ライフサイエンスコーパス: flanking

1 tite polybasic recognition determinant (BPR) flanking a Cdk1 phosphorylation site.

2 Sequences having helical segments flanking a central bent aromatic beta-sheet were then sy

3 short amphipathic N- and C-terminal peptides flanking a conserved 72-residue hydrophobic hairpin, whi

4 The LCRs flanking a contiguous genomic interval encompassing both

5 e model that allows two interacting segments flanking a disordered loop (double sequence approximatio

6 synthetic mariner transposon is generated by flanking a DNA sequence with short inverted repeats.

7 SNF2h senses the length of DNA flanking a nucleosome via its HAND-SANT-SLIDE (HSS) doma

8 coding a LysR-type transcriptional regulator flanking abcR2 on chromosome 1.

9 otides (5hmCA) and it accumulates in regions flanking active enhancers.

10 -ray scattering (SAXS), the positions of the flanking acyl carrier protein and ketosynthase domains h

11 een the highly stable central beta-sheet and flanking alpha-helices and loop regions are formed.

12 (PTM), hypusine, with minimal dependence on flanking amino acid sequences, were identified.

13 with their other individual preferences for flanking amino acids, greatly increases the potential su

14 e injected plasmids with sequence variations flanking an I-SceI endonuclease recognition site into I-

15 o screen the i-2, i-1, i+1, and i+2 residues flanking Asn at the i position.

16 [TADs, including acidic domain 1 (AD1), the flanking Asn/Ser/Thr-rich (NST) domain and AD2] are tran

17 nstead determined by the unstructured region flanking AUG828.

18 upport PU.1 binding as a monomer, additional flanking bases were required to invoke sequential dimeri

19 st when the speed bump was near the end of a flanking chain, and (b) macrocycle cavity size, which wa

20 different substituents (speed bumps) on the flanking chains and two macrocycles with different cavit

21 ain protein, ZMYND8, which spreads along the flanking chromatin, but is excluded from the DSB region.

22 is framed by extensive ZMYND8 domains on the flanking chromatin.

23 s and allows acetylation to spread along the flanking chromatin.

24 atory interactions between lncRNAs and their flanking coding genes.

25 ed by the nature of the immediately adjacent flanking codons.

26 ne amplicon sequencing revealed the dominant flanking community members in both reactors were affilia

27 lso investigated to identify the presence of flanking community members.

28 ll line-based experiments have identified 5'-flanking conserved sequences that control pancreatic and

29 but significantly overrepresented in regions flanking CpG islands (shores and shelves) and gene bodie

30 ween tissues, the methylation information of flanking CpG sites and the methylation tendency of flank

31 HCC exhibit demethylation of these NF-kappaB-flanking CpG sites, and HBV replication propagates demet

32 t palindromic repeat (CRISPR) loci and their flanking CRISPR-associated (cas) genes make up RNA-guide

33 veal varying degrees of free rotation in the flanking cyclopropenylidene groups of 2 in its coordinat

34 The first carbodicarbene stabilized by flanking cyclopropenylidenes is reported.

35 antly shifted toward the radical cation by a flanking dA.

36 e versus absence of congruent or incongruent flanking distracting arrows during either Pure blocks (d

37 ntrolled pharmacology study, we measured how flanking distractors influenced detection of a small con

38 , and patterns of DNA methylation in regions flanking DMRs reveals a distinct subset of DMRs.

39 comitant with degradation of extraneous long flanking DNA (FD) linked to Mu.

40 Monomeric prenucleosomes with free flanking DNA do not spontaneously fold into nucleosomes

41 nt roles for bases within a broad segment of flanking DNA required for Mot1 action.

42 Mot1 mechanism, we dissected the role of the flanking DNA segment by biochemical analysis of complexe

43 ng CpG sites and the methylation tendency of flanking DNA sequences.

44 , the DSB forms hairpin intermediates on the flanking DNA side.

45 on DNA is cut precisely at its junction with flanking DNA, ensuring the transposon is neither shorten

46 d polyproline II helices in the proline-rich flanking domain (PRD).

47 in canonical Type 1 IRESs, and non-canonical flanking domains (d8, d9 and d12).

