ライフサイエンスコーパス: shuffle

1 ackward speech and intermediate for sentence shuffle.

2 -forming sequences of Ac-MYD and Ac-VIE were shuffled.

3 atterning on phase behavior through sequence shuffling.

4 three PA-tolerant mutants obtained by genome shuffling.

5 tion mutagenesis, combined at random through shuffling.

6 ion model built on the theory of exon/domain shuffling.

7 o found to mediate intron retention and exon shuffling.

8 ical EGFD AspH substrates to avoid disulfide shuffling.

9 rase and transposase genes suggest past gene shuffling.

10 om a cellulase library created by family DNA shuffling.

11 in vitro recombination methods, such as DNA shuffling.

12 used in vitro DNA recombination method, DNA shuffling.

13 approach based on a technique known as codon shuffling.

14 reactivity and facilitates efficient proton shuffling.

15 ggesting its emergence as a result of domain shuffling.

16 enerating chimeras with hASNase1 through DNA shuffling.

17 R-retroposition as a novel mechanism of exon shuffling.

18 n diversification of gene function by genome shuffling.

19 ltiple rounds of cycling mutagenesis and DNA shuffling, a more efficient nuclease variant (Sharkey) w

20 tion-competent viral library composed of DNA-shuffled AAV capsids.

21 these M. digitata colonies and determine if shuffled abundances were preserved in gametes.

22 of the target bar in the array was randomly shuffled across trials so that it occasionally appeared

23 No shuffling algorithm that simultaneously preserves these

24 We present here a random shuffling algorithm, Multiperm, that preserves not only

25 Using codon-shuffling algorithms that preserve amino acid sequence,

26 free energy closer to native sequences than shuffled alignments that do not preserve dinucleotide fr

27 are codons from these genes and attempted to shuffle all remaining codons.

28 onstrate that there exists an unusual atomic shuffling along the tilt axis, which greatly assists SCM

29 biting small molecules, an aS variant termed shuffled alpha-synuclein (SaS), wherein the first six ps

30 pendent "reentry" mechanism that allows CFTR shuffling among different open states by undergoing mult

31 Protecting group shuffle and oxidation of the primary alcohol enabled the

32 tones at best frequency, and by constructing shuffled and cross-stimulus autocorrelograms, and revers

33 e used a method that combined antibody chain shuffling and a staggered-extension process to produce u

34 like a and a' domains mediate disulfide bond shuffling and b and b' domains are substrate binding.

35 , we introduce a new method termed consensus shuffling and demonstrate its use to significantly reduc

36 s show a modular organization with extensive shuffling and displacement of the constituent domains; h

37 t PRRSV strains were molecularly bred by DNA shuffling and iteration of the process, and the shuffled

38 DNA shuffling and other in vitro recombination strategies ha

39 racellular receptor domains by in vitro exon shuffling and phage display, generating multidomain prot

40 altered by stochastic mutations based on DNA shuffling and rationally tailored by structure-based red

41 of flagellar genes have undergone extensive shuffling and rearrangement among lineages, and based on

42 ity to change sequence specificity by domain shuffling and rearrangements.

43 bstrate) were evolved in seven rounds of DNA shuffling and screening.

44 ased avidity via a series of constant region shuffling and subdomain swapping approaches to create im

45 Our study validates DNA family shuffling and viral peptide display as two powerful and

46 ly because this domain may undergo disulfide shuffling and/or conformational changes during handling.

47 to that of their mutants, their dinucleotide shuffles, and their reverse complement sequences under d

48 zymes resulting from random mutagenesis, DNA shuffling, and combinatorial saturation mutagenesis were

49 air may play a role in genetic disease, exon shuffling, and mammalian evolution.

50 f error-prone polymerase chain reaction, DNA shuffling, and multiple-site-directed mutagenesis to aff

51 ns revealed that loop length diversity, loop shuffling, and recursive mutagenesis of diverse populati

52 rn in a de novo fashion, to detect disulfide shuffling, and to provide information on heterogeneity,

53 recognition, confirming the validity of the shuffling approach.

54 Our CODNS (cross-over optimization for DNA shuffling) approach employs polynomial-time dynamic prog

55 CD277 knockdown and domain-shuffling approaches confirm the key implication of the

56 s of Ure2p with the prion domain amino acids shuffled are still able to form prions.

