ライフサイエンスコーパス: alignment

1 , 0.008-0.025; P < 0.001) over the period of alignment.

2 odds ratio decreases to 2.9 x 10(-7) against alignment.

3 in and significantly reduced the fiber cross alignment.

4 d molecules stacked in an antiparallel sheet alignment.

5 as a result, for long-term flow-induced cell alignment.

6 of expressed transcripts from RNA-seq reads alignment.

7 ructure alignment method for local structure alignment.

8 es and database hits using pairwise sequence alignment.

9 these strings and providing scores for each alignment.

10 ength of Bacillus cereus from a whole genome alignment.

11 gracefully as subjects with normal binocular alignment.

12 t whose S 3 scores match that of the perfect alignment.

13 yer on top of 2H-MoTe2 due to favorable band-alignment.

14 orm amplification and more accurate sequence alignment.

15 nt interpretation than conventional sequence alignment.

16 tive to the direction and extent of collagen alignment.

17 inins are required for proper trans-synaptic alignment.

18 hree mid- to large-size mitochondrial genome alignments.

19 ve functions may lead to dramatically better alignments.

20 most topologically and biologically coherent alignments.

21 by additionally providing multiple sequence alignments.

22 structure-based, rather than sequence-based, alignments.

23 o infer statistically significant structural alignments.

24 s well as methods based on multiple sequence alignments.

25 TurboFold II has comparable alignment accuracy with MAFFT and higher accuracy than o

26 resulted in substantial improvement in peak alignment accuracy, automated data filtering, and ultima

27 The tool utilizes retention time alignments, accurate mass tolerances, Pearson's correlat

28 n of each compartment and then discuss their alignment across pre- and postsynaptic cells at a nanome

29 Every alignment algorithm consists of two orthogonal component

30 ting tools that employ nucleotide or protein alignment algorithms.

31 them before invoking computationally costly alignment algorithms.

32 ading tools, including methods that focus on alignment alone and methods that provide both alignment

33 However, the cortical microtubule alignment along growth-derived maximal tensile stress in

34 iochar, which resulted in the aggregation or alignment along the edges of multisheets composing bioch

35 g a slight increase in cellulose microfibril alignment along the growing stem.

36 biased walk toward aggregate centroids, and alignment among neighboring cells in a radial direction

37 ected in these proteins by multiple sequence alignment analysis.

38 MARK1 in NSCLC increases the collagen fiber alignment and captures outward alignment vectors from th

39 reads' alignments to find the most accurate alignment and correct it with the aligned contig regions

40 yed as a full-text searchable index for read alignment and de novo assembly.

41 icient portable sequencing via new iterative alignment and deletion error-correcting codes.

42 s 7.23%, ascribed to the HTL's suitable band alignment and excellent hole extraction/collection prope

43 or BAM access, BWA-MEM and BLAT for sequence alignment and Fermi for error correction and sequence as

44 om RNA-Seq data under the guidance of genome alignment and independent of gene annotation.

45 ental design, including temporal and spatial alignment and interpretation of results.

46 collagen substrates were used to investigate alignment and migration of skin and lung fibroblasts fro

47 etermine the relationship of each measure of alignment and morphology to the presence of SHFP edema,

48 Measures of alignment and morphology were divided into quartiles, an

49 T approaches, k-mer algorithms, whole genome alignment and others; each of these has advantages and d

50 Structural alignment and phylogenetic tree analysis indicate that S

51 tic progression by affecting metaphase plate alignment and pressure generation by delocalizing cortic

52 Carollia shows cellular alignment and spontaneous population-activity spread alo

53 heterostructures have a type-I energy level alignment and strongly localized interfacial states.

54 lignment alone and methods that provide both alignment and structure prediction.

