ライフサイエンスコーパス: parsimony

1 ferent species of Clevosaurus (under maximum parsimony).

2 the direction of the TE-gene relationship by parsimony.

3 pes but had the advantages of robustness and parsimony.

4 itive, site-pattern-oriented approaches like parsimony.

5 n must therefore be excercised in the use of parsimony.

6 ees are obtained by the criterion of maximum parsimony.

7 character state cannot change to itself with parsimony.

8 ation data sets, respectively; P = .048) and parsimony.

9 unctional impact predictor that is guided by parsimony.

10 it improves predictions without sacrificing parsimony.

11 angements and phylogeny can be unified under parsimony.

12 roximal femur evolution using squared-change parsimony.

13 We also devised a new maximum parsimony algorithm that, given the states of the sample

14 In this work, we developed a maximum parsimony algorithm to reconstruct ancestral operon stat

15 yzed using Bayesian, maximum likelihood, and parsimony algorithms to determine whether the individual

16 m likelihood, minimum evolution, and maximum parsimony analyses all contradict macroglossine monophyl

17 Maximum-likelihood, neighbor-joining, and parsimony analyses also suggested as less likely E. hist

18 Parsimony analyses of amino acid sequences and maximum l

19 Parsimony analyses of combined and partitioned data sets

20 Here we report the results of parsimony analyses of DNA sequences of the plastid genes

21 molecular phylogenies are incorporated into parsimony analyses of morphological characters, includin

22 ported results from likelihood, Bayesian and parsimony analyses of over 41 kilobases of aligned DNA s

23 Parsimony analyses unambiguously indicate that the four

24 m-likelihood, minimum-evolution, and maximum-parsimony analyses yielded congruent phylogenies support

25 As an alternative to parsimony analyses, stochastic models have been proposed

26 nsus about early amniote evolution, based on parsimony analysis and Bayesian inference of a new morph

27 Parsimony analysis and coalescent theory suggest that th

28 basal relationships established with maximum parsimony analysis except two are present in the distanc

29 ,000 bp per taxon) for 16 taxa, (ii) maximum parsimony analysis for a subset of these genes for 104 t

30 e craniodental characters were adjusted in a parsimony analysis for the primate tribe Papionini, a gr

31 Maximum parsimony analysis is used to separate the evolution of

32 Amino acid alignments and a parsimony analysis of nucleotide alignments show the ska

33 Results were compared to a parsimony analysis of spore morphological characters of

34 We performed maximum-parsimony analysis of the 359 sequences and calculated t

35 Parsimony analysis of the aligned 18S and 28S DNA sequen

36 Parsimony analysis of the combined data set comprising 7

37 simulated evolution) and those inferred from parsimony analysis of the resulting character data, with

38 Parsimony analysis of the SVR sequences yielded a dendro

39 Parsimony analysis placed the Rhinosporidium ITS sequenc

40 Parsimony analysis reveals two main clades and suggests

41 Parsimony analysis suggests that this fossil represents

42 networks obtained by Templeton's statistical parsimony analysis were generated for combined (concaten

43 Parsimony analysis yielded a subgroup including the B. c

44 nd a clustering method based on phylogenetic parsimony analysis), we assessed the lineage relationshi

45 ted in the levels of homoplasy detected in a parsimony analysis, because higher numbers of states per

46 history of the laboratory mouse using Wagner parsimony analysis.

47 results and those inferred by commonly-used parsimony and Bayesian methods demonstrates that statist

48 present phylogenetic analyses using maximum parsimony and Bayesian methods that address the origin a

49 data set and the DNA+morphology data set by parsimony and Bayesian methods yielded a single well sup

50 Parsimony and Bayesian phylogenetic analyses showed that

51 The parsimony and Bayesian results are highly congruent, and

52 ical complications, as the best solution for parsimony and clinical meaningfulness.