57 ers vector, and possible accompanying atomic shuffles, are extracted.

58 We propose complementation by codon shuffling as a means to produce replication-defective or

59 n generated by recombination-mediated domain shuffling between ppzA-1 and ppzA-2, resulting in the pp

60 icking itinerary characterized by continuous shuffling between the plasma membrane and the Rab11 recy

61 nce for the evolution of proteins via domain shuffling, but literature in the field has so far strugg

62 genetic barcode cassette whose fragments are shuffled by Rci, a site-specific DNA invertase.

63 Domain duplication and shuffling by recombination are probably the most importa

64 Molecular breeding via DNA shuffling can direct the evolution of viruses with desir

65 Results indicate that shuffling can occur in a canonically 'stable' symbiosis,

66 A second stage of disulfide shuffling catalyzed by isomerase converts X-Hir to the n

67 bridges was expressed in specialised E. coli SHuffle cells and its activity has been confirmed throug

68 ss-neutralization test revealed that the GP4-shuffled chimera GP4TS14 induced significantly higher cr

69 s FL-12 and NADC20, and similarly that the M-shuffled chimera MTS57 also induced significantly higher

70 Three GP4-shuffled chimeras and five M-shuffled chimeras, each rep

71 Three GP4-shuffled chimeras and five M-shuffled chimeras, each representing sequences from all

72 Yet, genomes are more than ever-shuffling collections of genes.

73 HeV G, was affinity maturated by light-chain shuffling combined with random mutagenesis of its heavy-

74 d to the lifetime of an adult coral and that shuffled communities are inherited across generations in

75 heir thermal tolerance, but it is unclear if shuffled communities are transferred to offspring.

76 canonically 'stable' symbiosis, and that the shuffled community is heritable.

77 A century of climate change significantly shuffles community composition by a basin-wide median va

78 networks that were constrained with randomly shuffled constraints.

79 It was absent in phase-shuffled controls with the same power spectrum or empty

80 sely, when b/c </= k or players are randomly shuffled, cooperation decays.

81 In addition, two iterations of consensus shuffling corrected a population of GFPuv clones where a

82 idal gratings and flashed bars, and computed shuffle-corrected cross-correlograms (CCGs) of spike tra

83 eously recorded neurons were evaluated using shuffle-corrected cross-correlograms.

84 We therefore devised a shuffled correlation procedure to quantify how periodici

85 s were compared to surrogate images of phase shuffled data across patients to reveal clusters of sign

86 ed lower approximate entropy values than the shuffled data, suggesting a temporal organization in the

87 , removing spike count correlations by trial shuffling did not impact decoding performance or bias.

88 es is an irreversible event where subsequent shuffling does not occur, i.e. HA oligosaccharides from

89 Tube growth, eruption, and shuffling droplets are subsequently observed, depending

90 the alleles at two randomly chosen loci are shuffled during gamete production.

91 heir genes has allowed extensive exon/domain shuffling during evolution to generate hundreds of ECM p

92 Surprisingly, shuffling either prion domain, leaving amino acid conten

93 on shuffling-like process, which we call MDS shuffling, enables ciliates to generate novel genetic ma

94 ilies and compared this overlap to uniformly shuffled enhancers.

95 ation trials performed on three WT and eight shuffled enzymes revealed two variants that crystallized

96 e assays, and two potential L1-mediated exon shuffling events have been identified in the genome.

97 e, while have undergone different degrees of shuffling events in other investigated cucurbit genomes.

98 Here we show that two gene shuffling events led to two independent acquisitions of

99 and gene duplication and triplication, exon shuffling, exon accretion, and fusion/fission events.

100 As one benchmark, we show that it produces shuffled exonic sequences having folding free energy clo

101 Through in vivo plasmid shuffle experiments, we show that the major characterist

102 The shuffling experiments demonstrate that promiscuous pairi

103 Using domain shuffling experiments, we present evidence showing that

104 Recombination within genes shuffled flanking retrotransposon clusters, creating new

105 d metazoans, suggesting that abundant domain shuffling followed the separation of the choanoflagellat

106 r homeologous regions derived from segmental shuffling following polyploid formation.