48 In vitro, the flanking domains have opposing effects on the conformati

49 The polymorphic fibrils differ in their flanking domains rather than the polyglutamine amyloid s

50 sfolding process is frequently instigated by flanking domains.

51 oteins recruited by proteins that bind sites flanking each locus.

52 within a gene desert, with the nearest gene flanking each side being MIR31HG and MTAP, neither of wh

53 The genomic sequence flanking editing sites is highly conserved, suggesting t

54 r distances became more compact, with probes flanking either the motif between C1 and C2 or the Pro/A

55 at all sites, but the spread of silencing to flanking endogenous human genes is variable in extent of

56 eoretically be treated by skipping of either flanking exon (44 or 46).

57 ular i-motif structure can tolerate specific flanking G-repeats.

58 In particular, flanking genes were expressed at a similar level to the

59 ed on tissue-specific expression patterns of flanking genes.

60 in pools of mutants by obtaining >500 bp of flanking genomic sequences.

61 The consensus mutation-flanking haplotype aided diagnosis for 6 of 9 founder mu

62 Gaucher disease-associated founder mutation-flanking haplotype was fine mapped.

63 Thus, not all regional centromeres require flanking heterochromatin.

64 le C-N bond-forming steps that establish the flanking heterocycles.

65 ndicate that when ATP hydrolysis is present, flanking heterologous dsDNA regions increase the reversi

66 at self-splice at the protein level from the flanking host protein, the exteins.

67 mapping approach, we found that nucleosomes flanking human CTCF insulation sites are similarly disru

68 important for membrane binding, whereas the flanking hydrophobic residues play a lesser role.

69 e tetramer of prototype foamy virus, and two flanking integrase dimers that engage the core structure

70 are sufficient to catalyse integration, the flanking integrase dimers were necessary for mouse mamma

71 that, in addition to the globular domain, a flanking intrinsically disordered region also recognizes

72 phenotype and that a deletion of 9 bp in the flanking intron downstream of exon 5 (tae) of the gemini

73 as a result of a recombination event between flanking intronic Alu sequences.

74 ircularization in genes that lack noticeable flanking intronic secondary structure.

75 1 exon encoding the extracellular domain and flanking intronic sequences are inserted into the switch

76 We found that PTBP1 binding in the flanking introns allowed normal U2AF and U1 snRNP bindin

77 ) harboring mutations in MET exon 14 and its flanking introns may respond to c-Met inhibitors.

78 Furthermore, the laccase2 flanking introns support efficient circularization of di

79 relationship of DNA methylation at exons and flanking introns with gene expression and histone modifi

80 e-spanning domain (MSD) and also immediately flanking it (T140 to L163).

81 andidate variant together with a set of SNVs flanking it.

82 BIN2 phosphorylation of DSK2 flanking its ATG8 interacting motifs (AIMs) promotes DSK

83 human homolog of Ubp10, USP36, also has IDRs flanking its catalytic domain, and these IDRs similarly

84 a model in which condensin encircles the DNA flanking its loading site and then slides down, tetherin

85 A CR3 motif flanking its PKC consensus site disrupts the aPKC kinase

86 esis and inflammation depends in part on its flanking KGE motif.

87 hat Rad26 uses its C-terminal domain and the flanking kinase-docking motif to bind specific HEAT repe

88 slides nucleosomes into positions with more flanking linker DNA than CHD7.

89 elic homologous recombination events between flanking low copy repeats termed LCR22A and LCR22D, resu

90 typical recurrent rearrangements mediated by flanking low-copy repeats (LCRs), NF1 intragenic rearran

91 ies are immediately cotranscribed with their flanking LTR retrotransposons.

92 demonstrating that a 50-nucleotide sequence flanking m(5)C C3349 in MAIGO5 mRNA is sufficient to con

93 The flanking markers of this QTL can be used for further fin

94 When flanking masker energy is added well outside the frequen

95 In contrast, if the flanking masker is antimodulated with the original maske

96 reactions of the morpholine moiety with the flanking meso-aryl groups leads to a sharpened, blue-shi

97 y studies on 2,6-diarylanilines that contain flanking meta/para-substituted aromatic rings adjacent t

98 Y allele in the PfK13 propeller domain, with flanking microsatellite profiles different from those ob

99 apple 2 domain and the isoleucine occupies a flanking minor pocket.

