ライフサイエンスコーパス: permute

1 d PERMutation Using Transposase Engineering (PERMUTE).

2 (CE4s) with the canonical motifs circularly permuted.

3 mong peptides where amino-acids are randomly permuted.

4 contains the open reading frame (ORF) being permuted.

5 The linear, circularly permuted, 196,280-bp double-stranded DNA genome of S-PM2

6 First, circularly permuting 3' of the template causes specific defects in

7 tility, we use the telomerator to circularly permute a synthetic yeast chromosome originally construc

8 We show that these semisynthetic, circularly permuted acetylated proteins retain high affinity for an

9 nce associations explained these findings, a permuted analysis was conducted, the results of which su

10 s of virion DNA showed that it is circularly permuted and about 10% terminally redundant and that ini

11 uridine (U51) in the P4 helix of circularly permuted Bacillus subtilis P RNA with 4-thiouridine, 4-d

12 s formed by the two homologs with circularly permuted binding sites showed significant dynamic differ

13 omly assigned by a computerised, stratified, permuted block algorithm to receive a once-daily tablet

14 e were randomly allocated by a computerised, permuted block algorithm, stratified by age group and ce

15 tatus (0 vs 1) were randomly assigned with a permuted block allocation scheme via a web response syst

16 tervention or no intervention groups using a permuted block approach stratified by centre.

17 ractive voice and web response system with a permuted block design (block size of four), to receive a

18 Randomisation was based on a randomly permuted block design (block sizes 2 and 4), stratified

19 gestational age at randomisation day with a permuted block design (block sizes 4 and 8).

20 eb-based system, in a 1:1 ratio, with random permuted block design [block size 2, 4, or 6], stratifie

21 s were randomly assigned (1:1) with a random permuted block design to either daily oral estriol (8 mg

22 The randomisation schedule used a randomly permuted block design with block sizes 2 and 4, stratifi

23 ntral interactive web response system with a permuted block design with four patients per block to re

24 and opioid use severity and used a web-based permuted block design with random equally weighted block

25 The randomisation code (permuted block design) was computer generated and strati

26 ned (2:1) to intervention or control using a permuted block design, stratified by age (<10 years and

27 on schedule, stratified by centre and with a permuted block design, to receive either latanoprost 0.0

28 ial of 61 adolescent girls with PTSD using a permuted block design.

29 -generated randomisation lists with randomly permuted block lengths stratified by centre.

30 and patients were randomly assigned using a permuted block method (block size of four) in a 1:1 rati

31 located (1:1) by a computer-generated random permuted block method (block sizes 4-8) to either 5 year

32 articipants were randomized using a randomly permuted block method stratified by baseline 6-minute wa

33 an interactive voice response system by the permuted block method using block size 4 to ipilimumab 1

34 by an independent randomisation team by the permuted block method with a fixed block size of 16.

35 l region and ECOG performance status, with a permuted block method) to receive panitumumab (6 mg/kg o

36 and cause of liver disease with a stratified permuted block method.

37 Randomisation was done with use of the permuted block methods (block size of 15 patients) and F

38 gh a central interactive voice system with a permuted block procedure stratified by disease status, a

39 ed (1:1) eligible patients, using a randomly permuted block procedure with variable block sizes and d

40 Randomisation was done with a permuted block procedure, stratified on the basis of typ

41 gned with a computer-generated sequence with permuted block randomisation (1:1) using a centralised i

42 icipants were randomly assigned by web-based permuted block randomisation (block size 4) in a 1:1:1:1

43 randomly assigned 1:1 by computer-generated permuted block randomisation (block size four) list to r

44 mg or docetaxel 75 mg/m(2) every 3 weeks by permuted block randomisation (block size of eight) via a

45 and height were randomly assigned (1:1), via permuted block randomisation (block size of four) using

46 ndomly assigned (1:1) via computer-generated permuted block randomisation (block size of four), with

47 misation with sequence generation defined by permuted block randomisation (block size two) was used t

48 Permuted block randomisation (size four) was done with a

49 The infants were randomly assigned by permuted block randomisation (through the use of a compu

50 s of therapy, and randomly assigned (1:1) by permuted block randomisation (with a block size of four)

51 Permuted block randomisation (with variable block size)

52 teractive voice and web response system with permuted block randomisation in blocks of six to receive

53 al biostatistician used a computer-generated permuted block randomisation method, stratified by treat

54 Randomisation was done with permuted block randomisation methods, stratified by radi

55 domisation centre, with a central stratified permuted block randomisation procedure.