55 To assess TurboFold II, its sequence alignment and structure predictions were compared with l

56 ttraction is strongly dependent on azimuthal alignment and systematically decreases as intervening wa

57 ghlight the importance of improving sequence alignment and the use of appropriate substitution models

58 to reduce the alveolar segments into proper alignment and to improve nasal symmetry in patients with

59 this effect arises from the favourable band alignment and transient excited-state Coulomb environmen

60 Subsequent alignment and tree estimation can incorporate newly anno

61 tic variation observed after DNA sequencing, alignment and variant calling of a sample cohort.

62 erases have been identified through sequence alignment and/or genetic analysis; however, few have bee

63 has multitudinous identities, organisational alignments and disciplinary links.

64 for each of the three- mitochondrial genome alignments and greatly outperformed the method currently

65 s are available, including multiple sequence alignments and HMM profiles for each VOG.

66 fills the increasing demand for constructing alignments and phylogenies for a given loci from thousan

67 ith custom data parsing to generate accurate alignments and phylogenies using all the individuals fro

68 rovides an interface to analyses of sequence alignments and sets of contact predictions.

69 has three main uses: (i) Users may download alignments and voucher tables for members of the Pezizom

70 ctive function M measuring the quality of an alignment, and a search algorithm that explores the spac

71 n proper centrosome positioning, chromosomal alignment, and centrosome number.

72 pping algorithm model both map formation and alignment, and recapitulate our experimental observation

73 at regulate chromatin remodeling, chromosome alignment, and stability.

74 affects spindle pole morphology, chromosome alignment, and stringency of checkpoint signaling, resul

75 or organelle inheritance in mitosis, spindle alignment, and the choice of daughter progenitors to dif

76 omparable magnitudes across replicates, peak alignment, and the use of an adaptive mixture model-base

77 ints derived from antibody multiple-sequence alignments, and (ii) during backbone design, maintained

78 f of principle, a range of different shapes, alignments, and correlating SMC marker levels were gener

79 pendent gap length distributions in pairwise alignments, and current approaches for extending these a

80 er XSuLT, an enhanced version of the protein alignment annotation program JoY, formats a submitted mu

81 Additional capabilities for BLAT alignment are available under the BLAT license.

82 The strain-hardening behavior and chain alignment are found to depend on the volume fraction, bu

83 nhibitors, we find that nuclear movement and alignment are microtubule dependent, with 19 microtubule

84 Genomic-scale sequence alignments are increasingly used to infer phylogenies in

85 cale computer simulations indicate that this alignment arises from the preferential nucleation of pri

86 axes, they were not correlated with nuclear alignment as observed when the monolayers were grown on

87 osition the donor and acceptor with cofacial alignment at distances of 3.3-3.5 A wherein efficient sp

88 on charge-carrier dynamics and energy level alignment at the interface of perovskite NCs with molecu

89 Specifically, completion of chromosome alignment at the metaphase plate was significantly delay

90 This approach uses multiple-sequence alignments, atomic-resolution structural information, an

91 r recall rate and precision comparing to the alignment-based approach that would recover 99% of imput

92 f SNV calling between the assembly-based and alignment-based calling approaches.

93 how these methods work, how they compare to alignment-based methods, and what their potential is for

94 hile Seqkernel performs better than standard alignment-based methods, its applications are potentiall

95 cognition compared to the use of traditional alignment-based methods.

96 WSeqKernel, just like any alignment-based sequence comparison method, depends on a

97 roaches study 3D structures directly and are alignment-based.

98 oteinase activity is not required for matrix alignment before cell migration.

99 ttraction, short-range repulsion, and mutual alignment between adjacent swimmers.