100 including rs1198588, at a leading risk locus flanking MIR137.

101 diction, and the evolution of mRNA sequences flanking miRNA-target sites may be impacted.

102 yltransferase domain to structurally diverse flanking modules.

103 Flanking mRNA structural barriers mechanically stimulate

104 for co-ordinated repair of both target gaps flanking Mu without replicating the intervening 37 kb of

105 the catalytic domain of Aurora-A and a site flanking Myc Box I that also binds SCF(FbxW7) We determi

106 ein, and in particular about the bHLH domain-flanking N- and C-terminal segments, which are predicted

107 local alignments erroneously extend through flanking nonhomologous residues.

108 tion not only of the nupt itself but also of flanking nuclear DNA within one generation of transfer.

109 lated with ncRNA expression, suggesting that flanking nucleosomes form a barrier to pervasive transcr

110 Interestingly, either origin-flanking nucleosomes or roadblocks resulted in helicase

111 etrotransposon presence/absence patterns and flanking nucleotide changes suggest an important influen

112 studies have only considered the immediately flanking nucleotides around a polymorphic site--the site

113 Our study indicates that these flanking nucleotides change the three-dimensional struct

114 easily accessible through deletion of excess flanking nucleotides from aptamer sequences.

115 quence) but with different specificities for flanking nucleotides.

116 ened Watson-Crick and reversed non-canonical flanking pairs.

117 rigins by promoting the juxtaposition of DNA flanking parS sites, drawing sister origins in on themse

118 its closest relative, ERK2, three additional flanking phosphosites have been confirmed (T198, T207, a

119 Primer sequences flanking polymorphic insertions/deletions are produced a

120 triction enzyme recognition site changes and flanking primers for all SNPs and Indels in a user-defin

121 e linker to mediate efficient release of the flanking proteins via autocatalytic cleavage.

122 ns revealed twelve-fold symmetry, concentric flanking protrusions, and a central electron density.

123 Interestingly, the inversions are nested or flanking rather than coinciding with the deletion or dup

124 ligation of the central synthetic peptide to flanking recombinant polypeptides.

125 in rat corticostriatal brain slices, either flanking region alone sufficed to generate a neurotoxic

126 binding site accessibility, as determined by flanking region AU content, could fully explain the disc

127 Here, we analyze how different flanking region lengths impact folding into a constraine

128 e, a distinct substitution in the N-terminal flanking region located 5 residues upstream of the epito

129 We evaluate the 5'-flanking region of CCL20 to determine that IL-1beta-driv

130 Donor and recipient rs987870 (5'-flanking region of HLA-DPA1) CC genotypes were associate

131 s using deletion constructs of a proximal 5'-flanking region of miR-98 did not reveal a hypoxia-respo

132 similar shared haplotypes over a substantial flanking region of sequence.

133 matches between the 5-tag of crRNA and the 3-flanking region of target RNA.

134 putative regulatory sequence in the ULK1 5'-flanking region, the mutation of which increased ULK1 pr

135 smids containing fragments of the SULT1C3 5'-flanking region.

136 proven by the characterization of transgene flanking regions and the combinations of elements that a

137 ying this approach to 17 microRNAs and their flanking regions and with a reporter for miR-142 activit

138 deletions encompassing the NF1 gene and its flanking regions belong to the group of genomic disorder

139 CpG dinucleotides located within binding or flanking regions for the transcriptional regulator CCCTC

140 ns are enriched for long DNA repeats and the flanking regions have high alignment scores, suggesting

141 ts where the borders between the element and flanking regions have to be defined.

142 PL35a and RPL23, and ferredoxin, FDX1, whose flanking regions including promoters, terminators and un

143 Hippocampal cis-meQTL-CpGs are enriched in flanking regions of active promoters, CpG island shores,

144 (LLERCPs) are significantly enriched in the flanking regions of circRNAs.

145 e found a biased distribution of TEs between flanking regions of paralogous genes.