53 Both parsimony and cluster analyses were used to divide the g

54 intergenic spacer was analyzed using maximum parsimony and compared with nuclear ITS rDNA using a sim

55 g superior interpretative power, robustness, parsimony and computational efficiency relative to the g

56 Parsimony and distance analyses further identify purple

57 Parsimony and distance analysis of the separate genes we

58 Maximum-parsimony and distance methods revealed distinct SV40 cl

59 Using phylogenetic analysis, by parsimony and distance methods, of R. seeberi's 18S SSU

60 A useful risk-adjustment model must balance parsimony and ease of data collection with predictive ab

61 Parsimony and energetics would suggest a one-step mechan

62 Maximum parsimony and isolation-by-distance analyses revealed li

63 tal duplications in the human genome in both parsimony and likelihood settings.

64 We introduce parsimony and likelihood techniques to analyze the evolu

65 adjacent markers, the method first combines parsimony and likelihood to build an evolutionary tree o

66 The methods we evaluated include parsimony and likelihood using the single best reconstru

67 Maximum parsimony and maximum likelihood analyses of 27 publicly

68 le sequence alignment using distance matrix, parsimony and maximum likelihood approaches to infer the

69 We have developed weighted parsimony and maximum likelihood methods for inferring g

70 Parsimony and maximum likelihood methods of phylogenetic

71 d and contrasted with the results of maximum parsimony and maximum likelihood methods.

72 re tool to infer gene family histories using parsimony and maximum likelihood.

73 Maximum-parsimony and maximum-likelihood analyses of aligned DNA

74 ondary structural features, and subjected to parsimony and neighbor joining distance analysis.

75 e.g., 100% bootstrap value with both maximum parsimony and neighbor joining).

76 a single outgroup species and were based on parsimony and neighbor joining.

77 Phylogenetic analysis using parsimony and neighbor-joining algorithms identified fiv

78 upported by high bootstrap values in maximum-parsimony and neighbor-joining analyses and were confirm

79 This result, based on parsimony and neighbor-joining analyses of primary amino

80 d human ABC genes were examined with maximum parsimony and neighbor-joining analyses that demonstrate

81 Protein parsimony and protein distance matrix analyses show that

82 In seeking a compromise between parsimony and realism, we introduce a class of metapopul

83 deep coalescence, matrix representation with parsimony and the greedy consensus.

84 we developed RIPTiDe (Reaction Inclusion by Parsimony and Transcript Distribution) which uses both t

85 We analyze it with parsimony and, for the first time for a tyrannosauroid d

86 y application of maximum-likelihood, maximum-parsimony, and Bayesian methods to the resulting data se

87 Population genetic analyses, Statistical Parsimony, and Bayesian methods were used to infer genet

88 Maximum likelihood, maximum parsimony, and Bayesian methods were used to infer phylo

89 xamined for their percent of total variance, parsimony, and clinical interpretability.

90 ce matrix, using maximum likelihood, maximum parsimony, and compatibility methods.

91 F(ST) calculations, parsimony, and distance analysis demonstrated relationsh

92 and fungi, using maximum likelihood, maximum parsimony, and distance methods.

93 of standard search heuristics for gene tree parsimony, and enables the first truly genome-scale phyl

94 red mutations causing births/deaths based on parsimony, and investigated local genomic environments a

95 for phylogenetic information using distance, parsimony, and likelihood approaches.

96 ic-tree construction using neighbor-joining, parsimony, and maximum likelihood methods for 23S rRNA g

97 nes using a combination of distance, maximum parsimony, and maximum likelihood methods indicate that

98 neighbor-joining, minimum evolution, maximum parsimony, and maximum likelihood methods.

99 ne analyses using minimum evolution, maximum parsimony, and maximum likelihood phylogenetic methods,

100 minimum evolution-neighbor joining, maximum parsimony, and maximum likelihood, we address overall le

101 sequences performed using distance, maximum-parsimony, and maximum-likelihood approaches yielded con

102 reconstructions with distance-based, maximum-parsimony, and maximum-likelihood methods.

103 Maximum likelihood, parsimony, and neighbor joining methods all supported a

104 imum-likelihood, Bayesian inference, maximum parsimony, and neighbor-joining (NJ) phylogenetic tree r

105 re we implemented distance matrices, maximum parsimony, and neighbor-joining analyses to assess the e

106 s in terms of explanatory kind, interpretive parsimony, and predictive scope.

