ライフサイエンスコーパス: sequence

1 Macrophage-Associated Atherosclerosis lncRNA Sequence).

2 nd from the entire Palaearctic region (8,093 sequences).

3 oximately 20 residues in the ExoU amino acid sequence.

4 rare codons at the beginning of their coding sequence.

5 that depends on the current position in the sequence.

6 ription and read through its polyadenylation sequence.

7 sis of genomic regions that are difficult to sequence.

8 DNA was extracted and sequenced.

9 well as a set of highly permeable consensus sequences.

10 r researchers who wish to annotate their own sequences.

11 when their genetic parts contain repetitive sequences.

12 overy and phase-sensitive inversion recovery sequences.

13 to support the expression of reverse-ordered sequences.

14 ble their complete amino acid and nucleotide sequences.

15 th homogeneous and non-homogeneous base-pair sequences.

16 ion and the high quality of the Y chromosome sequences.

17 in conformation capture with high-throughput sequencing.

18 -derived macrophages and microglia using RNA sequencing.

19 ction and genotypes determined by subgenomic sequencing.

20 ated genes detectable only through long-read sequencing.

21 ally important traits and from genotyping-by-sequencing.

22 -throughput nature of 16S rRNA gene amplicon sequencing.

23 from clinical samples using R9.4.1 Nanopore sequencing.

24 ignificantly reduce the cost of reagents and sequencing.

25 ion by both mRNA-based and genomic DNA-based sequencing.

26 We identify convergence of antibody sequences across SARS-CoV-2-infected patients, highlight

27 In this paper, we present ADEPT, a new sequence alignment strategy for GPU architectures that i

28 As SneakySnake does not replace sequence alignment, users can still obtain all capabilit

29 sition that allow OGT prediction from genome sequence alone.

30 t publication of a high-quality wheat genome sequence, alongside gene expression atlases, variation d

31 n-NAFLD controls are analyzed using 16S rRNA sequencing; an independent Western cohort is used for ex

32 Mechanistically, single-cell RNA-sequencing analyses of a mesenchymal niche model showed

33 RNA sequence analysis of pn-csERRalpha/gamma knockdown heart

34 s of monomer glycoforms; (4) native top-down sequence analysis of the avidin tetramer is possible by

35 We develop a pipeline, Antibody Sequence Analysis Pipeline using Statistical testing and

36 mic web-based platform, NASQAR (Nucleic Acid SeQuence Analysis Resource).

37 hat persist on ART are genetically intact by sequence analysis.

38 This flexible tool is now part of routine sequencing analysis at the Department of Medical Genetic

39 Further, RNA sequencing analysis revealed altered gene expression in

40 , we performed chromatin immunoprecipitation sequencing analysis using patient-derived CIC-DUX4 cells

41 These days, enormous amounts of DNA sequence and other omics data are generated.

42 rmutations and interrogate the impact of STR sequence and secondary structure on their genomic repres

43 Using S. cerevisiae proteins, we identified sequence and structural features within ALAS that positi

44 ewiring of contacts at a certain position in sequence and structure, we introduced a new metric desig

45 Here we sequenced and assembled approximately 3.1 Mb of the S(2)

46 After a new genome is sequenced and assembled, structural gene annotation is o

47 folding problem, exploring a large space of sequences and selecting ones predicted to fold.

48 rease in the number of T-cell receptor (TCR) sequences and their cognate antigens.

49 Using RNA sequencing and drug screening, we find that treatment of

50 with chromatin immunoprecipitation with deep sequencing and functional characterization conducted in

51 G12D and G12V mice were identified using RNA sequencing and reverse-phase protein array analyses.

52 Using single-cell and bulk TCR sequencing and structural affinity analyses of cytomegal

53 By studying whole-exome sequencing and whole-genome bisulfite sequencing of cell

54 ighbouring southern Italian Peninsula (1,398 sequences) and from the entire Palaearctic region (8,093

55 late the input information into an arbitrary sequence, and finally amplify the prescribed sequence th

56 -weighted imaging, dynamic contrast enhanced sequences, and magnetic resonance spectroscopy that may

57 ession by RNA-sequencing, whole-genome/exome sequencing, and clinical covariates in 134 neuroblastoma

58 hromatin immunoprecipitation sequencing, RNA sequencing, and expression quantitative trait loci data.