146 Statistical machine learning revealed that flanking regions of putative DIMM binding sites contribu

147 Negative contrast stimuli in the flanking regions produce orientation-selective excitatio

148 in vivo to the pre-rRNA and to U3 sequences flanking regions that base-pair to the pre-rRNA includin

149 were collapsed across CpG islands and their flanking regions to identify variants collectively assoc

150 e generally hypomethylated relative to their flanking regions, and the binding of some transcription

151 In this study, we show that peptide flanking regions, extending beyond the central nonamer c

152 ly confirmed by characterising the transgene flanking regions, using DNA walking.

153 ing from both within the G4 motifs and their flanking regions.

154 babilities of folding for different sizes of flanking regions.

155 igh read coverage over the targets and their flanking regions.

156 ll as the bending and twisting rigidities of flanking regions.

157 et cleavage by AGO3 requires both 5'- and 3'-flanking regions.

158 le nucleotide polymorphism (SNP) panels from flanking regions.

159 Long flanking repeats ( approximately 400 nucleotides [nt]) p

160 Silencing of flanking reporter genes occurs at all sites, but the spr

161 ich lines the anesthetic-binding cavity, its flanking residues (132 to 140), and Leu-122, a pore-gati

162 lso when seemingly subtle alterations to the flanking residues are introduced.

163 nsive mutagenesis revealed the importance of flanking residues within the polyprotein in defining the

164 es in a homologous region from nonhomologous flanking residues).

165 ytosine tetrameric i-motif can bear ten-base flanking residues.

166 g hairpins, demonstrated 5'-triphosphate and flanking RNA tail dependence on PKR activation.

167 loading intermediate, when either one of the flanking roadblocks was eliminated, the remaining roadbl

168 The genomic architecture of flanking SDs presents a challenge for modeling these syn

169 The entire Tst locus along with flanking segments was sequenced between our unique polyg

170 gene expression, and the amount of conserved flanking sequence all correlate with retention rates.

171 e that Cas13b has a double-sided protospacer-flanking sequence and elucidate RNA secondary structure

172 ng G is not strictly required, but increased flanking sequence GC content correlates with higher inse

173 unction by DNA silencing and utilize similar flanking sequence information (PAMs) to identify invader

174 l DNA sequence-context, although the role of flanking sequence is often unclear.

175 e euchromatic coordinates and identified the flanking sequence of breakpoints in heterochromatic regi

176 We analyzed 5'-flanking sequence of exon 1C of the human ACSL1 gene and

177 ene approach based on genome position of the flanking sequence of the insertional mutant CAL027_01_20

178 ragment sequence to the published SULT1C3 5'-flanking sequence revealed an 863-nt deletion (nt -146 t

179 d to photosynthesis and the isolation of 459 flanking sequence tags from 439 mutants.

180 Approximately half a million flanking sequence tags from rice insertional mutant libr

181 ctual ratios for each combination of peptide/flanking sequence were measured with a multiple reaction

182 legans and C. briggsae that span >4 kb of 5' flanking sequence.

183 cy is also influenced by the element and its flanking sequences (i.e., small elements are more compet

184 The flanking sequences impact the folding of the functional

185 Embedding the A-tracts in AT-rich flanking sequences markedly alters preferential interact

186 We determined that the flanking sequences near G-boxes help determine in vitro

187 erfering RNAs were enriched in the 5' and 3' flanking sequences of nonadditively expressed genes in t

188 a values predicted from structures, although flanking sequences of S-palmitoylated sites are enriched

189 key components of miRNA stem loops and their flanking sequences on the efficiency of mature miRNA exp

190 tion of subtle details such as the effect of flanking sequences or binding cooperativity.

191 target and non-target demonstrated that the flanking sequences provided the specificity for enhanced

192 Data analysis suggested that natural flanking sequences shorter than +6 residues can cause a

193 develops a general approach for identifying flanking sequences that can be used to drive transgene e

194 he transposase, resulting in transduction of flanking sequences to new genomic locations.

195 MiR200-b and its native flanking sequences were amplified and cloned into a pCAG

196 The RPL23 flanking sequences were further tested using the zeocin

197 ighly expressed genes in Chlamydomonas whose flanking sequences were tested for the ability to drive

198 es in relation to genes and their associated flanking sequences, we reveal that, in normal cells, gen

199 Moreover, we identified elements of core and flanking sequences, which are of critical importance for

200 e focused on assessing the length of natural flanking sequences, which surround each peptide included

201 ant substrate, together with splicing of the flanking sequences.

