ライフサイエンスコーパス: read

1 sent CLAM (CLIP-seq Analysis of Multi-mapped reads).

2 iparametric contrast-enhanced MR images were read.

3 ars of experience or volume of 2D mammograms read.

4 .9% accuracy of assembly polished with MiSeq reads.

5 matched 35% of the Illumina PMEZ Pseudomonas reads.

6 contain 20-80% of mitochondrial sequencing reads.

7 s k-mers) profiles of the RNA-Seq paired-end reads.

8 nd thus are difficult to identify with short reads.

9 ies that works by simulating a set of tandem reads.

10 loyed and generated more than 488.46 million reads.

11 ells, that can confound analysis using short reads.

12 g and <20 h for processing of raw sequencing reads.

13 i that contribute most of the L1-related RNA reads.

14 sequence of complete JCPyV genomes in single reads.

15 steps of the assay, including incubation and reading.

16 About 64% and 67% of quality filtered reads (1,148.09 million) were mapped onto A (A. duranens

17 t line; potential range of change in letters read, -121 to +101; minimal clinically important differe

18 ons, AMD participants, compared to controls, read 46 words per minute (wpm) slower on MNRead (95% con

19 We applied this approach to the domain of reading, a crucial ability in which there are known to b

20 The average viral reads per total reads, a measurement of efficiency, was as high as 84.2%

21 As read abundance biases are taxon specific and predictable

22 e target loci may be another explanation for read abundance differences between taxa, which would aff

23 uency, 16S abundance, prokaryotic- and viral-read abundance.

24 tivity and specificity under a wide range of read accuracies.

25 wn to develop only through experience (i.e., reading acquisition), and widespread literacy is too rec

26 ChIP-target binding loci from the resultant reads after mapping them to a reference genome.

27 uencing has the advantage of generating long reads albeit with a relatively higher error rate in unpr

28 and speed with non-private state-of-the-art read aligners on short read data.

29 employed as a full-text searchable index for read alignment and de novo assembly.

30 or each long read, references the other long reads' alignments to find the most accurate alignment an

31 re not inferior to the results of the visual reading analysis was tested.

32 Experimental achievements include reading and manipulating single nuclear spins, exploitin

33 main via G protein signaling is required for reading and responding to guidance and survival cues con

34 All changes except Stroop word reading and total functional capacity remained significa

35 To demonstrate independent reading and writing, we built an atomic-scale structure

36 About 967 million reads and 191 Gb of sequence were produced, using Illumi

37 Researchers can assemble their raw sequence reads and annotate the contigs using RASTtk.

38 Cost-saving short (50-bp) single-end reads and Nextera (R) library preparation yield reliable

39 e comparison of k-mers present in both input reads and the assemblies.

40 equenced (16S SSU rRNA genes, average 10,000 reads), and biogeochemical parameters are monitored by q

41 The Sequence Read Archive (SRA) contains raw data from many different

42 iotechnology Information's (NCBI's) Sequence Read Archive (SRA) via unique persistent identifiers.

43 as a multinomial distribution, and ambiguous reads are assigned to the most probable isoform in each

44 Barcode-linked reads are used to generate extended haplotypes on the or

45 e-based detection where the concentration is read as the length of colored band formed on the reactio

46 way comparison including the published short-read assembly (SR) constructed for the same individual a

47 We explore connections between metagenomic read assignment and the quantification of transcripts fr

48 Read assignment is an important first step in many metag

49 silently over a longer duration, both groups read at similar speeds, though AMD patients demonstrated

50 ime tl of a single measurement, the expected reading at time tl, and the factor 2/ln(2).

