ライフサイエンスコーパス: homology search

1 hologues have been difficult to recognize by homology search.

2 ep of meiotic recombination that follows the homology search.

3 d quantified its sensitivity and accuracy on homology search.

4 uclear organization and that this exit stops homology search.

5 lecular description of the mechanisms of the homology search.

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

7 he nucleoprotein complex involved in the DNA homology search.

8 titative theoretical approach to analyze the homology search.

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

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

11 o efficiently align DNA sequences during the homology search.

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

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

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

15 n genome by performing a BLASTN computerized homology search.

16 ducing the search space and accelerating the homology search.

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

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

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

20 can exploit this fact to greatly accelerate homology search.

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

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

23 d a strand exchange protein that facilitates homology search.

24 tic of ungapped structural alignment for RNA homology search.

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

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

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

28 that include chemical structure and sequence homology searches.

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

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

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

32 ous matches to multiple patterns in sequence homology searches.

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

34 ng to highly accurate and sensitive sequence homology searches.

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

36 uccessful identification of proteins through homology searches.

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

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

39 ressed GEFs, identified by database sequence homology searching.

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

41 duced at different granularity for efficient homology searching.

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

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

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

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

46 ein sequence database (nrdb90), a server for homology searches against nrdb90, and a Perl script (nrd

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

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

49 Homology searches against the GenBank database facilitat

50 Homology searches against the mouse EST database have al

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

52 Homology searches against various databases indicated th

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

77 Homology search and recognition occurs between ssDNA wit

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

79 Most homology search and sequence alignment algorithms employ

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

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

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

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

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

85 Homology searches and biochemical assays did not reveal

86 Batch homology searches and bulk downloads are available upon

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

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

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

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

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

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

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

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

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

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

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

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

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

100 Precomputed homology searches are stored to allow meaningful genome

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

102 Homology searches, as well as direct enzymatic assays wi

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

120 1-dependent checkpoint that delays exit from homology search-competent stages until all homolog pairs

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

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

123 Homology searching demonstrated that approximately 10% o

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

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

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

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

128 Nonetheless, homology searches failed to recognize orthologs of previ

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

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

131 Homology search for RNAs can use secondary structure inf

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

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

134 By using homology searches for genes potentially encoding phospho

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

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

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

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

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

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

141 A structural homology search has shown similarity to phosphodiesteras

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

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

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

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

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

147 Distant homology searching identified nearly 200, mostly unannot

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

149 By homology search in the database of the Washington Univer

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

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

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

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

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

155 Homology searches indicate that ATF6 is the only eukaryo

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

157 Homology searches indicate that the putative DSCAM prote

158 A homology search indicated that these 3 genes are apolipo

159 Sequence homology searches indicated close homology to the mouse

160 Homology searches indicated that the B. fragilis aconita

161 Homology searches indicated that ZNF313 is a paralogue o

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

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

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

165 Homology search is still a significant step in functiona

166 This homology search is vital to recombinational DNA repair,

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

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

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

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

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

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

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

174 RDN1 is physically sequestered from meiotic homology searching mechanisms.

175 Applying a homology search method previously described, we identifi

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

177 Improvements in homology search methodology and functional predictions a

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

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

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

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

182 Homology search of all NCBI sequences indicated that the

183 Homology search of EST data banks retrieved a Caenorhabd

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

185 A homology search of the Drosophila melanogaster and Caeno

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

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

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

189 Homology searches of bacterial genomes, structural annot

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

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

192 Structural homology searches of known structures revealed that the

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

194 Homology searches of the Arabidopsis genome, using the R

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

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

197 Homology searches of the encoded protein products indica

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

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

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

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

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

203 Homology searches of the sequenced cDNAs against the Gen

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

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

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

207 From homology searching of the Methanococcus jannaschii genom

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

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

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

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

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

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

214 gous from nonhomologous sequences during the homology search process.

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

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

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

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

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

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

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

222 A homology search revealed a peptide from human leukocyte

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

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

225 Protein homology search revealed that the three Legionella enzym

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

227 Homology searches revealed no significant similarities t

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

229 Homology searches revealed that GPP mutations alter evol

230 Homology searches revealed that TGP1 is a novel protein

231 Homology searches revealed that the predicted MAR reflec

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

233 Homology searches show it is most closely related to ACS

234 Homology searches show that icmP and icmO bear significa

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

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

237 Homology searches suggest that Heterosigma trgl has an o

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

253 Motif and homology search tools detected significant similarity be

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

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

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

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

258 3' single-strand tails that participate in a homology search, ultimately forming double Holliday junc

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

260 Database homology searches using BLAST revealed that 458 sequence

261 Amino acid homology searches using hypothetical translations of the

262 GenBank homology searches using sequence corresponding to chromo

263 Homology searches using the 10 amino acid sequence SxHxx

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

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

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

267 Using homology searches, we have identified the three proteins

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

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

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

271 BLAST homology searches were used to reduce redundancies with

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

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

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

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

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

277 A homology search with the deduced amino acid sequence of

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

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

280 Homology searches with the structural subunits of known

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

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