107 lus licheniformis that was optimized by gene shuffling for acetylation of the broad spectrum herbicid

108 a source of natural diversity, we used gene shuffling for library generation and screened for novel

109 To bridge this gap, we invented Megaprimer Shuffling for Tandem Affinity Reagents (MegaSTAR) to ide

110 source-intensive and more effective than DNA shuffling for this particular evolutionary pathway.

111 In this scheme, the grouping method of the shuffled frog leaping algorithm (SFLA) is incorporated w

112 vities of JGW evolved extensively after exon-shuffling from a preexisting enzyme.

113 The effects of proton shuffling from Asp82 to Glu78 and from Glu32 to Asp82 ar

114 eover, traditional measures fail to consider shuffling from independent assortment of homologous chro

115 ations rather than merely reduced acyl group shuffling from PC in the mutant.

116 halus and MASA (Mental retardation, Aphasia, Shuffling gait, Adducted thumbs) syndrome.

117 ing such as spontaneous unilateral rotation, shuffling gait, and stereotypy.

118 several mechanisms of origin including exon shuffling, gene fission/fusion, retrotransposition, dupl

119 DNA shuffling generates combinatorial libraries of chimeric

120 ffling and iteration of the process, and the shuffled genes were cloned into the backbone of a DNA-la

121 Crossovers (COs) shuffle genetic information and allow balanced segregati

122 Meiotic recombination shuffles genetic variation and promotes correct segregat

123 c crossovers (COs) have two important roles, shuffling genetic information and ensuring proper chromo

124 g gametes, and promotes genetic diversity by shuffling genetic material between parental chromosomes.

125 The shuffled GP4 and M genes libraries were each cloned into

126 representative chimeric viruses, DS722 with shuffled GP5 genes and DS5M3 with shuffled GP5-M genes,

127 DS722 with shuffled GP5 genes and DS5M3 with shuffled GP5-M genes, were rescued and shown to replicat

128 ompare this distance against 10,000 randomly shuffled groups made up of the same participants.

129 While DNA shuffling has been applied quite successfully, it is lim

130 roaches to solve this problem based on codon-shuffling have been limited to exploring only an infinit

131 ificity and that gene duplication and domain shuffling have resulted in diversification of secondary

132 tagenesis, site-directed mutagenesis and DNA shuffling, have been widely used to generate variants of

133 ) HA is a reversible event whereby TSG-6 can shuffle HCs from one HA molecule to another.

134 des can be used, with TSG-6, to irreversibly shuffle HCs from pathological, HMW HC-HA to HA oligosacc

135 nsfer in the context of the proposed "domain shuffle hypothesis" for intraprotein electron transfer i

136 Constant region shuffling identified a major CH3 and a minor CH2 contrib

137 DNA shuffling identified the beneficial NagAc mutation G407S

138 The regrading of the shuffled image set was performed by 3 graders, 3 weeks l

139 h is best explained by the two motor domains shuffling in an alternating manner between rear and forw

140 As a result of disulfide shuffling in its terminal domains, hPDI exists in two ox

141 y offspring and supports the hypothesis that shuffling in microbial communities may serve as a mechan

142 protein and can lead to quirks such as some shuffling in the order of the normal modes when applied

143 DsbD provides reducing power to DsbC that shuffles incorrect disulfide bond in misfolded proteins

144 abundance of domains in the proteome, domain shuffling increases versatility, i.e. the number of dist

145 each location, however, the dominant variant shuffles independently in each module.

146 Light chain shuffling indicated that non-stochastically paired L cha

147 Surprisingly, we also show that shuffling individual disease histories only marginally d

148 Permutations are performed by shuffling individual IDs of the genotype vector for this

149 ter the shears, and the excess reverse shear-shuffling induced gamma necks in the epsilon martensite

150 alue of 1/2 and that (ii) this high level of shuffling is due almost entirely to independent assortme

151 uggests that de novo recruitment rather than shuffling is the major route by which exons are added to

152 tography indicated the presence of disulfide shuffled isomers, containing the non-native 61-73 disulf

153 Transforming BW5Delta with the shuffling libraries allowed for the identification of se

154 y stringent selections from these new "chain-shuffled" libraries.