51 icantly larger VCDR and HCDR than photograph reading before and after stratifying eyes based on disc

52 etic resonance imaging experiments: (1) word reading (Braille for blind and print for sighted partici

53 FFA was reduced by 44.3, PV by 50.2, and FOS reading by 40.1% in com I whereas reductions of 41.6, 44

54 OCT and photograph reading by clinicians agree poorly in CDR assessment.

55 ations of this motif directly modulate proof-reading by eliminating or enhancing selectivity for vira

56 Here, we directly monitor RNA proof-reading by RIG-I and we show that it is controlled by a

57 The ambiguous mapping of short reads by and high cost of current bisulfite sequencing p

58 Long sequence reads can also be used to delineate complex chromosomal

59 Panel of retina specialists, image reading center experts, retinal histologists, and optics

60 nual grades and ARIAS results were sent to a reading center for arbitration.

61 urements were performed by masked, certified Reading Center graders using the Visante's Internal Meas

62 reased autofluorescence were quantified by a reading center.

63 Images were evaluated by staff at a central reading center.

64 We measured VA with Radner reading charts and QoL with the Health Utilities Index i

65 e, we provide the detailed protocol for long-read ChIA-PET that includes cell fixation and lysis, chr

66 ved the original approach by developing long-read ChIA-PET, in which the length of the paired-end tag

67 GROC-SVs) for SV detection and assembly from read cloud data and apply this method to Illumina-sequen

68 5' and 3' PCR primer matching, and duplicate reads collapsing.

69 oud and sustained silent reading speeds, and reading comprehension.

70 These barcoded reads contain long-range sequence information that is ad

71 genome and exome sequencing usually include reads containing mitochondrial DNA (mtDNA).

72 thod designed specifically for aligning long reads contaminated by a high level of errors.

73 The assembly pipeline comprised initial read correction with Canu and assembly with SMARTdenovo.

74 The association of taxon abundance and read count was actually less predictable with fewer cycl

75 vidual genes between two techniques for both read counts and fold changes between given conditions.

76 Also, the properties of sequencing read counts can be leveraged to achieve a more precise e

77 e on the base-level proportion of sequencing read counts from two samples.

78 limited number of WGS samples, insufficient read coverage, and the impurity of tumor samples that co

79 oduct, reducing ligation bias, and improving read coverage.

80 genomic regions associated with more mapped reads (coverage) than expected by chance, as a result of

81 generated Pacific Biosciences (PacBio) long-read data of the genomes of three relatives of the model

82 SVs reveals novel variants, missed in short-read data sets, a large proportion of which are retrotra

83 e pipeline such as, handling variable-length read data, and searching spliced sequences for splicing

84 yielded 1.44 Gbp of high-quality, non-human read data, from which we recovered three essentially com

85 vate state-of-the-art read aligners on short read data.

86 tion-specific nucleotide biases in HTS short read data.

87 binomials, which in simulations matches the read depth more closely than the often-used negative bin

88 In this model, the read depth within a region is a mixture of binomials, wh

89 Lower read depth, as low as 40x, was occasionally observed wit

90 We also characterize the read depths necessary to achieve sensitivity and specifi

91 the presence of the CPV transcriptome, with read depths ranging from 2.2X - 12,381X, genome coverage

92 current methods analyse the complete set of read-derived k-mer sequence at once, resulting in the ne

93 ation relies entirely on counting sequencing reads, detailed studies about the method's accuracy are

94 mass spectrometry, and the peptide sequences read directly from the resulting spectra.

95 mined the degree to which different kinds of reading disabilities (defined as profiles or patterns of

96 pmental difficulties of children with unique reading disability profiles and reasons for their readin

97 y findings across children with quite varied reading disability profiles that we hypothesize compound

98 ng disability profiles and reasons for their reading disability.

99 al methods, less GC bias, and the ability to read DNA base modifications.

100 ed due to challenges with interpreting short-read DNA sequences.

101 Recent advances in long-read DNA sequencing technologies, specifically Nanopore

102 g synthetic biology tools combined with long-read DNA sequencing, we optimize productivity by 50-fold

103 are required to monitor in real time how SRA reads DNA and flips the modified nucleobase.

104 e reference genome do not align with a given read due to high dissimilarity.