56 n via an interactive response system under a permuted block randomisation scheme (block size of four)

57 an interactive voice-response system with a permuted block randomisation scheme (block size of ten),

58 every 21 days) or physician's choice using a permuted block randomisation scheme by an interactive vo

59 assignment was made via computer-generated, permuted block randomisation stratified by antiretrovira

60 assigned 104 patients by computer-generated, permuted block randomisation to early exercise and mobil

61 Participants were randomly assigned (1:1) by permuted block randomisation to receive either maraviroc

62 were randomly assigned by computer-generated permuted block randomisation to receive FEC (fluorouraci

63 ndomly assigned (1:1) via computer-generated permuted block randomisation to rifampicin 300 mg twice

64 Permuted block randomisation was done with a block size

65 Permuted block randomisation was done with an interactiv

66 Computer-generated permuted block randomisation was used, with a block size

67 immunomodulatory drugs (yes or no), and used permuted block randomisation with a block size of four.

68 ns) or no radiotherapy by computer-generated permuted block randomisation, stratified by centre, with

69 A permuted block randomisation, stratified by geographic r

70 r delayed antiretroviral treatment by use of permuted block randomisation, stratified by site.

71 We used permuted block randomisation, stratified by world region

72 Randomisation was done by computer-generated permuted block randomisation, with a block size of six.

73 either lenalidomide or placebo groups using permuted block randomisation, with a fixed block size of

74 tion was concealed by blinded block size and permuted block randomisation.

75 year in a 1:1 ratio using computer-generated permuted block randomisation.

76 al treatment group was by computer-generated permuted block randomisation.

77 A permuted block randomised design was adopted for both ra

78 We used a computer-generated permuted block randomization sequence for treatment allo

79 ent interactive voice response system with a permuted block schedule (block size four) without strati

80 an interactive voice response system with a permuted block schedule (block size of six) and stratifi

81 stratum, then randomly assigned (1:1) via a permuted block schedule (size ten), to receive intermitt

82 based system and computer-generated randomly permuted block schedule stratified by whether treatment

83 Randomisation was stratified with a permuted block scheme by region, previous eribulin, and

84 placebo for 45 days, in a 1:1 ratio, with a permuted block size of 10.

85 s achieved by randomly generated codes, with permuted block size of 30, and was stratified by study s

86 ter-generated randomisation sequence (random permuted block size of 6, without stratification or matc

87 (by an independent nurse, in 1:1 ratio, with permuted block size of four and six, using a centralised

88 em, we randomly assigned (2:1) patients in a permuted block size of six to receive lenalidomide (25 m

89 core and previous anticancer therapy, with a permuted block size of six.

90 concealed randomisation schedules, each with permuted block sizes of 4, were used for randomisation,

91 modulators only vs both therapies), and used permuted block sizes of four and institutional balancing

92 ssigned (1:1), by a computerised system with permuted block sizes of four or six, to receive cognitiv

93 erised programme to randomly assign women in permuted block sizes of four, with groups stratified by

94 ndomisation was done with computer-generated permuted block sizes of six and nine, stratified by cent

95 according to a block randomisation schedule (permuted block sizes of six or ten).

96 alone, stratified by country and clinic, in permuted block sizes of ten.

97 Randomisation was done with permuted block sizes of two, four, and six, and was stra

98 ned (1:1, stratified by centre with randomly permuted block sizes) 451 patients with recent transient

99 g-on and drug-off conditions in a randomized permuted block study to assess the accuracy of diagnosti

100 ital (MGH) Clinical Research Pharmacy with a permuted-block algorithm, stratified by sex with a fixed

101 ystem and a centralised, computer-generated, permuted-block design of block size six.