155 This suggests that an exon shuffling-like process, which we call MDS shuffling, ena

156 Although recombinant viruses bearing the shuffled M2-2 gene were recovered and expressed higher l

157 autonomous and suggest that genomic enhancer shuffling may have contributed to the evolution of compl

158 d, and the results indicate that such proton shuffling may not play an important role in the stabiliz

159 ucleation of fcc-Ti is accomplished via pure-shuffle mechanism with a minimum stable thickness of thr

160 in-binding protein formed by an unusual exon-shuffling mechanism in hominoid primates and represents

161 Tetrahymena species have used a massive exon-shuffling mechanism, involving unequal crossing over pos

162 ugh gliding two-layer disconnections or pure-shuffle mechanisms through gliding four-layer disconnect

163 hree atomic layers, and the growth via shear-shuffle mechanisms through gliding two-layer disconnecti

164 ons, and thus the possible mechanism of gene shuffling mediated by this type of mobile element.

165 We used a novel gene shuffling method called synthetic template shuffling to

166 We present an overhang-based DNA block shuffling method to create a customized random DNA libra

167 network provides evidence for a conformation shuffling model, in which exchange between rotamer state

168 flexibility of ZFN design and the ability to shuffle monomers of different ZFNs for the digestion of

169 inversion as a molecular mechanism that may shuffle more distant genes into the cluster, so enabling

170 e at a local minimum compared with surrogate shuffled networks.

171 s (NS) than from Gaussian white-noise (GWN), shuffled-NS or Gaussian-1/f stimuli; integrating larger

172 strains, whose major recombination effect is shuffling of a relatively conserved set of amino acid mo

173 s (AJs), intracellular formation and nuclear shuffling of beta-catenin/MUC1-CT complexes, and, ultima

174 Shuffling of binding sites has been suggested to lie beh

175 lify them by PCR, which avoids unintentional shuffling of complementary determining regions.

176 to the evolution of new proteins through the shuffling of conserved protein domains.

177 ing and assembly by catalyzing formation and shuffling of cysteine disulfide bonds in the endoplasmic

178 terest, production of potential biofuels and shuffling of disease-resistance traits between crop spec

179 a thiol catalyst in promoting the disulfide shuffling of diverse non-native intermediates accumulate

180 Four rounds of random mutagenesis and DNA shuffling of Drosophila melanogaster 2'-deoxynucleoside

181 We show that shuffling of existing enhancer elements both within and

182 iversification, gene repertoire changes, and shuffling of expression domains.

183 tion as a result of insertions, deletions or shuffling of fragments of underlying gene sequences, and

184 the complex multidomain architecture and the shuffling of functional domains in many protein families

185 tric inversions, thereby contributing to the shuffling of gene order in the D. pseudoobscura lineage.

186 n vitro and in vivo, indicating that the DNA shuffling of GP4 and M genes did not significantly impai

187 II, which is controlled through the cyclical shuffling of Hg(2+) ions between the solution phase and

188 es, Rad51 and Dmc1, catalyze the pairing and shuffling of homologous DNA sequences in eukaryotic cell

189 C transposons to mediate the duplication and shuffling of host genes in bacteria and maize, it is tem

190 A cell-cycle-dependent shuffling of multiple centromeric units results in the f

191 s as well as homologous recombination-driven shuffling of mutagenized loops.

192 DNA shuffling of NDO nagAcAd also generated the NagAc varian

193 ngineered proteins suggested that fusion and shuffling of OB folds can lead to well-folded polypeptid

194 Systematic shuffling of polymorphic sites between Gpa2 and Rx1 show

195 ge to the circuit diagram resulting from the shuffling of synaptic partners.

196 omolog of kinesin-3 KIF1A known for its fast shuffling of synaptic vesicle protein transport vesicles

197 esponding distributions, arising from random shuffling of the charged side chains.

198 ween the different populations must take the shuffling of the genomic segments into account.

199 study we molecularly bred PRRSV through DNA shuffling of the GP4 and M genes, separately, from six g

200 The results suggest that DNA shuffling of the GP4 or M genes from different parental

201 Here, random mutagenesis and DNA shuffling of the single-chain variable fragment of the n

202 Hence, acclimatory changes like shuffling of the Symbiodiniaceae community are not limit

203 the virus was achieved in this study by DNA shuffling of the viral envelope genes from multiple stra

204 design for new sequence targets via modular shuffling of these units.

