ライフサイエンスコーパス: alphabet

1 e week, months of the year or letters of the alphabet).

2 ords, alternating between two letters of the alphabet).

3 s into distinct nucleosome types (nucleosome alphabet).

4 alphabet (DNA, RNA, protein and user-defined alphabets).

5 use as part of an in vitro expanded genetic alphabet.

6 aring protein sequences written in a reduced alphabet.

7 cornerstone of efforts to expand the genetic alphabet.

8 algorithms by developing a so-called reduced alphabet.

9 useful for the effort to expand the genetic alphabet.

10 fold degenerate with respect to the 64 codon alphabet.

11 a third base pair and expanding the genetic alphabet.

12 y 98% in trial PCRs with this six-letter DNA alphabet.

13 ing approach to the expansion of the genetic alphabet.

14 of molecules that expand on Nature's genetic alphabet.

15 x RNA molecule can be represented by a small alphabet.

16 d extended, resulting in an expanded genetic alphabet.

17 upersymmetric ring of brackets over a signed alphabet.

18 fragment dynamics encoded with a structural alphabet.

19 5'-GNN-3' subset of a 64-member zinc finger alphabet.

20 with the fMRI as they read words in the new alphabet.

21 unsolved riddles still hidden in the floral alphabet.

22 vely forming what we now describe as the XNA alphabet.

23 raries built from a standard four-nucleotide alphabet.

24 mplement a reduced, ancestral genetic coding alphabet.

25 factor binding affinity to this expanded DNA alphabet.

26 protein sequences translated using a reduced alphabet.

27 otoxic side effects of expanding the genetic alphabet.

28 would be quantum communication with a large alphabet.

29 he early evolution of the natural amino acid alphabet.

30 nism to propagate stably an expanded genetic alphabet.

31 to communicate by pointing to letters of the alphabet.

32 ups, thereby forming a simplified amino acid alphabet.

33 motions in proteins by means of a structural alphabet.

34 , C and G instead of the standard T, A, C, G alphabet.

35 ovides a fully functional six-letter genetic alphabet.

36 uced alphabets in many cases outperform full alphabets.

37 ctions for several different local-structure alphabets.

38 g to proteins comprising selected amino acid alphabets.

39 th effective and simple to compute for large alphabets.

40 n LASSO were less biased than other Bayesian alphabets.

41 s speak languages that are not written using alphabets.

42 d from libraries built from expanded genetic alphabets.

43 Suite, adding the capacity to handle custom alphabets.

44 ations in running time, especially for large alphabets.

45 pts: handwritten characters from the world's alphabets.

46 pace of potential energy functions of binary alphabets.

47 hm to find motif stems for inputs from large alphabets.

48 contact energies for an expanded 60-residue alphabet (20 aa x three secondary structural states) are

49 kens from a 21-letter discretized structural alphabet (3Di).

50 The 4-letter DNA alphabet (A, T, G, C) as found in Nature is an elegant,

51 polymerase, can copy a three-letter genetic alphabet (A,T,C) from DNA into TNA.

52 s been encoded using a two-base-pair genetic alphabet (A-T and G-C).

53 In an effort to expand the genetic alphabet, a number of unnatural, predominantly hydrophob

54 Additional features include user-defined alphabets, ability to handle ambiguous characters in an

55 Members of the alphabet aim to confront this overparameterization in va

56 er/Thr phosphatase of the PP2C family, named Alphabet (Alph), which acts as a negative regulator of t

57 cal work shows that PLMs trained on the full alphabet and a large number of sequences capture fine de

58 earchable on foods, components, food groups, alphabet and a multi-field advanced search.