202 y favoring deformation of the repeat and the flanking sequences.

203 Here we found that unpaired DNA nucleotides flanking short base-paired DNA stretches, as in stem-loo

204 show a significant correlation with loss of flanking siRNAs, but we identified one gene supporting e

205 K1, subsequent slower phosphorylation of the flanking sites results in inhibition of the kinase.

206 ocus in detail and, by using imputation from flanking SNP genotype data, shows that it affects blood

207 cted to be large for a causative variant and flanking SNVs.

208 downstream of transcription start sites and flanking splice sites.

209 s directed to iso-oriented versus orthogonal flanking stimuli.

210 thogens and whose activity is repressed by a flanking substrate-binding leucine-rich repeat (LRR) dom

211 A protospacer adjacent motif (PAM) sequence flanking target DNA is crucial for self versus foreign d

212 ith Mu the common problem of repair of their flanking target gaps.

213 ent of the spatial separation of FISH probes flanking target genome regions of interest.

214 rget inaccessibility determined by sequences flanking target sites.

215 ated the phasing of these deletions with the flanking tens of thousands of heterozygous SNPs and inde

216 mers, with a pair of C-terminal domains from flanking tetramers completing the synaptic interface.

217 Genomic sequences flanking the 3'-side of L1s were amplified from neuronal

218 D0 domain of the KIR3DLs binds a loop region flanking the alpha1 helix of the HLA molecule.

219 high coverage genomes and find that regions flanking the amylase locus show notable depression of ge

220 el conformation, suggesting that the residue flanking the amyloidogenic peptide contributes to the st

221 s tandem array, and heterozygous for markers flanking the array, we measured interhomolog recombinati

222 "sensory motif" and two loops, RL1 and RL2, flanking the ATP-binding site playing a significant role

223 te NLS at the N terminus of large terminase, flanking the ATPase domain, that is conserved only in al

224 es circRNA biogenesis by binding the introns flanking the back-splicing junctions and that this contr

225 Sequences flanking the binding peak had a higher AT nucleotide con

226 ors such as 53BP1 and BRCA1 on the chromatin flanking the break site.

227 2 does not spread into the chromatin domains flanking the break.

228 We found that the density of SNPs/indels flanking the breakpoints of deletions (in-phase variants

229 electronic variation of the aromatic groups flanking the C horizontal lineO of the cyclopentadienone

230 with the dipole of the acceptor substituent flanking the carbene center being the major selectivity

231 ssure due to substituents on the heteroatoms flanking the carbene center, as well as inductive electr

232 We also found that the C-terminal extension flanking the catalytic core of Dbp4 plays an important r

233 ements, which are 5-15 amino acid extensions flanking the central PXXP motif for high affinity bindin

234 ypsy retrotransposons in the heterochromatin flanking the centromeres.

235 In addition, regions flanking the centromeric core were not associated with h

236 brane domain; the four transmembrane helices flanking the channel lumen alone seem to determine the p

237 perfect cyclin-dependent kinase (Cdk) sites flanking the CHD promotes actin ring formation, using si

238 ksplicing is facilitated by inverted repeats flanking the circularized exon(s).

239 The specificity of AR extends to the regions flanking the core 15-bp site, where isothermal calorimet

240 on the sequence or DNA shape of the regions flanking the core binding site are highly predictive of

241 Here we show that the nucleotides directly flanking the core-binding site, differ depending on the

242 SNP rs11265269, flanking the CRP gene, showed the strongest signal in GW

243 ing affinity is greatly enhanced by residues flanking the crystallographically-defined recognition mo

244 catalyst 1, containing trimethylsilyl groups flanking the cyclopentadienone ketone, gave the best res

245 , two copies of a 146-bp direct repeat motif flanking the deleted region were found in the self-ferti

246 required for the binding of BRCA1 to regions flanking the DSB, whereas BRCA1 binding directly to DNA

247 the same morphology, with negative curvature flanking the edges and with no visible protein structure

248 Indeed, the 3,000 bp flanking the excised transposons can contain over 10 tim

249 y regulated by the N- and C-terminal regions flanking the FH1-FH2 domains.

250 eotides complementing the 5'- and 3'-regions flanking the G4 have been connected by an abasic linker

251 ts differentially at the recombination sites flanking the genomic island.