59 However, new sequencing approaches, particularly whole-genome sequenc

60 genes and almost 100 million unique protein sequences are currently stored in the database.

61 cer function, and confirm that core promoter sequences are necessary for this activity.

62 nscripts of eukaryotic nuclear genes, coding sequences are often interrupted by U2-type introns.

63 of in silico methods that take only protein sequence as input to predict binding of protein to DNA,

64 ns assemble at the origin-of-transfer (oriT) sequence as the relaxosome, which nicks the DNA strand d

65 a high-throughput phage immunoprecipitation sequencing assay covering the complete reference protein

66 ds that are properly aligned to the bovine Y sequence assembly accounted for 46.49%, indicating the s

67 native T1 and ECV using the MOLLI T1 mapping sequence at 1.5 T.Supplemental material is available for

68 nd with a self-navigated "Koosh ball" 3D UTE sequence at free breathing (TE, 0.03 msec).

69 ome Conformation Capture (3C), we identified sequences at the 5' and 3' boundaries of this mammalian

70 entally validated internal mRNA m7G sites, a sequence-based high-accuracy predictor, the first web se

71 and integrated chromatin immunoprecipitation-sequencing-based analyses demonstrate that direct readou

72 links noncovalent RNA complexes with mimimal sequence bias and establish that the crosslink can be re

73 t performance in identifying gene regulatory sequences, but they have provided limited insight into t

74 ncing chemistry removes limitations bound by sequence-by-ligation chemistry of ISS.

75 Substrate sequences C-terminal to the dephosphorylation site make

76 he way to cost-effective single-molecule DNA sequencing, capable of handling widely varying GC-bias,

77 rate approximately 25 times greater than DNA sequence changes and typically have short half-lives of

78 s for high-throughput efficiency and the new sequencing chemistry removes limitations bound by sequen

79 unoprecipitation followed by next-generation sequencing (ChIP-seq) was used to assess a range of N-te

80 n avian-specific gamma-c clade, within which sequences cluster by species, suggesting frequent duplic

81 rtantly, four motifs of conserved nucleotide sequences (CNSs) were also determined, which are essenti

82 for the first time in-depth single-cell RNA sequencing, combined with spatial transcriptomics and im

83 Sequence comparison of these 2 intermediates and iterati

84 ghbour-joining phylogenetic trees and direct sequence comparison were used to detect the presence of

85 record of variation and divergence read from sequence comparisons.

86 itical review, we focus on the definition of sequence complexity of LCRs and their connection with st

87 this non-domain "interkinase region" has low sequence complexity, has high proline content, and lacks

88 Despite high sequence conservation and structural similarity in the N

89 exons, transposable element composition, and sequence conservation level across legume species.

90 We present image sequences containing internal temporal structure to huma

91 SNP)-trait associations, which leads to high sequencing cost.

92 Using single-cell RNA sequencing coupled with high-resolution in situ hybridiz

93 ces matching with >95% sequence identity and sequence coverage to the manually curated sequences than

94 SA-Seq data analysis require relatively high sequencing coverage to detect significant single nucleot

95 douridylation of the miRNAs, high-throughput sequencing crosslinking immunoprecipitation (HITS-CLIP)

96 st that the contribution from the metagenome sequence data is significant with P-values less than 4.0

97 phylogenomic analysis based on genotyping-by-sequencing data [6] of the 15 species of Scalesia (Darwi

98 Sequencing data are often summarized at different annota

99 Whole genome sequencing data did not identify a strain genotype-disea

100 Atlas (TCGA), which aggregated whole-genome sequencing data from 2,658 cancers across 38 tumor types

101 al entry-associated genes in single-cell RNA-sequencing data from multiple tissues from healthy human

102 gnostic workflow for analysis of metagenomic sequencing data obtained from clinical samples using R9.

103 medically important mites based on total RNA sequencing data sets generated in this study as well as

104 and statistical analyses of T cell receptor sequencing data, we develop a quantitative theory of hum

105 ans from collecting tissues to obtaining raw sequencing data, with additional time required for data

106 on from different tissues in single-cell RNA-sequencing data.