59 ere conducted on two benchmark datasets, ASL Alphabet and ASL MNIST to validate the model's effective

60 In an effort to expand the genetic alphabet and create semi-synthetic organisms (SSOs) that

61 d the ribosome, we have expanded the genetic alphabet and enabled in vitro and in vivo production of

62 search benchmark task, a combination of our alphabet and Foldseek's 3Di alphabet, outperforms each a

63 e in vivo expansion of an organism's genetic alphabet and for a variety of in vitro biotechnology app

64 {m,n}+m+n) space, where s is the size of the alphabet and m and n are, respectively, the lengths of t

65 airs may function within an expanded genetic alphabet and make possible many in vitro applications.

66 rent conditions: rest, visual imagery of the alphabet and planning an artwork to be executed immediat

67 es and functionality of defining a chromatin alphabet and provide a unique and novel framework for ex

68 n = 32) completed training in the artificial alphabet and ten reading sessions over the course of sev

69 e tools that enable the exploration of novel alphabets and combinations of alphabets for protein stru

70 eds by selecting various reduced amino acids alphabets and other characteristic parameters.

71 hat identification of sequences with limited alphabets and/or regular structures such as nucleic acid

72 into a monocentromere written in the monomer alphabet) and the HOR decomposition (representing a mono

73 he origin and evolution of life's amino acid alphabet, and advocate the progress that would add valua

74 20 to 25 dimensions, a three or four letter alphabet, and balls of stimulation of radius five or six

75 double encoding method that uses the braille alphabet, and by incorporation into photocurable inks pa

76 d to compare or combine different simplified alphabets, and apply it to 34 simplified alphabets from

77 ry space better than the genetically encoded alphabet are extremely rare and energetically costly.

78 However, alphabets are not the only orthographic systems in use i

79 mulus category, upright letters of the roman alphabet as well as for unfamiliar false fonts.

80 this scalability generalized for non-genomic alphabets as well as an interest in its use for graphic

81 et, but one that sharply limits the chemical alphabet available to a nascent all-quadruplet code.

82 s of a sequence of length n on a fixed-sized alphabet based on suffix arrays.

83 ng all minimal absent words on a fixed-sized alphabet based on the construction of suffix automata.

84 alysis of residue coevolution and structural-alphabet-based local dynamics correlations.

85 rgy scale rather than relying on an explicit alphabet-based sequence.

86 and accuracy of Bayesian GBLUP and Bayesian alphabet (BayesA, BayesB, BayesC) models for total and i

87 sted performance of models from the Bayesian alphabet (Bayesian Lasso) as well machine learning appro

88 the 26 letters of both a conventional and VO alphabet, both in the fovea and at 10 degrees in the hor

89 gene expression not by altering the genetic alphabet but rather by the addition of chemical modifica

90 cing of an 8-letter "hachimoji" expanded DNA alphabet by assessing its nanopore signal range using th

91 Expanding this DNA 'alphabet' by synthetic incorporation of new bases can in

92 Efforts to expand the genetic alphabet, by addition of an unnatural base pair, promise

93 he ability to exploit an expanded amino acid alphabet can thus heighten the ambitions of protein engi

94 We find that reduced alphabets can perform at a level comparable to full alph

95 r both writing and reading DNA with expanded alphabets composed of up to 12 letters (A, T, G, C, B, S

96 The natural four-letter genetic alphabet, comprised of just two base pairs (dA-dT and dG

97 An evolved fluorescent ribonucleoside alphabet comprising isomorphic purine ((tz)A, (tz)G) and

98 {m,n}+m+n) space, where s is the size of the alphabet comprising the strings, to compute the DL dista

99 We use a simplified amino acid alphabet consisting of four residue types, and find that

100 life on Earth, has been encoded by a genetic alphabet consisting of only four nucleotides that form t

101 sibility of a potentially primordial genetic alphabet consisting of s(2)U, s(2)C, I, and A and offers

102 e canonical A:U base pair, so that a genetic alphabet consisting of s(2)U, s(2)C, I, and A generates

103 es were then built from a six-letter genetic alphabet containing the standard nucleobases and two add

104 f an organism containing an expanded genetic alphabet could recognize and properly repair a site cont

105 The term "Bayesian alphabet" denotes a growing number of letters of the alp

106 ow improved features when compared to an RNA alphabet derived from thieno[3,4-d]-pyrimidine.