102 icipants were randomly assigned (1:1:1), via permuted-block randomisation (block size of six) impleme

103 her randomised (2:1), via computer-generated permuted-block randomisation (block size of six), to rec

104 mly assigned (1:1:1), via computer-generated permuted-block randomisation (block sizes of three, six,

105 y Ionis Biometrics or external vendor with a permuted-block randomisation method.

106 ation and Medication Ordering System) with a permuted-block randomisation schedule (block size of thr

107 We used computer-based permuted-block randomisation with block sizes of four, s

108 Many multicenter clinical trials use permuted-block randomization to create balanced treatmen

109 d the randomisation on a computer-generated, permuted-block schedule stratified by use of methotrexat

110 were randomly assigned (1:1) centrally using permuted blocks (block size 8) to receive cabazitaxel pl

111 ), via computer-generated randomisation with permuted blocks (block size of five), to receive either

112 Randomisation was by stratified permuted blocks (block size of four) using an interactiv

113 We used permuted blocks (block size of six) within each stratum.

114 py or supportive counselling with randomised permuted blocks (block size randomly varying between two

115 tified by ulcer duration and ulcer area with permuted blocks (block sizes four and six).

116 Computer-generated random permuted blocks (mixed sizes of six and nine) were used

117 ), via computer-generated randomisation with permuted blocks (sizes of four to six), to receive socia

118 tician-generated allocation sequence using a permuted blocks algorithm (block size of 4), stratified

119 ndomisation lists were generated with random permuted blocks and stratified by centre and extent of i

120 Randomisation was by computer-generated permuted blocks and was stratified by centre and tumour

121 Randomisation was balanced using permuted blocks and was stratified by country, gender, a

122 al, participants were randomly assigned with permuted blocks in a 1:1 ratio to davunetide (30 mg twic

123 treatment, and assignments were generated by permuted blocks in the institutional database.

124 one with computer-generated randomisation in permuted blocks of 20, stratified by centre and age youn

125 y a computerised randomisation sequence with permuted blocks of 3.

126 Patients were randomly assigned in permuted blocks of eight and stratified by hospital to r

127 tion was done by computer-generated list, in permuted blocks of five houses in the ratio 2:2:1.

128 e used a telephone randomisation method with permuted blocks of four generated by a computer.

129 mly assigned (1:1), using web-based randomly permuted blocks of four, to receive insulin via the day-

130 latin-containing chemotherapy regimen, using permuted blocks of four.

131 sing a random number generator program, with permuted blocks of random size, stratified by location [

132 Women were randomised, by permuted blocks of randomly mixed sizes, either to daily

133 rednisolone (0.5 mg/kg per day) using random permuted blocks of randomly varying size, and stratified

134 Randomisation was computer generated in permuted blocks of six and was stratified by study site.

135 oversion, patients were randomly assigned in permuted blocks of six per centre to: no antiarrhythmic

136 ndomly assigned (2:1), by computer-generated permuted blocks of six with an interactive voice or web

137 Randomisation was computer generated, with permuted blocks of size eight, and stratified by CD4 cou

138 er-based randomisation was done using random permuted blocks of size two or four for each site to pre

139 bility by means of computer-generated random permuted blocks of sizes 3 and 6 in equal proportion.

140 a computer-generated randomisation list with permuted blocks of ten at each clinic.

141 s using open woodfires (n=265), by concealed permuted blocks of ten homes.

142 ts were randomly assigned (1:1), in randomly permuted blocks of ten, to either cholecalciferol 1000 I

143 ied by site, and was computer-generated with permuted blocks of three patients per block.

144 nger since illness onset were generated with permuted blocks of variable length between two and eight

145 signed, stratifying by site based on random, permuted blocks of variable size.

146 ere stratified by hospital and randomized in permuted blocks of variable size.