105 Genomes project demonstrated that 70-95% of read duplicates observed in such datasets correspond to

106 sed interface with which Python programs can read, edit, and write NMR-STAR formatted files and their

107 om matches to a reference database with RTnS reads enables rapid and confident species identification

108 ncluding strand bias and low base quality at read ends.

109 With 40k self-corrected PacBio reads equivalent to 4.5x genome coverage in Arabidopsis

110 t motion processing deficits are due to poor reading experience.

111 iable predictions limit their acquisition of reading expertise.

112 mane view on poverty that should be required reading for policy makers, particularly those interested

113 This is accomplished by adding "hinges" to reads for constructing an overlap graph where only unres

114 fraction of A-ending reads versus A+C-ending reads for each tRNA species in the same sequencing react

115 can therefore increase the proportion of NGS reads for low-abundance targets.

116 e observed similar results with experimental reads for NA24385, an individual whose germline variants

117 when accurate to the first order of eta C , reads [Formula: see text](DeltaT (2)).

118 uses a model-based method to compare allele read fractions at known single-nucleotide polymorphisms,

119 angiopoietin 4 (ANGPT4), chromosome 11 open reading frame (C11orf30/EMSY), and exocyst complex compo

120 Remarkably, the approximately 1,100 bp open reading frame (ORF) encoding the envelope proteins is fu

121 e introduction of a frameshift into the open reading frame (ORF) of the target gene which truncates t

122 Reading frame altering genomic variants can impact gene

123 mains of life, RelE has potential to improve reading frame and shed light on A-site occupancy in ribo

124 e features: TRmIND by the length of the open reading frame and TRmD both by a approximately 60 nucleo

125 The nonclassical open reading frame in the FCGR2C gene (FCGR2C.nc-ORF) was str

126 The virion infectivity factor (Vif) open reading frame is conserved among most lentiviruses.

127 his quality control step produces defects in reading frame maintenance.

128 embrane protease, serine 2) gene to the open reading frame of ERG, encoding an ETS family transcripti

129 uscular dystrophy caused by mutations in the reading frame of the dystrophin gene disrupting its prot

130 hancing factor (PTEF) relieves upstream open reading frame repression and thereby facilitates VAR2CSA

131 PR/Cas9 system despite their lacking an open reading frame to evaluate functional loss.

132 ynamic during cellular transitions, preserve reading frame, and reveal intricacy of cell states invis

133 no termini of these proteins to the NP1 open reading frame, and splice site mutations that prevented

134 emming from variants that produce an altered reading frame, such as stop-lost variants and small inse

135 nserted sense or antisense to the luciferase reading frame, the XDP variants repressed or enhanced tr

136 rational when combined with an upstream open reading frame.

137 ism and to the presence of the atypical open reading frames (ORFans) F-orf and M-orf, respectively in

138 Ribo-TISH can also predict novel open reading frames (ORFs) from regular ribosome profiling (r

139 The open reading frames (ORFs) involved have functions related to

140 ity leading to the formation of altered open reading frames (ORFs) that appear to be under relaxed se

141 oduce 21 transcripts with nine distinct open reading frames (ORFs).

142 Each genome encodes 21 open reading frames (ORFs).

143 of Kozak sequence composition, upstream open reading frames (uORFs), and secondary structure.

144 of HERV-K elements, still retain intact open reading frames and the capacity to produce certain viral

145 nscript is produced with small upstream open reading frames in its 5' untranslated region.

146 d due to the presence of multiple small open reading frames upstream of the coding region.

147 l-CoA carboxylase subunit D (accD)-like open reading frames.

148 s and thereby generate mutations in all open reading frames.

149 le-genome imputation based on the off-target reads from deep whole-exome sequencing.

150 By identifying homologous SV-containing reads from different technologies through a bipartite-gr

151 MiRNAs can be identified by analyzing reads from high-throughput deep sequencing.

152 monstrate that correctly identifying unknown reads from matches to a reference database with RTnS rea

153 y (HySA) approach that integrates sequencing reads from next-generation sequencing and single-molecul

154 PARTIE subsamples reads from the sequencing file and calculates four diffe

155 independently screened titles and abstracts, read full-text articles, and extracted data.