107 Parsimony- and codon model-based phylogenetic analysis o

108 Parsimony- and likelihood-based analyses of plastid rbcL

109 Using an empirical parsimony approach (AdaptML) we have investigated the di

110 Using a parsimony approach ancestral structural states could be

111 While a gene tree parsimony approach can be informative about genome evolu

112 By employing a maximum parsimony approach to compare repertoires of Pfam domain

113 ollections of gene trees using the gene tree parsimony approach.

114 oduce Cassiopeia-a suite of scalable maximum parsimony approaches for tree reconstruction.

115 Here we show that maximum parsimony approaches previously used to reconstruct evol

116 Gene tree parsimony approaches seek the evolutionary scenario that

117 If ancestral sequences predicted by parsimony are to be regarded as actual historical sequen

118 I present here a simple parsimony-based analysis that suggests that East Asians

119 In conclusion, ParsSNP uses an innovative, parsimony-based approach to prioritize cancer driver mut

120 e in the observed network data than a simple parsimony-based approach.

121 cy with metabolic gene functions compared to parsimony-based approaches.

122 The algorithm further uses Dollo parsimony-based comparison of the inferred ancestral gen

123 mum-likelihood estimation is three times the parsimony-based estimate, suggesting that parsimony-base

124 he parsimony-based estimate, suggesting that parsimony-based estimates are severe underestimates even

125 RNA metabolism system were reconstructed by parsimony-based evolutionary analysis of all relevant gr

126 ed more biologically relevant solutions than parsimony-based gap filling approaches.

127 s (a distance-based LWL85 model) and SNAP (a parsimony-based NG86 model) made pairwise comparisons of

128 Parsimony-based optimization of character states on our

129 In Bayesian and parsimony-based phylogenetic analyses, the majority of t

130 We develop a parsimony-based phylogenetic method for protein sequence

131 Distance- and parsimony-based phylogenetic trees are consistent and re

132 derm organogenesis demonstrated that maximum parsimony-based reconstruction of developmental trees re

133 Further, we devise efficient heuristics for parsimony-based reconstruction of phylogenetic networks.

134 Comprehensive phylogenetic analyses using parsimony, Bayesian inference, and maximum likelihood al

135 Phylogenetic analyses (parsimony, Bayesian, maximum likelihood) showed the clea

136 estral reconstruction, we recommend weighted parsimony because it has similar accuracy to maximum lik

137 om the whole-brain networks that may suggest parsimony between multiple accounts of cognitive control

138 Maximum parsimony can be considered nonparametric, because trees

139 The analysis demonstrates that parsimony can be misleading even when levels of sequence

140 The trees generated by parsimony confirmed the monophyletic taxonomic placement

141 ry advantage over current instruments is its parsimony, containing only 6 items.

142 f networks, "softwired" and "hardwired." The parsimony cost of hardwired networks is based on all cha

143 red, where each character follows the lowest parsimony cost tree displayed by the network, resulting

144 of the i.i.d. model to observed and expected parsimony counts, that is, from constant sites, to singl

145 nformation: hierarchical groups emerge via a parsimony criterion in nested cladistic analysis but mus

146 riation significantly outperform the maximum parsimony criterion in phenotypic accuracy.

147 e with a nonbinary species tree under a DTLI parsimony criterion.

148 itness to sequence evolution under a maximum parsimony criterion; and (4) evolutionary network recons

149 common methods of phylogeny reconstruction--parsimony, distance and maximum likelihood--differ in th

150 as true for phylogenetic reconstruction with parsimony, distance, and likelihood methods.

151 Parsimony, distance, and maximum-likelihood analyses of

152 methods of phylogenetic analysis, including parsimony, distance, likelihood and Bayesian methods.