147 Randomisation was stratified, using random permuted blocks of variable sizes.

148 Randomisation was with permuted blocks of varying size and stratified by centre

149 ter-generated pseudo-random code with random permuted blocks of varying sizes of two, four, or six to

150 9:1 in a double-blind fashion using randomly permuted blocks of varying sizes to a single injection o

151 Patients were allocated to treatment using a permuted blocks randomisation scheme (block size of four

152 Treatment allocation was by stratified, permuted blocks randomisation, with four stratification

153 A permuted blocks randomised design (block size four) was

154 otherapy plus bevacizumab), centrally, using permuted blocks sizes and stratified by chemotherapy reg

155 le patients were randomly assigned (1:1) via permuted blocks stratified according to hormone receptor

156 ing computer-generated sequences of randomly permuted blocks stratified by center to receive either E

157 ing computer-generated sequences of randomly permuted blocks stratified by centre to receive either E

158 he randomisation sequence was generated with permuted blocks stratified by hormone receptor status (h

159 Randomisation was by permuted blocks stratified by length of first remission

160 icipants were randomized using site-specific permuted blocks stratified by major depression into grou

161 n was done centrally with computer-generated permuted blocks stratified by surgical centre.

162 were randomly assigned, through a web-based, permuted blocks system, to telemedicine or telephone con

163 normoalbuminuria were randomized (1:1) with permuted blocks to 6 months of a 25% calorie restricted

164 rough a centralised randomisation service in permuted blocks to receive once daily inhaled placebo, f

165 assigned by online randomisation (1:1) with permuted blocks to the Solomon technique or standard las

166 Randomisation with permuted blocks was done with the International Breast C

167 A computer-generated code with random, permuted blocks was used to assign treatment.

168 Computer-generated random permuted blocks were used, with risk of seminal vesicle

169 -generated randomisation list using randomly permuted blocks with a block size of eight and were stra

170 Randomisation used random permuted blocks with lengths of two, four, and six, and

171 Randomisation was balanced by using randomly permuted blocks with size of four and was stratified bas

172 famide and etoposide (MAPIE) using concealed permuted blocks with three stratification factors: trial

173 uences produced on the principle of randomly permuted blocks with variable block sizes of two and fou

174 computer-generated randomised regimens with permuted blocks within double or single delayed intensif

175 line of therapy, and randomly assigned using permuted blocks within strata to receive open-label oral

176 nts to each treatment group, with randomised permuted blocks within strata.

177 ndomisation was done with computer-generated permuted blocks, and stratification was by centre and pr

178 uter-generated randomisation schedule, using permuted blocks, and stratified according to Sokal score

179 Randomisation was done with permuted blocks, and stratified according to the two-arm

180 urses recommended) or no chemotherapy, using permuted blocks, and stratified by previous chemotherapy

181 tion was done with computer-generated random permuted blocks, stratified according to recruitment sta

182 on schedule was computer generated in random permuted blocks, stratified by centre, number of nodes i

183 ly allocated participants (1:1) according to permuted blocks, stratified by germline BRCA status and

184 ndomisation was by computer-generated random permuted blocks, stratified by National Comprehensive Ca

185 ternet-based allocation sequence with random permuted blocks, to have a molecular POC test for respir

186 s computer-generated and randomisation, with permuted blocks, was done centrally with an interactive

187 ng a computer-generated schedule of randomly permuted blocks.

188 stage, receptor status, and country and used permuted blocks.

189 -blind randomisation was done centrally with permuted blocks.

190 Randomisation was balanced by using randomly permuted blocks.

191 er plus lumefantrine group or AQ-13 group by permuting blocks of four with a random number generator.

192 uence to randomly assign patients (2:1, with permuted-blocks of size three or six and stratified by s

193 pletely inactive after 5 min, but circularly permuted CapD remained almost entirely active after 30 m

194 nce energy transfer (FRET) from a circularly permuted CFP mutant to FlAsH, a selectively reactive flu

195 n of insulators will be critical in reliably permuting circuits to build different programs.

196 l culture compared to unmodified virus and a permuted control (CDLR).

197 d at different resolutions and from randomly permuted data sets were consistent.

198 tral hypergeometric distribution to generate permuted data sets with the same structure present in th

199 d on a case-by-case basis, and the resulting permuted data were compared with the actual events prece

200 cantly more, larger and denser than found in permuted data.

201 iginal statistic, which was derived from non-permuted data.

202 a new subfamily of GH3 proteins with a novel permuted domain topology.

203 as a well-calibrated type I error rate using permuted ENCODE ChIP-seq data sets; in contrast, two com

204 r the chemical environment of the circularly permuted enhanced green fluorescent protein chromophore

205 ain interface between CaM and the circularly permuted enhanced green fluorescent protein domain.