107 sase-accessible chromatin in single cells by sequencing defined the transcription factor NFE2L2/NRF2

108 To more generally test for sequence dependence, we conducted correlation analyses a

109 is thus of interest to eliminate the use of sequencing depth and analyze the original count data dir

110 Variant calling and insertion sequence detection were performed, focusing on key genes

111 Here, we performed Direct RNA Sequencing (DRS) using the latest Oxford Nanopore Techno

112 with a prototypical stack-of-spirals 3D UTE sequence during single breath holds (echo time [TE], 0.0

113 gen to colonize new niches, interrogation of sequenced E. coli O157:H7 genomes showed a high level of

114 We systematically searched for structure and sequence elements shared by both lineages.

115 High-throughput sequencing experiments followed by differential expressi

116 information, such as that from microarray or sequencing experiments.

117 Whole genome and exome sequencing followed by Sanger confirmation were performe

118 yl hydride landscape suggest a single linear sequence for this transformation involving a sigma compl

119 of a MALDI-ToF sample, provided the collagen sequences for each candidate species are available.

120 n in these cells via incorporation of target sequences for skeletal muscle cell-specific miR-206.

121 ing of 87 tumors with matching transcriptome sequencing for 63 tumors was performed.

122 Here we demonstrate the power of metagenomic sequencing for identifying ongoing outbreaks and their e

123 ty to the triose-phosphate isomerase protein sequence from Dermatophagoides farinae, an allergenic du

124 The causative virus was later sequenced from a RT-PCR-positive individual and assessed

125 s the majority of these genomes with viruses sequenced from Washington state.

126 Genetic sequences from 320 MSI tumor biopsies and matched health

127 used GLIPH2 to analyze 19,044 unique TCRbeta sequences from 58 individuals latently infected with Myc

128 eatures that distinguish one set of antibody sequences from antibody sequences in a reference set.

129 domain independent, supporting alignment of sequences from both genomes and proteins.

130 Viral sequences from infected individuals were grouped into 3

131 ysis was conducted using six chloroplast DNA sequences from leaf material from across the BI and the

132 Genotyping-by-Sequencing (GBS) was applied in a set of 53 diploid Prun

133 Transposon sequencing has been employed to define the core essentia

134 As access to whole-genome sequencing has grown, greater amounts of molecular data

135 d on sequence signatures, ligands of shorter sequences have not been identified, together with many "

136 ng allelic and non-allelic (e.g. pseudogene) sequences have received scant scrutiny and, crucially, r

137 embrane protein of unknown function with low sequence homology but high structural homology to both y

138 e present Hybridization of Probes to RNA for sequencing (HyPR-seq), a method to sensitively quantify

139 were processed via a commercial software for sequence identification.

140 n immune-evasive Yp Analysis of Yp pagP gene sequences identified a single-nucleotide polymorphism th

141 ting three templates of different origin and sequence identities, we provide an optimal condition for

142 more consensus sequences matching with >95% sequence identity and sequence coverage to the manually

143 Although long-read sequencing improves this issue, it is not amenable to pr

144 one set of antibody sequences from antibody sequences in a reference set.

145 ented one of its most extraordinary eruptive sequences in at least 200 years, yet the trigger mechani

146 e spatiotemporal activity of Gdf5 regulatory sequences in experimental OA following destabilisation o

147 reveal the presence of HPG and KoRV-related sequences in several locations across northeast Australi

148 that are enriched for translational enhancer sequences in the 5' untranslated region (UTR) and rare c

149 rest algorithms to identify swine-associated sequences in the hemagglutinin gene to differentiate bet

150 efficiency for the introduction of large DNA sequences in zygotes is low.

151 ing, we compare trial enrollment using ctDNA sequencing in 1,687 patients with advanced gastrointesti

152 o address this gap, we performed whole-exome sequencing in 58 men with unexplained meiotic arrest and

153 eys of these domains from the second Newborn Sequencing in Genomic Medicine and Public Health (NSIGHT

154 Whole genome sequencing in multiplex families, proband-parent trios,

155 d suboptimal (motion artifacts in one or two sequences) in 30%.

156 Binding is sequence-independent with residues N13, R16, R17 and Q41

157 Sws2 photopigments for which both amino acid sequence information and experimentally measured lambdam

158 es contain somatic integrations of telomeric sequences into non-telomeric DNA.

