology search than the existing seeding strategies use

259 SB ends, thereby facilitating the long-range homology search that occurs before the strand invasion a

260 s to E. coli MutT on the basis of a sequence homology search, the properties of the gene and of the p

261 ert these initial metastable products of the homology search to a stable joint molecule that is compe

262 a B-DNA-like conformation that restricts the homology search to Watson-Crick-type base pairing.

263 A, high throughput sequencing, and data base homology searches to detect retina-specific genes.

264 We have used homology searches to determine how far the E. coli/S. en

265 this work, we introduce Frame-Pro, a profile homology search tool for PacBio reads.

266 We introduce a profile homology search tool named Short-Pair that is designed f

267 It provides a complementary paired-end read homology search tool to HMMER.

268 Motif and homology search tools detected significant similarity be

269 SMRT, there is an urgent need for dedicated homology search tools for PacBio data.

270 s RepeatMasker and Censor depend on sequence homology search tools such as cross_match and BLAST vari

271 We introduce a suite of homology search tools, powered by compressively accelera

272 them significantly outperform other popular homology-search tools including the BLAST and FASTA suit

273 3' single-strand tails that participate in a homology search, ultimately forming double Holliday junc

274 By protein sequence homology search using human and yeast polyadenylation fa

275 Database homology searches using BLAST revealed that 458 sequence

276 idopsis thaliana genes or 2) coding sequence homology searches using curated databases.

277 Amino acid homology searches using hypothetical translations of the

278 GenBank homology searches using sequence corresponding to chromo

279 Homology searches using the 10 amino acid sequence SxHxx

280 The practical implications are (i) faster homology searches using, for example, Fasta or Blast, an

281 ise method for combining gene prediction and homology searches was applied to the 2.9-Mb region from

282 By homology search, we also identified and cloned GPCAT gen

283 Using homology searches, we have identified the three proteins

284 Using remote homology searches, we identified MTBP as the metazoan or

285 Here, structure-based homology searches were combined with iterative protein s

286 the mutants that could be identified through homology searches were highly homologous to genes found

287 Sequence homology searches were performed to extend ZU5-like doma

288 BLAST homology searches were used to reduce redundancies with

289 ed to N-terminal microsequencing followed by homology search, which revealed its identity as mevalona

290 sed tools to allow data mining using pre-run homology searches, whole genome dot-plots, batch downloa

291 computational sequence, motif and structural homology search will find rarely expressed, possibly uni

292 VA and HcDPPIVB) in H. capsulatum based on a homology search with Aspergillus fumigatus DppIV.

293 A structural homology search with the DALI algorithm indicates that t

294 A homology search with the deduced amino acid sequence of

295 matic comparative genomic study, integrating homology searches with methods of phylogenetic reconstru

296 Based on ligand binding studies and homology searches with protein sequences in the database

297 Homology searches with the structural subunits of known

298 combines the high fidelity of RecA-mediated homology searching with allele-specific ligation.

299 iles, collected from structural and sequence homology searches, with a physics-based energy function

300 enges by combining secondary structure-aware homology search, zproperties of rRNA genes and de novo a