153 Alternative methods - such as maximum parsimony - explicitly take the tree structure into acco

154 Maximum parsimony favored a lungfish/coelacanth or a lungfish/te

155 The preferred model (based on fit and parsimony) for predicting the odds of one or more deaths

156 ets and then reconciling the two trees under parsimony framework.

157 redict the states for Se-related traits in a parsimony framework.

158 We developed a method for maximum-parsimony haplotype frequency estimation from pooled DNA

159 By contrast, maximum parsimony has been shown to be accurate only when this r

160 ee, and that maximum likelihood and weighted parsimony have similar accuracy for reconstructing the a

161 oach (EMBP: Entropy Minimization and Boolean Parsimony) identifies sets of synergistically interactin

162 points) with the requirement of statistical parsimony (ie, the need to reduce the number of interpre

163 al how nature, despite being popular for its parsimony in recycling functional motifs, can use differ

164 of constant frequency afford us significant parsimony in the generation and testing of candidate ove

165 liation is typically performed using maximum parsimony, in which each evolutionary event type is assi

166 ls of sequence divergence are as low as 10%; parsimony incorrectly infers an excess of common to rare

167 m 16S rRNA gene sequences using distance and parsimony indicated that the CLB from proliferative gill

168 t is, from constant sites, to singletons, to parsimony informative characters of a minimum possible l

169 first inferring a full distribution of both parsimony-informative and non-informative pattern joint

170 om noncoding regions increased the number of parsimony-informative characters and lengthened short in

171 ascertainment bias, in that only varying, or parsimony-informative characters are observed.

172 rmative pattern joint probabilities from the parsimony-informative ones, using phylogenetic invariant

173 trategies based on identifying and retaining parsimony-informative sites provide a robust framework f

174 e sites, instead aims to identify and retain parsimony-informative sites, which are known to be phylo

175 However, it is known that parsimony is biased when the base composition of the DNA

176 Parsimony is commonly used to infer the direction of sub

177 um structural diversity from maximal genetic parsimony is conferred by a simple translational switch

178 tree and alignment estimation under Maximum Parsimony is known in combinatorial optimization as the

179 Maximum parsimony is one of the most commonly used criteria for

180 aches perform well most of the time, maximum parsimony is strongly biased towards recovering an incor

181 hanisms; and (ii) in a remarkable example of parsimony, loop L2 is a molecular switch that controls b

182 Maximum parsimony, maximum likelihood, and Bayesian analyses of

183 ing densely sampled phylogenies with Maximum Parsimony, Maximum Likelihood, and Bayesian approaches.

184 We report here (i) maximum parsimony, maximum likelihood, and Bayesian phylogenetic

185 Parsimony, maximum likelihood, and distance methods were

186 Data were analyzed using maximum parsimony, maximum likelihood, and neighbor joining.

187 e-evolution simulation program that compares parsimony, maximum likelihood, and the Bayesian methods

188 an inconsistency in the criterion of maximum parsimony-maximum parsimony trees for different groups o

189 Sequences were clustered by use of a parsimony method and the virological responses (ratio of

190 The performance of both variants of the parsimony method are competitive to the performance of t

191 The parsimony method has a very low rate of false positives

192 The parsimony method of Suzuki and Gojobori and the maximum

193 phylogenetic tree as inferred by the maximum parsimony method.

194 hylogenetic analyses which generally use the parsimony method.

195 a variant lineage determined by phylogenetic parsimony methods based on URR/E6 sequences.

196 methods of phylogenetic tree estimation and parsimony methods for genome rearrangements are central

197 analysis with maximum likelihood and maximum parsimony methods showed the sequence to be most closely

198 congruent dendrograms based on distance and parsimony methods suggested that the restriction fragmen

199 ) were analysed using maximum likelihood and parsimony methods to estimate asymmetries in rates of ch

200 top algorithms for this problem even though parsimony methods use less information than some of the

201 ce-based methods (such as neighbor-joining), parsimony methods using sequence-based encodings, Bayesi

202 Using parsimony methods, we reconstructed the putative chromos

203 -likelihood, Bayesian-inference, and maximum-parsimony methods.