156 Short- and long-read high-throughput sequencing of DNA and RNA demonstra

157 The low sensitivity on short read homology search can lead to inaccurate domain compo

158 correlation was observed between the values read in the developed colour scales and the values for t

159 d for the three types of fat, and the values read in these scales were correlated with the values obs

160 n complement the traditional method of close reading in detecting trends of continuity and change in

161 anges in crowding may in part explain slower reading in older adults.

162 uencing can overcome the weaknesses of short reads in the assembly of eukaryotic genomes; however, at

163 ted GSTM1 copy number using exome sequencing reads in the Atherosclerosis Risk in Communities (ARIC)

164 m 128 667 intron-containing full-length FLNC reads, including a large number of AS events associated

165 x package enables arbitrary ontologies to be read into R, supports representation of ontological obje

166 The assembly module parses aligned reads into splicing graphs, and uses network flow algori

167 indow during which each cell can continually read its environment and adjusts its fate.

168 functional connectivity between hubs of the reading/language networks.

169 cal STR expansion is limited by the sequence read length during whole-genome analysis.

170 l-time (SMRT) DNA sequencing exhibits longer read lengths than conventional methods, less GC bias, an

171 econstruction of individual haplotypes using reads mapped to a reference genome sequence.

172 Ambiguous read mapping is modeled as a multinomial distribution, a

173 hen commonly used quality indicators such as read mapping suggest that a contig is well assembled.

174 tly faster than the state of the art in long read mapping.

175 A substantial proportion of the reads mapping to protein-coding genes, long ncRNAs, and

176 which are, however, built upon whole genome reads mapping tools, and thus may not be sensitive enoug

177 t has been suggested that RIG-I has a 'proof-reading' mechanism for rejecting host RNA targets, and t

178 ing, length and nucleotide filtering, paired-read merging, barcode demultiplexing, 5' and 3' PCR prim

179 mapped lesions with reports of prospectively read MP MR images.

180 ve investigated musical abilities related to reading music scores [13, 14] and singing familiar songs

181 Novel Adjacency Identification with Barcoded Reads (NAIBR), an algorithm to identify structural varia

182 addresses the critical question of how many reads need to support a short RNA molecule in a given da

183 a single molecule we diminish the effects of read noise and temporal noise.

184 ate that Mt/AFM-SECM enables high throughput reading of dense nanoarrays, with a sensitivity and a re

185 on histone tails and thereby facilitate the reading of the histone code.

186 ry low power consumption is required for the reading of the optical responses and data transmission t

187 s based on how simulated shotgun metagenomic reads of known composition map onto well-curated referen

188 with biotin and 6-FAM, which are then easily read on a lateral flow dipstick, upon which these produc

189 de novo assembly of large genomes using SMS reads on a single computer.

190 proach is unique in its utilization of short reads only from 16S rRNA genes, not from entire genomes.

191 populations by mapping metagenomic sequence reads onto single-cell genomes.

192 thod called Optimistic Protein Assembly from Reads (OPAR).

193 the formation of conductive walls during the read operation, spontaneously retract when the read volt

194 ical interference from the nanomaterial when reading optical density, and the residue left from the e

195 d if they declined to participate, could not read or write in English or Danish, or had a cognitive d

196 the odds of not meeting standards in either reading or math (95% confidence interval, 1.12-1.37), wi

197 write the four possible states and which we read out both magnetoresistively and remotely by electro

198 o probe the mechanisms by which H3 tails are read out by effector proteins in the cell.

199 a ground-state electronic spin, which can be read out optically.

200 re-based films with cation-exchange capacity read out with cyclic voltammetry.

201 s are labeled with sequence tags that can be read out with microfluidic barcoding and DNA sequencing.