107 find motifs in sequences over virtually any alphabet (DNA, RNA, protein and user-defined alphabets).

108 y is characterized by tracking the effective alphabet dynamics of sites.

109 week, months of the year and letters of the alphabet (e.g. Monday, January, A.).

110 : it supports the use of selected amino acid alphabets, eliminates redundant sequences and locally co

111 zyme-assisted sequencing of expanded genetic alphabet (ESEGA) method to sequence six-letter AEGIS DNA

112 shment of the Central Dogma and full protein alphabet evolution.

113 new research area, xenobiology, and genetic alphabet expansion technologies.

114 NA aptamers generated by SELEX using genetic alphabet expansion, without reducing their high affinity

115 ic synthesis of TNA with an expanded genetic alphabet (exTNA), opening promising opportunities in nuc

116 t of an ongoing effort to expand the genetic alphabet for in vitro and eventually in vivo application

117 ation of novel alphabets and combinations of alphabets for protein structure search.

118 ting probability distributions over discrete alphabets from observations using a mixture model of com

119 ied alphabets, and apply it to 34 simplified alphabets from the scientific literature.

120 is the number of distinct "letters" in the "alphabet" from which sequences are constructed, it is sh

121 On the contrary, the BLUP alphabets (GBLUP and CBLUP) exhibited higher genomic pre

122 Expansion of the genetic alphabet has been a long-time goal of chemical biology.

123 In vitro, the alphabet has been expanded to include several unnatural

124 sical-chemical properties to achieve reduced alphabets has been of interest in past research, but the

125 t sophisticated functional groups of today's alphabet) has been debated.

126 It is concluded that members of the alphabet have a room in whole-genome prediction of pheno

127 r 10 proteins out of the 50 targets, reduced alphabets improve structural predictions with LDDT-Calph

128 trajectories tracing characters of the Latin alphabet in 3D space, together with muscle activities ob

129 is generalizable to expanding the amino-acid alphabet in a library beyond 25 building blocks.

130 are able to manipulate this expanded genetic alphabet in vitro, provides some structural insights int

131 rts the renewed exploitation of expanded DNA alphabets in biotechnology.

132 ficacy of PLMs trained on reduced amino acid alphabets in capturing evolutionary information, and we

133 ts can perform at a level comparable to full alphabets in correct pairwise alignment of sequences and

134 that, in contrast to previous work, reduced alphabets in many cases outperform full alphabets.

135 The Phoenician alphabet (inclusive of the Greek vowels) of 26 letters l

136 nd Foldseek's 3Di alphabet, outperforms each alphabet individually and ranks best among local search

137 itory cortex, regular sequences with smaller alphabets induced greater gamma activity.

138 g long error-prone reads from the nucleotide alphabet into the alphabet of repeat units.

139 ng centromeres from reads (in the nucleotide alphabet) into a more tractable problem of assembling ce

140 Thus, the A, 2-thioT, G, C, isoC, isoG alphabet is an artificial genetic system capable of Darw

141 The genetic alphabet is composed of two base pairs, and the developm

142 ng a read from a centromere into the monomer alphabet is modeled as the String Decomposition Problem.

143 Deciphering the carbohydrate alphabet is problematic due to its unique complexity amo

144 -validation tests, as long as the amino acid alphabet is reduced to nine classes.

145 architecture, built with an expanded genetic alphabet, is reminiscent of antibodies conjugated to dru

146 with the alphabet or of methyl marks to the alphabet itself.

147 s (listening comprehension, print knowledge, alphabet knowledge, vocabulary, and phonological awarene

148 e to the earthquake than their male peers in alphabet knowledge; contrarily, males were more affected

149 ts were asked to solve symbolic subtraction, alphabet letter transformation, and novel artificial gra

150 The reduced alphabet Markov model (RAMM) model we introduce captures

151 This newly expanded genetic alphabet may allow organisms to store considerably more

152 nucleobase analogues with which the genetic alphabet may be expanded to include five-membered-ring h

153 n these results, we hypothesize that reduced alphabets may also show performance gains with more soph

154 re obtained from Bayesian GBLUP and Bayesian alphabet models.