204 For example, parsimony minimizes the number of mutations, which biase

205 results quantify the limitations of the Pure Parsimony model and demonstrate the imperative need to c

206 can isolates and 12 U.S. isolates by maximum-parsimony (MP) and maximum-likelihood (ML) analyses, wit

207 In the maximum parsimony (MP) and minimum evolution (ME) methods of phy

208 In the maximum parsimony (MP) method, the tree requiring the minimum nu

209 alysis using minimum evolution (ME), maximum parsimony (MP), and maximum likelihood (ML) algorithms s

210 e Bayesian, maximum likelihood (ML), maximum parsimony (MP), and neighbor-joining (NJ) methods with d

211 by two currently available methods (maximum-parsimony [MP] and maximum-likelihood [ML] methods) in a

212 also construct consensus maximum likelihood, parsimony, neighbor joining, and UPGMA-based trees using

213 sliding-window similarity measures; maximum-parsimony, neighbor-joining, and Bayesian phylogenetic a

214 Phylogenetic analyses employing maximum parsimony, neighbor-joining, and maximum likelihood meth

215 Phylogenetic trees constructed using maximum parsimony, neighbor-joining, Fitch-Margolish, or maximum

216 not observed for a key one-step clade in the parsimony network.

217 Parsimony networks constructed of haplotypes from both s

218 tudy demonstrates the utility of statistical parsimony networks for the detection of hybrids in the g

219 rticular, we show that our novel and robust 'parsimony' normalization method is superior to the widel

220 ork we prove that the problem of scoring the parsimony of a phylogenetic network is NP-hard and provi

221 ween malaria diagnostics and the utility and parsimony of employing a sample pooling strategy for mol

222 This article examines the parsimony of haplotypes using known haplotypes as well a

223 hich uses both transcriptomic abundances and parsimony of overall flux to identify the most cost-effe

224 odelling method may be selected based on the parsimony of predictors.

225 the basis of both data-fitting criteria and parsimony of the regulatory processes, ruling out biolog

226 In part, this is the parsimony of viruses, where a minimal number of proteins

227 cies in J, for example by the use of maximum parsimony on those four species alone.

228 hylogenetic networks to compete equally on a parsimony optimality basis.

229 uracy of the more elaborate methods based on parsimony or likelihood at a fraction of the computation

230 stematic biases resulted from (i) the use of parsimony or likelihood with SBR, (ii) the use of a stat

231 ived and ancestral states can be assigned by parsimony or on the basis of relative probability.

232 haracters at the tips using the criterion of parsimony over a set of bootstrap trees.

233 Maximum parsimony performs substantially better than current par

234 Maximum parsimony phylogenetic analyses, as well as Neighbor-Joi

235 are also easily incorporated into gene tree parsimony phylogenetic analyses, potentially producing m

236 used in both maximum likelihood and maximum parsimony phylogenetic analyses.

237 ed Bayesian, maximum likelihood, and maximum parsimony phylogenetic analyses.

238 rearrangement algorithm to improve gene tree parsimony phylogenetic analyses.

239 um likelihood, neighbor joining, and maximum parsimony phylogenetic comparisons show that the alpha-a

240 Analysis by maximum-parsimony phylogenetic methods revealed 25 nucleotide di

241 Maximum parsimony phylogenetic tree reconciliation is an importa

242 topology and degree of resolution of maximum-parsimony phylogenies as well as neighbor-joining phylog

243 form large-scale inferences of local maximum parsimony phylogenies from single nucleotide polymorphis

244 nomic scale, we develop a library of maximum parsimony phylogenies within local regions spanning all

245 These pathways are ranked using a parsimony principle, whereby scenarios requiring the few

246 This is equivalent to the Maximum Parsimony problem when the input sequences are not align

247 history graphs thus subsumes related maximum parsimony problems in the fields of phylogenetic reconst

248 ave models with good prediction accuracy and parsimony property.