202 Reading out the combined activity of all neurons, a mach

203 f perishable products without the need for a read-out device.

204 sociated optical signals for neural activity read-out in peripheral nerve axons.

205 platform with the sequential electrochemical read-out of individual droplets.

206 A potent read-out of local variations in thermodynamic properties

207 t here a fundamentally new method of optical read-out of the trapped electron population in feldspar.

208 f dense nanoarrays, with a sensitivity and a read-out speed considerably higher than previously repor

209 RNAi and tracer endocytosis as a functional read-out, we screened Drosophila orthologs of human mono

210 mance for integrated single-molecule digital read-out.

211 Two members of a 14-person reading panel, who had undertaken training and standardi

212 The average viral reads per total reads, a measurement of efficiency, was

213 A second reading performed 1 month later used predefined classifi

214 ," or "always" in distance straight ahead or reading positions on the Diplopia Questionnaire.

215 Third, reads potentially arising from background noise are filt

216 bilities (defined as profiles or patterns of reading problems) contribute to brain morphology results

217 chniques used for assembly of short sequence reads produced by deep sequencing, such as de-novo assem

218 Each case was read prospectively for clinical assessment and to establ

219 ude base composition statistics calculation, read quality statistics calculation, quality filtering,

220 We also measured pathologists' read rates to evaluate workflow efficiency between WSI a

221 Finally, we had people read real science news items and found that the research

222 constructs a contig graph and, for each long read, references the other long reads' alignments to fin

223 pecifically, we examine both short- and long-read RNA-seq technologies, 39 analysis tools resulting i

224 (P < 0.03) and for the associations between reading scores and rs174448 and rs2397142 (P < 0.01).

225 extract TCR sequence information from short-read scRNA-seq libraries.

226 ork for language while 102 participants were reading sentences.

227 This is the first long-read sequence assembly of the horse MHC class II region

228 llowed by click assembly and analysis of the read sequence by various techniques.

229 MinION long-read sequence data also facilitated the elucidation of c

230 s that, as more genomes are added, identical read sequences are increasingly observed, and compressio

231 ficant improvement in the alignment of short read sequences from immune receptors and that the additi

232 Long-read sequencing can overcome the weaknesses of short rea

233 hm to identify structural variants in linked-read sequencing data.

234 sequencer and demonstrate the value of long-read sequencing in mapping and phasing of SVs for both c

235 ort reads, the assemblies obtained from long-read sequencing platforms have much higher contig contin

236 Here, we exploit a single-molecule long-read sequencing technique and develop an open-source sof

237 e used a combination of single-molecule long-read sequencing technology and polyadenylation site sequ

238 geted RNA capture with third-generation long-read sequencing.

239 ed whole-genome sequences by Illumina paired-reads sequencing, copy number variations by qPCR, RNA co

240 When asked to read silently over a longer duration, both groups read a

241 Advances in long-read single molecule sequencing have opened new possibil

242 nd Piromyces finnis were assembled with long-read, single-molecule technology.

243 ution (acuity) limit that was independent of reading skill.

244 n sensitivity showed the same improvement in reading skills as children with typical motion sensitivi

245 older adults exhibited significantly slower reading speed (a decrease by 30%) and larger crowding: a

246 so observed significant correlations between reading speed and each of the crowding measures.

247 microperimetry, low-luminance visual acuity, reading speed assessments, and patient-reported outcomes

248 1), but there was no difference in sustained reading speeds between groups (beta = 0.99, 95% CI: -41.

249 (AMD) on short out-loud and sustained silent reading speeds, and reading comprehension.

250 ions had significantly better performance in reading, spelling, and math computation, with increased

251 memory-efficient version of the algorithm, "Read-Split-Fly" (RSF), which can detect non-canonical sp

252 t three-way interaction between "pre-morbid" reading status, stimulation, and word type, such that TM

253 ect it with the aligned contig regions (long read support based validation approach).

254 functional annotation data as well as short read support for the called variant.