100 Important differences in the alignment between care seeking patterns and diagnostic a

101 The PPA assessed the alignment between patient care seeking and the availabil

102 y analysis (PPA) was completed to assess the alignment between patient care seeking and the availabil

103 a by P. aeruginosa revealed a high degree of alignment between the bacteria and collagen lamellae ex

104 and histologic analyses demonstrated a close alignment between the responses of human and rodent alve

105 ence alignment (MSA) implied by the pairwise alignments between the query model (PSSM, HMM) and the s

106 ent the sequences, before generating textual alignments between these strings and providing scores fo

107 cross-sectional study, patellofemoral joint alignment (bisect offset, patellar tilt angle, and Insal

108 iduals are not the result of passive current alignment, but represent a rheotactic response at some s

109 ctical to fabricate such nanowires in proper alignments by either "bottom-up" growth techniques or by

110 The errors of the alignments can be calculated based on the information co

111 LC-elution time alignment combined with accurate mass and arrival time e

112 o map the microscopic three-dimensional (3D) alignment, composition and distribution of the collagen

113 ncluding quality control metrics, transcript alignment, count generation, transcript fusion identific

114 uld act to bring brains into mutual temporal alignment, creating a joint-networked state that is stru

115 This in turn enables precise in-situ alignment detection, for the first practicable realisati

116 In this work, it is demonstrated that the alignment direction of chromonic assemblies can be patte

117 rectional electron transport parallel to the alignment direction.

118 Following alignment, DMRfinder extracts methylation counts and per

119 CNs) to facilitate spatiotemporal control of alignment, domain structure, and birefringence.

120 Different partitions within these new alignments (e.g., genes, codon positions, and structural

121 We took advantage of a spatial alignment effect paradigm, which typically refers to a d

122 Sequence alignments enabled classification of the evasins into tw

123 Examination of alignment errors during psiblast PSSM contamination sugg

124 r approach is based on a joint estimation of alignment errors, and the object, using an iterative ref

125 27% are in repeat proteins likely reflecting alignment errors.

126 ts of the gate-bias dependent interface band alignment, especially the confining potential profile, a

127 ase of the guide strand, with the looped-out alignment facilitated by weakened Watson-Crick and rever

128 We observe a stable alignment for the looped-out 6'N7' bulge base, which sta

129 protein evolution and in the optimization of alignments for comparative modelling and construct desig

130 ezizomycotina (Ascomycota)-based on sequence alignments for six loci (nr5.8S, nrLSU, nrSSU, mtSSU, RP

131 The similarity measurement, called alignment, formulated as an approximate string matching

132 We have presented and characterized a new alignment free method based on a mathematical kernel for

133 ablished graphlet measures via a new network alignment-free approach, 2) introducing normalized graph

134 Existing network alignment-free approaches have drawbacks: 1) They rely o

135 approach is emerging as one of the prominent alignment-free approaches.

136 ently developed state-of-the-art k-mer based alignment-free dissimilarity measures including CVTree,

137 ysis (CAFE), for efficient calculation of 28 alignment-free dissimilarity measures.

138 We present ALFRED-G, a greedy alignment-free distance estimator for phylogenetic tree

139 In this study, we used an alignment-free method that uses k-mers as genomic featur

140 Here, we developed a novel alignment-free method, ChimeRScope that accurately predi

141 the first integrated web server, based on an alignment-free method, to deliver a suite of RNA analysi

142 Alignment-free methods for comparing protein sequences h

143 An alignment-free module can be run directly on FASTQ files

144 ver (RNA-TVcurve) was designed based on this alignment-free RNA comparison algorithm.

145 Alignment-free sequence analyses have been applied to pr

146 we report a standalone software, aCcelerated Alignment-FrEe sequence analysis (CAFE), for efficient c

147 Alignment-free sequence comparison approaches have been

148 It motivates a surge of fast alignment-free techniques for sequence analysis.

149 Network alignments have been used to uncover functionally conser

150 d with SANA's ability to produce the perfect alignment if given the perfect objective function, sugge

151 ricular tissue, higher myofibril density and alignment, improved calcium handling, enhanced contracti

152 The output of our pipeline includes an alignment in FASTA format and a tree file in newick form

153 clotide, allowed us to calculate the protein alignment in the membrane directly from the orientation-

154 n this work, we study strong-field molecular alignment in, for the first time, degenerated channels f

155 90% increase in potential ferromagnetic spin alignments in the central layer and this could be signif

156 trusion is provoked by singularities in cell alignments in the form of comet-shaped topological defec

157 spontaneously 'sense' and follow topographic alignment, intercellular interactions within epithelial

158 ivity fingerprint (ECFP) to develop a rapid, alignment-invariant 3D representation of molecular confo

159 These results indicate that phase alignment is a general mechanism of the brain to process

160 , which is the probability that the reported alignment is incorrect.