206 The circularly permuted Escherichia coli enzyme, which exists as a molt

207 strate that when those sequence elements are permuted, even higher accuracy is obtained; we also prop

208 aB and IcaB and contains the same circularly permuted family four carbohydrate esterase motifs.

209 The resulting circularly permuted FLIPPi sensor was subjected to a high-efficienc

210 These circularly permuted FLIPPi sensors, therefore, enable detailed anal

211 site-specifically introduced into circularly permuted fluorescent proteins.

212 ces a shift from the nonpermuted fold to the permuted fold.

213 the wild-type structure (N) and a circularly permuted form (N').

214 ion of ribose, likely because the circularly permuted form folds much more slowly than the nonpermute

215 ield the wild-type structure or a circularly permuted form in which the positions of the N- and C-ter

216 ds: the wild-type structure and a circularly permuted form.

217 Exploration of a circularly permuted FP led to an improved sensor with faster respon

218 ns of gene classes under Q1 are generated by permuting gene labels and the null distributions under Q

219 mpatible with an evolutionary route in which permuted genes result from a duplication event followed

220 age Bcep22 was found to contain a circularly permuted genome of 63,882 bp containing 77 genes; BcepIL

221 Vibrio phage SIO-2 has a circularly permuted genome of 80598 bp, which displays unusual feat

222 the induced phage particle has a circularly permuted genome that begins with the terminase genes.

223 phosphatase domain removed and a circularly permuted GFP placed in the S3-S4 linker.

224 ng, we designed and characterized circularly permuted GFP variants.

225 structure-guided design of HIV-1 cyclically permuted gp120 that forms homogeneous, stable trimers, a

226 n of a boronic acid moiety into a circularly permuted green fluorescent protein (cpGFP) followed by d

227 voltage sensor design in which a circularly permuted green fluorescent protein is inserted in an ext

228 LSSmOrange) within a reporter FP (circularly permuted green FP).

229 The YqeH structure reveals a circularly permuted GTPase domain and an unusual C-terminal beta-do

230 ein 1 (AtNOA1) is a member of the circularly permuted GTPase family (cGTPase).

231 NOA1 is a circularly permuted GTPase that is important for chloroplast functi

232 mber of Cas10 family of proteins, that has a permuted histidine-aspartate domain and a nucleotidyl cy

233 These results suggest that cyclically permuted HIV-1 gp120 trimers represent a viable platform

234 For the first time, a circularly permuted human beta-globin (cpbeta) has been coexpressed

235 used a recombinant protein fusing circularly permuted human IL-4 and Pseudomonas exotoxin termed IL4(

236 Constructs that were cyclically permuted in the V1 loop region and contained an N-termin

237 ed by the higher AR-ablative activity of the permuted isomer 9 [( Z)-5-(4-hydroxybenzylidene)-3-(1-me

238 Biosensors were engineered from a circularly permuted luciferase, linked internally by either caspase

239 GCK biosensor was optimized using circularly permuted mCerulean3 proteins.

240 Strikingly, the fold topology of MCP is permuted non-circularly from the Johnson fold topology p

241 s, have their catalytic motifs arranged in a permuted order in sequence.

242 dest association with cognitive performance (permuted P = .03) specifically among patients diagnosed

243 046814 was undertransmitted (frequency, 32%; permuted P=.004), whereas the G/A/T/T/C haplotype (frequ

244 CD alone, with a significant global P value (permuted P=.008).

245 eas the G/A/T/T/C haplotype (frequency, 22%; permuted P=.02) was overtransmitted to probands with OCD

246 e 4 at 181 cM (logarithm of odds [LOD]=4.93, permuted P=0.002) and chromosome 8 at 33 cM (LOD=3.27, p

247 =0.002) and chromosome 8 at 33 cM (LOD=3.27, permuted P=0.058).

248 aricus PCNA to create a series of circularly permuted PCNA subunit fusions, thereby covalently closin

249 Combining original peptides A, B, and C and permuted peptides D, E, and F resulted primarily in form

250 generation of "corrected" tRNAs from such a "permuted" pre-tRNA configuration.