255 iple novel splicing events supported by more reads than previously reported for VEGFA145 and VEGFA148

256 This technology labels all reads that originate from a small number ( 5-10) DNA mol

257 e number of small DNA segments -called short reads- that cause significant computational burden.

258 rn-helix (wHTH) motifs use an alpha helix to read the base sequence in the major groove while inserti

259 y (OR, 0.37; 95% CI: 0.20, 0.70), or to have read the information leaflet (OR, 0.18; 95% CI: 0.08, 0.

260 Two independent masked experts read the scans, and both outcomes were combined for anal

261 elegans requires zygotic gene expression to read the sex chromosome karyotype, early embryos must re

262 A mobile phone "app" was also capable of reading the test result and transmitting this to a remot

263 The WDR5/MLL2 complex reads the H4-Y88-phosphorylation marks and deposits the

264 Compared with short reads, the assemblies obtained from long-read sequencing

265 From approximately 1.92 billion short reads, the largest number of differentially expressed ge

266 hat can be efficiently detected from spliced reads, the problem of identifying boundaries remains ope

267 udents of epidemiology and of history should read this rich original source.

268 two proteins associated with human disease, "read" this modification.

269 p codons, and one was predicted to result in read through of the normal translational termination cod

270 GRO-Seq analysis showed the polymerase reading through the termination signal in the downstream

271 rmination factor, which increases stop codon read-through allowing ribosomes to translate into the 3-

272 Overexpression of Sup35 decreases stop codon read-through and rescues oxidant tolerance consistent wi

273 A level, which appears to result from longer read-through into the telomere downstream of the active

274 In the absence of stalling, read-through of poly(A) produces a poly-lysine tag, whic

275 IIsnR), and CPL4RNAi plants showed increased read-through of the snRNA 3'-end processing signal, lead

276 The level of this read-through product is proportional to CAG repeat lengt

277 ells from patients with RDEB that respond to read-through treatment.

278 heir sensitivity and require long sequencing reads, thus increasing the cost and decreasing the numbe

279 We performed RNA sequencing and aligned the reads to both the human reference genome and a catalog o

280 -96.5%, and representation of CPV sequencing reads to those of the metagenome background ranging from

281 employed to reduce primary data (sequencing reads) to a form suitable for further analyses (i.e., th

282 t coordination, showcasing the need for long-read transcriptomics.

283 btained by counting the fraction of A-ending reads versus A+C-ending reads for each tRNA species in t

284 Purc infers the final sequences from the raw reads via an iterative approach that corrects PCR and se

285 ad operation, spontaneously retract when the read voltage is removed, reducing the accumulation of mo

286 hypothesis that the results of the combined reading were not inferior to the results of the visual r

287 5 522 mapped full-length non-chimeric (FLNC) reads were analyzed, resulting in the correction of 2241

288 Approximately 400 million reads were generated and de novo assembled into 107,744

289 experimental results showed that half of the reads were missed by HMMER for a RNA-Seq dataset.

290 DNA from the samples was performed, and the reads were processed by metagenomic rapid annotation.

291 use of the template DNA as well as sequence reads, which are nearly all confined to the amplicons of

292 fragile X syndrome, is challenging for short-read whole-genome sequencing (WGS) data.

293 es at 105X mean physical coverage and linked-read whole-genome sequencing from 10X Genomics, we docum

294 coli, 2008-2013, using both long- and short-read whole-genome sequencing.

295 r but much more accurate Illumina sequencing reads, whose error rates average <1%.

296 6-month period, yielding a total of 276,882 reads with no apparent decrease in performance over time

297 r rate problem by combining long, high-error reads with shorter but much more accurate Illumina seque

298 ased on the number of supporting full-length reads with those of annotated isoforms and explore the t

299 ll RNA sequence data, we identified a set of reads with well-defined start and stop positions, in a l

300 count of RNA molecules in the form of short reads, yielding discrete, often highly non-normally dist