161 Ligand/metal orbital alignment is modulated by auxiliary phosphine donors and

162 Unlike most steps in the pipeline, alignment is particularly amenable to benchmarking with

163 -fast metagenomic classifiers, full sequence alignment is performed allowing for gene identification

164 It thus appears that egocentric retinal alignment is required for visual scene recognition, but

165 r, the quality of the corresponding sequence alignment is usually poor, leading to poor performance f

166 search algorithm that explores the space of alignments looking for ones scoring well according to M

167 This alignment makes the donor sensitive to the Stark effect

168 ts based on a non-sequential-order structure alignment method for local structure alignment.

169 roteins that is not found using conventional alignment methods.

170 n offer substantial advantages over existing alignment methods.

171 sing the accuracy of RNA secondary structure alignment methods.

172 ned from different types of multiple network alignment (MNA) approaches to expand the search space of

173 sis of a quantitative interface energy level alignment model, which indicates that bipolarons are gen

174 built from the query-based multiple sequence alignment (MSA) implied by the pairwise alignments betwe

175 of correlated mutations in multiple sequence alignments (MSAs).

176 e Gate Arrays (FPGAs), which can perform pre-alignment much faster than software.

177 ce tone may be responsible, but breakdown of alignment occurs via a unique, pathological type of eye

178 of jet lag, that is, travel that shifts the alignment of 24-h environmental cycles relative to the e

179 lular contact guidance is built on the local alignment of adhesions and individual protrusions.

180 e observations indicate that the unfavorable alignment of C-terminal DNA-binding region in solution c

181 ectrical responses as a direct result of the alignment of carbon fiber bundles in the microscale whic

182 d analysis of 3D cell migration reveals that alignment of collagen does not alter the total motility

183 ncy of multisensory products on the temporal alignment of crossmodal cues.

184 r GapmeRs inhibited angiogenic sprouting and alignment of endothelial cells in response to shear stre

185 byrinths of these embryos exhibited aberrant alignment of endothelial cells, which disturbed the feto

186 ted morphology of the invading cells and the alignment of fibers in the matrix, suggesting that cell

187 three different steps: a full mass spectral alignment of GC-MS data using MzMine 2.0, a multivariate

188 chronological control has precluded precise alignment of ice, atmospheric and marine records, making

189 athis australis) to undertake high-precision alignment of key climate data sets spanning iceberg-raft

190 MR spectroscopy studies whereas the magnetic-alignment of macro-nanodiscs (diameter of > ca. 40 nm) c

191 ation of phylogenetic analyses with syntenic alignment of mammalian CD59 genes to identify the only s

192 Alignment of more than 50 resequenced genomes from diver

193 ct larger data sets for modeling through the alignment of multiple CZE-MS acquisitions, and study of

194 ctor that allows simultaneous collection and alignment of multiple poly(vinylidene fluoride-trifluoro

195 The co-alignment of multiple protrusions polarizes the entire c

196 st-derived collagen synthesis, and perturbed alignment of myofibroblast arrays in the infarct.

197 (65.7 GPa) owing to the large length and the alignment of nanofibers along fiber axis.

198 Sensory processing requires proper alignment of neural maps throughout the brain.

199 To determine alignment of proposed international standard outcomes se

200 ticoid and noradrenergic activity prompts an alignment of reward- with loss-sensitivity, and thus dim

201 Colloidal particles disturb the alignment of rod-like molecules of liquid crystals, givi

202 he hairpin structure and plots depicting the alignment of sequences on the secondary structure.