155 respiratory viruses uses an expanded genetic alphabet, multiplex PCR chemistry, and microsphere flow

156 ion, and has been used to expand the genetic alphabet of a living organism, recent efforts have ident

157 candidates for the expansion of the genetic alphabet of a living organism.

158 lowing secondary structure prediction for an alphabet of A, C, G, U, and m(6)A.

159 We describe prelife as an alphabet of active monomers that form random polymers.

160 Here, we demonstrate that expansion of the alphabet of amino acids can also enable the properties o

161 anations for the origin and emergence of the alphabet of amino acids encoded by the standard genetic

162 full contact energy matrix to a four-flavor alphabet of amino acids, automatically determined by our

163 more general idea that there is a molecular alphabet of basic components that can be combined in var

164 To date, the alphabet of DNA structures is ripe with approximately 20

165 sition (representing a monocentromere in the alphabet of HORs) are currently viewed as two separate p

166 graph with sequence-to-graph alignment on an alphabet of informative alleles to provide a fast assemb

167 or the identity and relative position-in-the-alphabet of items in five-letter memory sets (to identif

168 brid membrane uniquely selects for a reduced alphabet of l-amino acids.

169 ums of Western civilization, whereas the DNA alphabet of only four letters will launch and dominate t

170 ni quantizes nanopore signal into a discrete alphabet of picoamp ranges.

171 ns to Zionists and Zapatistas, the expansive alphabet of politics demands an equally expansive psycho

172 the 4-letter code of RNA into the 22-letter alphabet of proteins is a central feature of cellular li

173 reads from the nucleotide alphabet into the alphabet of repeat units.

174 esource quantum for key distribution with an alphabet of scalable dimension.

175 of d documents, [Formula: see text] over an alphabet of size sigma, we extend the r-index with [Form

176 Hidden Markov Models (HMMs) with a discrete alphabet of symbols.

177 conformation state prediction when using an alphabet of three or four states.

178 tware now works with user-defined nucleotide alphabets of any size.

179 s as evolving sequences constructed from an "alphabet" of 12 scale degrees(16) allows us to quantitat

180 ckbone is represented by a letter in a "mega-alphabet" of 85 899 345 920 distinct states.

181 n tools, finding that, while using the same "alphabet" of elementary actions, Acheulean sequences are

182 ences directly into the 3D interaction (3Di) alphabet or amino acid profiles and use these embeddings

183 odifications to proteins associated with the alphabet or of methyl marks to the alphabet itself.

184 mbination of our alphabet and Foldseek's 3Di alphabet, outperforms each alphabet individually and ran

185 The Bayesian alphabets performed better for the traits governed by a

186 However, expansion of an organism's genetic alphabet presents new and unprecedented challenges: the

187 one amino acid of a seven-letter amino acid alphabet produces a triosephosphate isomerase with wild-

188 m four European cohorts participating in the ALPHABET project were analyzed.

189 ons in random sequence pools: a three-letter alphabet, protection of toeholds by intramolecular secon

190 Reduced amino acid alphabets (Raaa) exhibit a powerful ability to decrease

191 ion-tracking data for handwritten numeral or alphabet recognition is available.

192 uences capture fine details that are lost in alphabet reduction methods.

193 The modern genetic alphabet relies on two sets of complementary base pairs

194 and two different biased four-letter genetic alphabets replicate in vitro with high efficiency and hi

195 ey generated in their head by continuing the alphabet sequence (SI phases).

196 odels of molecular conformations and reduced alphabet sequences to determine the relative resolving p

197 Our in silico simulations using a two-letter alphabet show that template-directed ligation and high c

198 es maximum flexibility by allowing arbitrary alphabet size and let size.