159 usion-mediated repositioning of a regulatory sequence is much more common than previously suspected,

160 A significant limitation of standard MRI sequences is that the ventral intermediate nucleus, dent

161 We utilized sequence kernel association testing and polygenic risk s

162 Sequence labeling method can be successfully used to ext

163 the GABA(B) agonist baclofen impaired motor sequence learning and visuomotor learning in 20 young he

164 High-throughput sequencing, liposomal nanoallergen display, bead-based a

165 ied ITT was 70% according to next-generation sequencing (<10-5 sensitivity).

166 ntified approximately 3 times more consensus sequences matching with >95% sequence identity and seque

167 Integrated RNA sequencing, metabolomics, and molecular analyses showed

168 We addressed this using RNA sequencing metagenomics(4-6) of placental samples from n

169 An unbiased protein sequencing method, with a dynamic range that covers the

170 op a technique, named MNase hypersensitivity sequencing (MH-seq), to identify genomic regions associa

171 integral membrane proteins contain conserved sequence motifs that are known to be important in helix

172 e expression atlases, variation datasets and sequenced mutant populations, provides a foundation to i

173 sults: White PI Z heterozygotes confirmed by sequencing (MZ; n = 74) had lower post-bronchodilator FE

174 s, mutation and NMR, we identify a 7-residue sequence, named P1 (residues 36-42), that controls alpha

175 hen use genome editing to disrupt the coding sequence of a S. rosetta C-type lectin gene, rosetteless

176 The reported first genome sequence of a tropical rubber tree pathogen R. microporu

177 microtubules and motor proteins disrupt this sequence of events.

178 ural interstrain variation in the amino acid sequence of gO influences the biology of HCMV.

179 r) overlapping peptides, covering the entire sequence of ovomucoid, in plasma of 38 egg-allergic and

180 rithm identified a mutational hotspot in the sequence of S that also displays a signature of positive

181 in vertebrate cells(3-7), but the identical sequence of sister chromatids has made it difficult to d

182 omic comparisons with a new chromosome-scale sequence of the invertebrate chordate amphioxus.

183 all currently available annotated reference sequences of 22 C. albicans strains, thus offering a hig

184 the lack of fundamental information relating sequences of antibodies to their unique properties as in

185 ssay covering the complete reference protein sequences of known viruses with human tropism.

186 vealed the presence of heterogeneous spatial sequences of metal ions that we describe, depending on t

187 Sequencing of 1,314 SARS-CoV-2 viral genomes from availa

188 Whole-exome sequencing of 159 prospectively resected pituitary adeno

189 etic variants were identified by whole-exome sequencing of 2 patients with familial IMD.

190 g on palms, soles or nail beds, whole genome sequencing of 87 tumors with matching transcriptome sequ

191 ted in vivo by chromatin immunoprecipitation sequencing of a patient-derived xenograft.

192 replication, we performed follow-up targeted sequencing of ASH1L in additional 524 unrelated TS sampl

193 eoclast ablation by denosumab (DMAb) and RNA-sequencing of bone biopsies from postmenopausal women to

194 -exome sequencing and whole-genome bisulfite sequencing of cell free DNA (cfDNA) and of matched metas

195 expression associated with CUD by using RNA sequencing of dorsal-lateral prefrontal cortex neurons.

196 he profiling of bacterial communities by the sequencing of housekeeping genes such as that encoding t

197 controlled trial of rapid diagnostic genomic sequencing of infants in regional ICUs.

198 cing (RenSeq) with single-molecule real-time sequencing of PacBio for 18 accessions in Solanaceae, in

199 results were analyzed by bi-directional PCR/sequencing of residual blood culture samples.

200 Whole genome sequencing of select transformants demonstrated that rec

201 16S rRNA gene sequencing of SIgA-coated/uncoated bacteria (IgA-Biome)

202 However, genome sequencing of specimens is challenging because of low ba

203 isease.Methods: We performed single-cell RNA sequencing of sputum cells from nine subjects with CF an

204 otor methylation was quantified using Sanger sequencing of the CpG sites 74-98 within the MGMT promot

205 omes of sheep, with a focus on isolation and sequencing of the ovine Y chromosome.