203 1K leads to a significant improvement in the alignment of short read sequences from immune receptors

204 ndows based graphical tool, employs pairwise alignment of sliding windows and can perform (i) genotyp

205 Calculating the alignment of such incorrect candidate locations consumes

206 Here, through climate modelling and the alignment of terrestrial, ice and marine (14)C and (10)B

207 This hypothesis predicts that changes in the alignment of tertiary contacts from different connecting

208 more apparent, leading to challenges in the alignment of the acquired projection images.

209 The close alignment of the circulatory and ingestion systems, as w

210 in CTD charge distribution and differential alignment of the CTD with reference to transport DNA.

211 upling-method was developed, to simplify the alignment of the FERS setup.

212 Maintenance of the directional alignment of the FN pillars depends on pulsatile blood f

213 s directly proportional to the stiffness and alignment of the matrix.

214 The nucleic acid alignment of the mutated sequences against the wild-type

215 tch is due to the change in the energy level alignment of the redox states relative to the Fermi leve

216 l cation/pi interactions by the preferential alignment of the S-H sigma* toward the ring carbons and

217 rnatives to approaches that first rely on an alignment of the sequences to be compared.

218 ng step of the hybridization reaction is the alignment of the two strands prior to base pairing.

219 tin's role in cell motility is to govern the alignment of traction stresses that permit single-cell m

220 Synaptic communication requires alignment of transmitter release sites with transmitter

221 n be achieved by exploiting the type-II band alignment of vertically stacked WS2 /MoS2 semiconducting

222 Structure-based alignments of CsrR orthologs and other anti-sigma factor

223 Sequence alignments of the esterase domains in BiFae1B with the f

224 -anticipated possibility of putting sequence alignment on the same footing as statistical phylogeneti

225 As gradient, disrupts cortico-collicular map alignment onto the retino-collicular map, creating a vis

226 rface to BAM/SAM/CRAM files, global sequence alignment operations and sequence assembly.

227 ds and its modulation via the control of the alignment or directionality of SF nanofibers through an

228 is weak and shows no dependence on azimuthal alignment or surface hydration.

229 Analysis of ECM alignment over time revealed that tissues rapidly reorga

230 Despite its importance, the structural alignment problem has not been formulated, much less sol

231 computational intractability of the network alignment problem, aligners are heuristics providing div

232 d a computational approach with multiple DNA alignment procedures, we identify enhancer-associated sm

233 i heterojunction solar cell through molecule alignment process.

234 We developed a nucleotide-to-amino acid alignment program NucAmino optimized for virus sequencin

235 NucAmino is a nucleotide-to-amino acid alignment program with several advantages for clinical l

236 al interface for data queries and downloads, alignment programs, command-line utilities and more.

237 map, but the basic mechanisms mediating this alignment remain elusive.

238 d serves as a canonical reference to compare alignment results across different algorithms.

239 H-BLAST produces identical alignment results as NCBI-BLAST and its computational sp

240 o demonstrate the reliability of MMLigner 's alignment results when compared with the state of the ar

241 ramework was shown to yield accurate network alignment results.

242 Structural alignment reveals that MyRF DBD possess less interaction

243 iology including RNA structure analysis, RNA alignment, RNA annotation, RNA-protein interaction, ribo

244 rrows-Wheeler Aligner that provides accurate alignment, robust reporting capabilities and orders-of-m

245 We comprehensively evaluate the alignment scoring schemes and global network aligners on

246 ontrol, automated sgRNA sequence extraction, alignment, sgRNA enrichment/depletion analysis and gene

247 spinal balance together with lower extremity alignment should be strongly recommended.

248 Structural alignments show that viperin is similar to several other

249 tructure between collinear and non-collinear alignments simply by switching the current direction eve

250 Current spliced alignment software is designed to analyze each sample se

251 ws exponentially, the computational speed of alignment softwares must be improved.