252 ncover two lipid headgroup-interaction sites flanking the groove.

253 Both proteins contain a bromodomain flanking the HAT catalytic domain that is important for

254 Convergent CTCF insulator sites flanking the HLA-A gene promoter and the predicted trans

255 ver, the analysis of the enhancer landscapes flanking the HoxD cluster reveals that the bimodal regul

256 edly, includes the two pre-insertion strands flanking the hypothetical membrane-insertion loop.

257 ion of recombination signal sequences (RSSs) flanking the individual elements.

258 with a clear preference for the nucleotides flanking the integration site at the leader-repeat 1 bou

259 ntified sequences cover most of the sequence flanking the junction between the bacterial and human DN

260 Binding of an antibody to epitope sequences flanking the linker disrupts the interaction between the

261 We have identified two CTCF binding sites flanking the locus and two associated with a super-enhan

262 parasubiculum appears as a linear structure flanking the medial entorhinal cortex mediodorsally.

263 t maintaining longer, poly-A-containing arms flanking the miRNA stem-loop markedly enhanced transgeni

264 endonucleases coupled with paired guide RNAs flanking the mutated Dmd exon23 resulted in excision of

265 the Neurexin2 AS4 exon, compared with those flanking the Neurexin1 and Neurexin3 AS4 exons under joi

266 hylated in liver tumors at CpG dinucleotides flanking the NF-kappaB-binding sequence, supporting that

267 flexibility to wedge the RCC1 beta-propeller flanking the NLS against its lateral surface, preventing

268 sliding has been shown to depend on the DNA flanking the nucleosome, transcription factor binding at

269 ATPase activity and sense the length of DNA flanking the nucleosome.

270 ceptionally long untranslated regions (UTRs) flanking the open reading frame.

271 to parS-L, one of two centromere-like sites flanking the parAB genes.

272 tered the dynamics of a 17-amino-acid region flanking the phosphorylated histidine.

273 Here we establish how the domains flanking the polyQ tract shape the mHtt conformational l

274 omic microarray chips covering about 8000 bp flanking the predicted transcription start sites in Xeno

275 DNA sequences immediately flanking the previously defined AICE motif controlled th

276 Haplotypes of polymorphic markers flanking the PRPH2 locus and sequence variants within th

277 e molecular function provided by the regions flanking the PUF RNA-binding domain is unknown.

278 We show that only nine amino acids flanking the putative cleavage site are necessary and su

279 , and show increased de novo point mutations flanking the rearrangement junctions.

280 tes with the levels of histone crotonylation flanking the regulatory elements of activated genes.

281 ation and activity are mediated by sequences flanking the RNA-binding domain that bind specific molec

282 kinase-mediated phosphorylation of segments flanking the SAH domain.

283 n target pri-miRNAs, including the sequences flanking the stem-loop region, contributed to high affin

284 olyzed prosystemin at two aspartate residues flanking the systemin sequence.

285 of a short protospacer adjacent motif (PAM) flanking the target site, and subsequent R-loop formatio

286 lated by ATP analogs as well as DNA sequence flanking the TATA sequence.

287 and a functionally important segment of DNA flanking the TATA sequence.

288 e promoter elements, which are DNA sequences flanking the transcription start site (TSS) that help di

289 us flgM allele were restricted to two codons flanking the translation-defective codon.

290 oprotein regions embedded in and immediately flanking the viral membrane dictate active incorporation

291 tion behavior is influenced by the sequences flanking them.

292 The three loops flanking these helices show a preponderance of negative

293 Sequences flanking these mutation sites were characteristic of tho

294 eases because they suggest that the residues flanking these repetitive sequences may represent viable

295 es promotes alignment of large tracks of DNA flanking these sites.

296 drophobic and aromatic residues in positions flanking this core of five amino acids.

297 ntain a nuclear localization signal sequence flanking to the K1 segment and a novel conserved region

298 based on liberation of sgRNAs by processing flanking tRNAs, permits highly efficient multiplexing of

299 ation-the addition of subsidiary cells (SCs) flanking two dumbbell-shaped guard cells (GCs)-is linked

300 gene conversion-like mechanism that employs flanking variable leucine-rich repeat sequences as templ