206 MIC, pDST and whole genome sequencing of the pncA, rpsA and panD genes were used to

207 n problem, and have generated high depth RNA-sequencing on FUS mutants in parallel to FUS knockout, a

208 We performed whole exome sequencing on this cohort and applied 2 hypotheses to ou

209 ent, we performed genome-wide RNA tomography sequencing on zebrafish, chicken, mouse, and human embry

210 The statistical analysis (descriptive, sequence pattern analyses, and logistic regression analy

211 ression profiling by tagging RNA in situ and sequencing (PETRI-seq)-a low-cost, high-throughput proka

212 , we show that putative G-quadruplex forming sequences (pG4) in 5' and 3' UTRs are selectively constr

213 uently two proteins, that differ only by the sequence position of the N terminus.

214 e mimics of the TAR-binding beta2-beta3 loop sequences present in two high-affinity TBPs (K(D) values

215 sumed, showing that the presence of enhancer sequences, rather than either their exact topology or a

216 this study as well as those deposited in the Sequence Read Archive (SRA) database.

217 his allosteric network by means of ancestral sequence reconstruction (ASR), which is an in silico met

218 s of knobs, those composed of 180-bp and TR1 sequences, recruit their own novel and divergent kinesin

219 ces, we conducted resistance gene enrichment sequencing (RenSeq) with single-molecule real-time seque

220 2.02, 2.05-2.06, and 6.05 between the simple sequence repeat (SSR) markers umc1165-bnlg1017, umc1065-

221 These studies provide new insight into the sequence requirements for developing novel CPPs for tran

222 analysis of the nanopore- and Sanger-derived sequences resulted in indistinguishable trees.

223 Whole genome sequencing revealed differences in putative virulence ge

224 Microarray analysis and single-cell RNA sequencing revealed that a number of cytokine-inducible

225 Genomic sequencing revolutionized the epidemiological understand

226 toid arthritis to allow for longitudinal RNA sequencing (RNA-seq).

227 examined with chromatin immunoprecipitation sequencing, RNA sequencing, and expression quantitative

228 example, batch annotation of TCR repertoire sequencing samples allows for annotating large datasets

229 The haplotypes of the sequenced SARS-CoV-2 viruses were diverse and changed ov

230 ntegrated recently published single-cell RNA-sequencing (scRNA-seq) data from 727 peripheral and nerv

231 nalyzed previously generated single-cell RNA-sequencing (scRNA-seq) data of gastric corpus epithelium

232 The development of single-cell RNA sequencing (scRNA-seq) has allowed high-resolution analy

233 f blinding diseases, we used single-cell RNA-sequencing (scRNA-seq) to analyze the transcriptomes of

234 Single-cell sequencing (SCS) has impacted many areas of cancer resea

235 ositories do not allow one to perform online sequence searches, yet, such a feature would be highly u

236 ulations to identify and analyze Neanderthal sequences segregating in modern humans.

237 unprecedented insight into how different DNA sequences select distinct compositions and configuration

238 The phage-associated PmoC sequences show high similarity to (>90%), and affiliate

239 lthough many ligands were predicted based on sequence signatures, ligands of shorter sequences have n

240 s show that PGC-1alpha binds to intronic RNA sequences, some of them controlling transcript levels as

241 the ever-increasing number and diversity of sequenced species, the challenge to characterize genes w

242 ers examined to date, whereas G3 exhibits no sequence-specific insertion.

243 design of tandem mass spectrometry-based CAD sequencing strategies for mixtures of lignin degradation

244 ns difficult to isolate and then single-cell sequence such populations because of compounding losses.

245 The utility of advanced MRI sequences such as diffusion-weighted imaging, dynamic co

246 of age, one of whom had two identical intact sequences, suggestive of a cell clone harboring a replic

247 When expressed on its own, this sequence targeted to microvilli in the absence of any di

248 nventional genetic tools and next-generation sequencing technologies.

249 nd sequence coverage to the manually curated sequences than the original RepeatModeler.