251 The permuted protein binds operator DNA with nanomolar affin

252 The crystal structure of the permuted protein reveals an essentially wild-type fold,

253 pproach for creating libraries of circularly permuted proteins is described that is called PERMutatio

254 ach produces vectors that express circularly permuted proteins with distinct sequence diversity from

255 was tested on two collections of circularly permuted proteins.

256 lows the structural comparison of circularly permuted proteins.

257 politana adenylate kinase (AK) library using PERMUTE revealed that this approach produces vectors tha

258 We first identified a circularly permuted RFP (cpRFP) scaffold, which maintained its auto

259 In this permuted RNA, regions joining P2, P3 and P4 were protect

260 null distributions under Q2 are generated by permuting samples.

261 Nucleotides in permuted sequence order are stacked into the site vacate

262 consistently smaller than those for randomly permuted sequences of the same length and base compositi

263 ynamics studies of the normal and circularly permuted sequences, as well as their constituent hairpin

264 These events permute sequentially around the ring from one subunit to

265 ble a flexible interface for imaging through permuted set of fibers.

266 ently attached beta-strand from a circularly permuted split GFP, allowing the interaction to be rever

267 ment events in Thermoproteus tenax created a permuted SRP RNA gene.

268 To maintain the stability of the permuted structure, the termini are typically bridged by

269 We also introduce an algorithm, permuted-SVA (pSVA), using a new statistical model that

270 A PWM algorithm enabling permuted switching of the PV sources is applied.

271 ies (Na(+), K(+), Li(+), Mg(2+), and Ca(2+)) permute the effects of lysine acetylation on the rate of

272 atistical significance is judged by randomly permuting the affected status in the CDS.

273 e null distribution of the test statistic by permuting the observations between the two samples.

274 ling junctions based on the observation that permuting the order of R1 and R2 in the junction does no

275 By permuting the sequence of bases in various [A(5-x)T(x)](

276 In PERMUTE, the transposase MuA is used to randomly insert

277 ant correlation to rs1835740 (P = 3.96 x 10, permuted threshold for genome-wide significance 7.7 x 10

278 TCA parameters were developed by using 1000 permuted topographic series derived from HRT images of 1

279 The WNK1-AI has a circularly permuted topology relative to the OSR1-PF2 domain.

280 al eukaryal enzyme capable of correcting the permuted transcript to a functional tRNA.

281 idated by the use of the av pre-tRNAs, algal permuted tRNA genes could have further lost one of two m

282 ssociated with pediatric VTE with unpermuted/permuted values of P = 1.42 x 10(-6)/2.0 x 10(-6) and P

283 nylate nucleotides by combining a circularly permuted variant of GFP with a bacterial regulatory prot

284 A library of vectors that express different permuted variants of the ORF-encoded protein is created

285 e kinetic folding pathways of two circularly permuted variants of the Tetrahymena group I ribozyme, u

286 essful involved the creation of a circularly permuted version of a green-to-red photoconvertible FP a

287 ated activity and appears to be a circularly permuted version of the known lipoate ligase proteins in

288 mponent of a FLIPPi sensor with a circularly permuted version of Venus enhanced sensor dynamic range

289 This fold exhibits three distinct circularly permuted versions and is composed of an internal repeat

290 perstable Pin1 WW domain has been circularly permuted via excision of the fold-nucleating turn; it st

291 ns with novel architectures, suggesting that PERMUTE will be useful for the directed evolution of pro

292 dase-like domain and a C-terminal circularly permuted winged-helix-turn-helix domain.

293 Compared to a similar variant permuted with an 18-residue linker, permutation with a s

294 (ST(cpSSR))=0.392; R(ST)=0.673; R(ST)>R(ST) (permuted)), with the major division separating East and

295 The genome was circularly permuted, with no physical ends detected by sequencing o

296 Control simulations with randomly permuted word instances do not exhibit a low dimensional

297 ich we constructed by inserting a circularly permuted yellow fluorescent protein (cpYFP) into a regio

298 initially developed by inserting circularly permuted yellow fluorescent protein (cpYFP) into the NAD

299 biosensor, mitochondria-targeted circularly permuted YFP (mt-cpYFP).

300 port here that Emb14 gene encodes a circular permuted, YqeH class GTPase protein that likely function