249 trohelids as sisters to haptophytes, whereas parsimony puts them as sisters to red algae, but there i

250 In a tree that emphasizes cleavage parsimony, radial cleavage, regulative development, and

251 begins with a potentially infeasible maximum parsimony reconciliation and iteratively "repairs" it un

252 Maximum parsimony reconciliation in the duplication-transfer-los

253 Analyses using the maximum parsimony reconciliation tool CoRe-PA, indicate that hos

254 er, the common approach of inferring maximum parsimony reconciliations (MPRs) relies on user-defined

255 relationship between event costs and maximum parsimony reconciliations in the duplication-loss and du

256 oblem of finding temporally feasible maximum parsimony reconciliations is NP-complete, current method

257 ent algorithms are known for finding maximum parsimony reconciliations, the number of such reconcilia

258 r may even be contradicted, by other maximum parsimony reconciliations.

259 otentially vast and diverse space of maximum parsimony reconciliations.

260 hierarchical clustering the space of maximum parsimony reconciliations.

261 whereas filtered total mercury did not meet parsimony requirements.

262 not incompatible with, evolved design, while parsimony requires explanatory adequacy and predictive a

263 ne haplotypes, their prevalence, and maximum parsimony reticulate evolutionary structures can be iden

264 lasses is robust with respect to alternative parsimony rules for inferring the presence of precursor

265 s strong statistical support in favor of the parsimony scenarios of 10 major chromosomal rearrangemen

266 to report all sets of motifs with the lowest parsimony scores, calculated with respect to the phyloge

267 A similar strategy could be adopted with parsimony scores.

268 This fact suggests that parsimony should be enforced in estimation of haplotype

269 In the last two cases the parsimony solutions have very small probability.

270 were performed using both distance-based and parsimony strategies.

271 l shape characters may explain why published parsimony studies have diverged and filling three major

272 Parsimony suggests that increased growth and convolution

273 nzees' capacity for culture, a richness that parsimony suggests was shared with our common ancestor.

274 "phylometabolic" tree with a high degree of parsimony that traces the evolution of complete carbon-f

275 e trees, but with other distance methods and parsimony the sole amoebozoan species branches weakly wi

276 In the interest of parsimony, the present work employed parametric sensitiv

277 DoT was also assessed using maximum parsimony to infer ancestral node states for 100 bootstr

278 del complexity according to the Principle of Parsimony to prefer simpler models as the signal-to-nois

279 unconstrained DNA sequences, we used maximum parsimony to separate phylogenetic trees of a non-long t

280 compatibility is less sensitive than maximum parsimony to the inclusion of nucleotide data that, thou

281 netic analyses have turned away from maximum parsimony towards the probabilistic techniques of maximu

282 escribe major changes in the topology of the parsimony tree and provide names for new and rearranged

283 e species in S, then U need not be a maximum parsimony tree for the species in K.

284 Unfortunately, when T is a maximum parsimony tree for the species in S, then U need not be

285 The rooted parsimony tree of Rps2 sequences drawn from a diverse se

286 of each ND, and builds with these findings a parsimony tree of the genealogy of the NDs.

287 e Y Chromosome Consortium published a single parsimony tree showing the relationships among 153 haplo

288 mon method selects for such a tree a maximum parsimony tree using the genome of the species in S.

289 n the criterion of maximum parsimony-maximum parsimony trees for different groups of species may be "

290 synonymous SNPs was compared to the maximum parsimony trees inferred from pulsed-field gel electroph

291 The parsimony trees showed no branches correlating with the

292 construct phylogenetic trees via the maximum parsimony, Unweighted Pair Group Method with Arithmetic

293 This is a known problem with parsimony using outgroup species.

294 Models were evaluated for parsimony, using Akaike's Information Criterion.

295 t likely number of events is larger than the parsimony value.

296 cal aspects of genomic trees-e.g., comparing parsimony versus distance-based approaches and examining

297 Phylogenetic reconstructions by parsimony were carried out on an enlarged body of primat

298 inferring phylogenies make this assumption; parsimony, when valid, is less limited by it.

299 type configurations was constructed by using parsimony with a single-step mutation model.

300 rthropods to evolve an elegant semiochemical parsimony with which to exploit the biological milieu.