205 hineries was interlinked by the simultaneous shuffling of two components (metal and ligand) requiring

206 alyses demonstrated these classes arose from shuffling of two different subdomains within the Ag43 pa

207 study reveals a unique approach through DNA shuffling of viral envelope genes to attenuate a positiv

208 ble-strand breaks have been shown to enable "shuffling" of antigen-encoding gene sequences to vastly

209 r rates of gene gain and loss, elevated gene shuffling on the X chromosome, and more intron losses, r

210 hGSTT1-1 constructed by error-prone PCR, DNA shuffling, or saturation mutagenesis were screened for i

211 en phenotypes and variation generated by DNA shuffling paralleled natural variation observed between

212 Meiotic crossovers shuffle parental genetic information, providing novel co

213 as Lagrangian coherent structures (LCSs) may shuffle plant pathogens along highways in the sky.

214 value close to the 50% expected from a fully shuffled population.

215 L1 exon shuffling potential has been reported in cell culture as

216 nd sequenced the year before to characterize shuffling potential in these M. digitata colonies and de

217 splay vector pC3C followed by a tandem chain shuffling process designed for minimal deviation from na

218 l, this reaction is achieved via a molecular shuffling process involving an alkyne, an alpha,beta-uns

219 mmunoprecipitation can be generated by chain shuffling, providing a scalable approach to mapping prot

220 ve been subject to Post-transcriptional exon shuffling (PTES), have an exon order inconsistent with t

221 -fold overrepresented compared with a window-shuffled random model.

222 ificance level] is tested against a randomly shuffled rank order list) to derive an integrative trans

223 e intergenic, or generated synthetically by 'shuffling' real sequences.

224 inter-spike interval sequences with that of shuffled representations of the same data.

225 t physically indistinguishable from randomly shuffled RNAs.

226 onent Analysis (CHPCA) and Rotational Random Shuffling (RRS).

227 Complementation with codon-shuffled RTA constructs did not yield any WT revertant v

228 s (ScFvs) representing the original Fabs and shuffled ScFvs in which heavy chains were recombined wit

229 we used sound quilts, stimuli constructed by shuffling segments of a natural sound, approximately pre

230 i (e.g., movies/narrative), intermediate for shuffled sentences, lowest for time varying complex nois

231 utation test should be used, with phenotypes shuffled separately within the genotyped and ungenotyped

232 Indeed, a single shuffled sequence could give rise to several prion varia

233 ovided evidence that extensive recombination shuffles sequence motifs sufficiently to evade CRISPR sp

234 Randomly shuffled sequences are routinely used in sequence analys

235 The shuffled sequences were computationally predicted to hav

236 re for all 13 tested ncRNA sets, compared to shuffled sequences.

237 ignificance thresholds being calculated from shuffled sequences.

238 , we recently used offset recombinant PCR to shuffle seven artificially constructed representatives o

239 chnique, known as offset recombinant PCR, to shuffle seven homologues that encode a broad range of na

240 Consensus shuffling should facilitate the rapid and accurate synth

241 me sequence variability and extensive domain shuffling, signal transduction proteins are difficult to

242 These partially folded, disulfide shuffled species are largely responsible for the pronoun

243 that Y131, one of the yeast histone H2A/H2B shuffle strains widely used for the last decade in the f

244 nificantly differed between the parental and shuffled strains.

245 Using a plasmid-shuffling strategy in haploid Saccharomyces cerevisiae,

246 sequences that are composed of repeated and shuffled subsequences.

247 e duplication-divergence hypothesis and exon shuffling, suggesting an important role in both genome a

248 ta indicate the same conclusion for a single shuffled Sup35 prion domain.

249 r knowledge, this is the first evidence that shuffled Symbiodiniaceae communities (at both the inter-

250 Here we describe a facile plasmid-chromosome shuffling technique for generating and analyzing non-del

251 ineering by conventional, homology-dependent shuffling techniques.