252 ID framework and extend it for local network alignment, specifically to solve network querying proble

253 t incorporates the strand information in the alignment step for more accurate quantification.

254 er is the first that integrates all the post-alignment steps in a single package.

255 scale (cm(2)) without postgrowth transfer or alignment steps.

256 With a multiple structure alignment strategy, the consensus RNA-binding pockets in

257 each cluster, and cluster size and cell-cell alignment strength increased with viscoelasticity of the

258 sary conditions for katanin to promote array alignment, stresses the critical importance of the exper

259 pulation of neurons with strong tuning-curve alignment, suggesting that it contains a high concentrat

260 he viperin structure, together with sequence alignments, suggests that vertebrate viperins are highly

261 This simple alignment technique opens up enormous applications of gr

262 eedup over the state-of-the-art software pre-alignment techniques, Adjacency Filter and Shifted Hammi

263 nces with discordances, NucAmino produced an alignment that was preferable to that found by LAP in th

264 We demonstrate for all three mtDNA alignments that 3D projections significantly increase th

265 interactions, and the resultant spin vector alignments that are found within the 3-D C-type antiferr

266 pping and optimizing only S 3 , SANA creates alignments that are not perfect and yet whose S 3 scores

267 mensional structures and generate structural alignments (the assignment of one-to-one correspondences

268 ion for full-length oligonucleotide-template alignments - thermoalignments - across the genome to ide

269 alization which interacts with the formatted alignment to facilitate inspection and understanding.

270 the human proteome using protein structural alignment to identify proteins that are likely to bind l

271 ed two types of additional knowledge, the co-alignment to reference genomes and linkage of contigs pr

272 long read, references the other long reads' alignments to find the most accurate alignment and corre

273 The use of alignments to find variants and genes along with their t

274 etween the pairs given by Theorem 2, and the alignments to the incorrect strand.

275 sma samples, we find that application of our alignment tools resulted in substantial improvement in p

276 nical variations as well as protein sequence alignment tools.

277 s with SABRE-SHEATH (SABRE in shield enables alignment transfer to heteronuclei).

278 Keeper is the first design to accelerate pre-alignment using Field-Programmable Gate Arrays (FPGAs),

279 ge approach, first estimating a fast initial alignment using the tissue sections' external boundaries

280 m JoY, formats a submitted multiple-sequence alignment using three-dimensional (3D) structural inform

281 ing of ECM micro-fiber morphology, the local alignment vector can measure the dynamic signature of in

282 ollagen fiber alignment and captures outward alignment vectors from the tumor spheroid, corresponding

283 comprehensive set of charts and interactive alignment view.

284 Furthermore, no bubble lattice alignment was observed in the <111> directions pointing

285 he chemical linkers in determining the level alignment when molecules are attached to different metal

286 has been applied to pairwise global network alignment, where the framework was shown to yield accura

287 d Complex identification by multiple network alignment), which integrates functional orthology inform

288 turbed the spindle structure and chromosomal alignment, which was associated with significant decline

289 ic approaches are based on multiple sequence alignments, which analyze shared gene datasets and conca

290 Here we identify cellular alignments, which indicate two streams towards the sites

291 Within each region, the bacteria showed good alignment with collagen lamellae (P = 0.002).

292 om start of treatment to completion of tooth alignment with fixed orthodontic appliances.

293 ptogenic mediator, ELFN1, for trans-synaptic alignment with mGluR6.

294 e first crystal structure of hippocalcin and alignment with other NCS proteins showed significant var

295 Mitotic spindle alignment with the basal or substrate-contacting domain

296 unk position, but the phases shifted towards alignment with the head.

297 wth of nanofibril aggregates and by backbone alignment, with the adjusted R(2) (R(2)adj) correlation

298 show that we achieved a high order of fiber alignment within the composite microstructure, which in

299 be preferred for achieving greater levels of alignment within the confines of a NG environment.

300 The two-dimensional order of alignment within the culture showed a liquid-crystalline