199 etric deconstruction, resulting in a reduced alphabet size of 12 or 13 amino acids and a percentage o

200 Furthermore, when k=1(mod w) and the alphabet size sigma goes to infinity, we show that mod-m

201 p sequences (namely, sequence regularity and alphabet size) along the auditory processing stream.

202 's interpretable parameters-sequence length, alphabet size, and assumed interactions between sequence

203 NA and lattice proteins of a reduced monomer alphabet size, to make exhaustive analysis and direct co

204 dependent of the distance threshold k or the alphabet size.

205 earch algorithms depend exponentially on the alphabet size.

206 number of mismatch positions, and the task's alphabet size.

207 re are different gap penalties for different alphabet sizes and that the gap penalties can depend on

208 Expanded DNA alphabets, such as those found in xenonucleic acids (XNA

209 esulting data serve to empirically define an alphabet summarizing relative protein flexibility, terme

210 Within the alphabet, systems can be categorized into two major grou

211 We design a "3Dn" structural alphabet that encodes the local neighborhoods around eac

212 ing thermostable polymerases of a six-letter alphabet that includes the isoC-isoG pair.

213 thetic biology based on a six-letter genetic alphabet that includes the two non-standard nucleobases

214 information has been stored in a four-letter alphabet that is propagated and retrieved by the formati

215 nuous signal of blood glucose levels into an alphabet that then can be used to build a de Bruijn, wit

216 d IgMAT, which utilises a reduced amino acid alphabet, that incorporates multiple HMM alignments into

217 By implementing reduced amino acid alphabets, the protein complexity can be significantly s

218 acilitate the use of a simplified amino acid alphabet to design beta-structure forming L2 peptides wi

219 Our models expand the standard A/C/G/T DNA alphabet to include cytosine modifications.

220 s metric, we compared the encoded amino acid alphabet to random sets of amino acids.

221 a de Bruijn graph, defined on an amino acid alphabet, to identify probable paths that correspond to

222 have applied it to numerous local structure alphabets, tuning network parameters such as the number

223 curate translation of reads into the monomer alphabet turns the notoriously difficult problem of asse

224 trying to recognize handwritten numerals and alphabets (upper and lowercase) from images via sequenti

225 " denotes a growing number of letters of the alphabet used to denote various Bayesian linear regressi

226 e complex systems, gradually uncovering the "alphabet" used to describe those systems.

227 ng the genetic code is to expand the genetic alphabet via the development of unnatural nucleotides th

228 (1-letter) peptide strings with more complex alphabets was more problematic.

229 As part of an effort to expand the genetic alphabet, we examined the synthesis of DNA with six diff

230 As part of an effort to expand the genetic alphabet, we have been examining the ability of predomin

231 As part of our efforts to expand the genetic alphabet, we have developed a class of unnatural base pa

232 As part of an effort to expand the genetic alphabet, we have evaluated a large number of predominan

233 the design rules derived from this expanded alphabet, we successfully predicted the acylation of 6 a

234 pread idea that many members of the standard alphabet were recruited in this way), then the genetical

235 ntative libraries comprising four amino acid alphabets were fused in-frame to the lambda repressor DN

236 tions is the concept of a reduced amino acid alphabet, wherein similar amino acids are clustered toge

237 aromyces cerevisiae, generating a nucleosome alphabet, which forms chromatin motifs when mapped back

238 obstacles paving the way for making expanded alphabets widely accessible.

239 owever, the in vivo expansion of the genetic alphabet will require that the unnatural nucleoside trip

240 Expansion of the genetic alphabet with a third base pair would have immediate bio

241 Expansion of the genetic alphabet with a third base pair would lay the foundation

242 This paper also found that the reduced alphabets with size 13 simplify PSSM structures efficien

243 al-net predictions for three local structure alphabets within a comparative genomic approach using a

244 e (G), and cytosine (C), forming the genetic alphabet ZTGC, which violates Watson-Crick base pairing