250 border using a noncanonical apical targeting sequence that maps to a previously unannotated region of

251 in continuous phylogeographic analyses, H5N1 sequences that are only associated with large administra

252 evolutionary Stokes shift in the fitness of sequences that have undergone evolution under our simula

253 ncer-specific histone mark H3K4me1 and carry sequences that match enhancer boundary nucleotide compos

254 of nonforming or noninfective capsid protein sequences that reduce the effective depth of synthesized

255 Over a 10-y period, we collected and sequenced the genomes of 110 VREfm isolates from gastroi

256 Here, we sequenced the whole genomes of 24 individual pigs repres

257 By sequencing the whole genome of MERS-CoV from persistentl

258 reversible potassium sulfide K(2) S(n) phase sequence, the parasitic polysulfide shuttle, pulverizati

259 sequence, and finally amplify the prescribed sequence through autonomous formation of a signaling con

260 We applied nanopore-based direct RNA sequencing to characterize the developmental polyadenyla

261 sess Treg stability such as bisulfite Sanger sequencing to determine the methylation status of the Tr

262 4-second LC-MS method, and barcoded nanopore sequencing to rapidly isolate and characterise the best

263 ion on NF admission, we applied whole-genome sequencing to track the spread of 4 ARO species across r

264 We found that 22 of 26 sequence type (ST) 69 isolates from this collection cont

265 (5)) sequence type are dominant, endemic(6-8) and associated

266 STing determines the sequence type of traditional 7-gene MLST with 100% accur

267 Single-cell RNA sequencing uncovered three epicardial subpopulations wit

268 ding affinity of aptamers by modifying their sequences upon their G-quadruplex and secondary structur

269 t transcription factors bind to specific DNA sequences using a combination of base readout and shape

270 s prime mRNA transcription using host 5' cap sequences, usurping host translational machinery and eva

271 not TMPRSS2 or Furin, has a higher level of sequence variability in the Spike protein interaction su

272 Disease-causing sequence variants often affect binding residues.

273 s contribution to binding affinity, and that sequence variations in H2 that do not change the level o

274 ver, analysis of DNA from 79 subjects showed sequence variations in the latent protein, LMP1, which a

275 tion of key ligand residues within the short sequence was undertaken, and the interaction of the resu

276 The availability of whole genome sequences was expected to supply essentially unlimited d

277 Whole genome sequencing was performed on 20 matched blood and aqueous

278 cibility of meropenem resistance, short read sequencing was performed using an Illumina NextSeq500 se

279 Whole genome sequencing was used to uncover a frame-shift insertion a

280 Using 18,514 sequences, we perform phylogenetic, population genetics,

281 To classify dynamically triggered sequences, we suggest moving away from strict statistica

282 Using allele-specific single-cell RNA sequencing, we here estimate the two noise components of

283 Using whole genome sequencing, we identified a heterozygous frameshift vari

284 ute-immunoprecipitations and high-throughput sequencing, we provide experimental evidence for the dev

285 Using nascent RNA sequencing, we show that an AS15 analogue triggers the u

286 A total of 10,707 sequences were collected between 2004 and 2017 across 26

287 hout microdissection because the majority of sequences were contaminants.

288 These 7 intact sequences were from three children who initiated ART aft

289 90% complete), although the vast majority of sequences were small fragments, which highlights the cha

290 he use of targeted panels versus whole-exome sequencing (WES).

291 s within 7 days were chosen for whole-genome sequencing (WGS) and a phylogenetic analysis was perform

292 landscape of myeloma using deep whole-genome sequencing (WGS) and develop a model that identifies pat

293 Established methods for whole-genome-sequencing (WGS) technology allow for the detection of s

294 encing approaches, particularly whole-genome sequencing (WGS), have dramatically changed the landscap

295 ing and they do not consider novel microbial sequences when aligned with the reference genome, limiti

296 is influenced by both enhancer and promoter sequences, whereas Pol II loading rate is primarily modu

297 convert molecular inputs into generic output sequences, which allows for the target recognition and s

298 elomeres (ALT)], TERT mRNA expression by RNA-sequencing, whole-genome/exome sequencing, and clinical

299 CheckV estimates completeness by comparing sequences with a large database of complete viral genome

300 COIN elements preferentially insert at TNA sequences with a preference for C and G nucleotides in t

301 on, provided that autosomal trans-regulatory sequences with sex-limited effects are available to comp

302 We find that nanopore sequencing with Hi-C scaffolding produces highly contigu

303 ely predict protein expression from promoter sequences would enable rapid generation of useful promot