252 atural AAV isolates by an adapted DNA family shuffling technology to create a complex library of hybr

253 is under elevated temperatures, we used gene shuffling technology to generate several Arabidopsis tha

254 oward the middle of a chromosome causes more shuffling than a crossover toward the tip.

255 genome that has undergone less gene loss and shuffling than previously sequenced arthropods, and many

256 we present a rigorous measure of genome-wide shuffling that does not suffer from these limitations.

257 on evaluation of the total amount of genetic shuffling that occurs during gamete production.

258 protein engineer with a new approach to DNA shuffling that supports substantially more diverse paren

259 ns inactivate genes by direct disruption and shuffle the genome through recombination, they can also

260 However, new approaches are coming online to shuffle the genomes of otherwise incompatible species.

261 s CO (a reversible inhibitor of the enzyme), shuffle the intrinsic CO ligands, and even destroy the H

262 Some coral species may shuffle the proportions of Symbiodiniaceae within their

263 utilizing an in vitro selection process that shuffles the order of deoxy- and ribonucleotides in each

264 hiPSCs, we show that, although the inversion shuffles the TFAP2A hNCC enhancers with novel genes with

265 recombination has not played a large role in shuffling the bfpA and perA loci between separate EAF pl

266 m library of adeno-associated virus (AAV) by shuffling the capsid genes of AAV serotypes 1 to 9, and

267 thways in different Brassicaceae lineages by shuffling the genes encoding a core palette of triterpen

268 t may also destroy high-fitness genotypes by shuffling the genes of a fit parent with a genetically d

269 versions serve as the dominant mechanism for shuffling the order of genes along a chromosome.

270 nts blend, either by synthetic manipulation (shuffling the organic cations or inorganic elements) or

271 The device operates by shuffling the smallest cation, the proton, in a three-te

272 tly increased phase separation propensity by shuffling the wild-type sequence, which contains well-mi

273 These results suggest that, more than merely shuffling their spatial code following threat exposure,

274 n the same slit-dependent shape slivers were shuffled, thereby preventing their spatiotemporal integr

275 ptive morphological variation was created by shuffling these cis-regulatory modules through recombina

276 By exon shuffling, this mechanism leads to the production of bis

277 he Vibrio cholera vibriobactin cluster, were shuffled to produce a new siderophore biosynthetic pathw

278 We used DNA shuffling to explore and confirm the hypothesis that one

279 efficient methods to extend the scope of DNA shuffling to handle significantly more diverse parents a

280 e shuffling method called synthetic template shuffling to introduce 62 differentially conserved amino

281 Using DNA shuffling to introduce functional sequence variability i

282 agments that can be readily interchanged or "shuffled" to produce subtly different variants with dist

283 In many cases, biologists need sophisticated shuffling tools that preserve not only the counts of dis

284 After shuffling trials, destroying noise correlations, informa

285 These include gene shuffling, truncation of the cytoplasmic tail of the G p

286 e/Propagate/Terminate, Fragment-Based Domain Shuffling, Two-Directional Synthesis, and Successive Rin

287 We demonstrate that two shuffled Ure2 prion domains capable of being prions form

288 oreover, recombination between genotypes may shuffle variable loci into various combinations with unk

289 minal 86 amino acids fused to an insensitive shuffled variant of maize (Zea mays) 4-hydroxyphenylpyru

290 vie clips, an auditory narrative, a sentence shuffled version of the narrative (maintaining language

291 Plasmid shuffling was used for ectopic expression of altered b s

292 re whether there might be limits to such DNA shuffling, we have mapped the termini of mitochondrial m

293 Using DNA shuffling, we isolated specific amino acids combinations

294 an explicit water molecule to mediate proton shuffling were significantly more successful, with rate

295 ditionally, newer tools such as Whole Genome Shuffling (WGS), Scalar Analysis of Library Enrichments

296 ommunity appears poised for marked shift and shuffle, which may have broad effects on food webs and b

297 These expansions are accompanied by domain shuffling, which suggests roles for pseudokinases in pla

298 information benefit from refinements such as shuffling, while being highly efficient.

299 The Pto gene was shuffled with four of its paralogs from a resistant hapl

300 A single round of DNA back-shuffling with wild-type aspartate aminotransferase on t