Labshake search
Citations for PacBio :
1151 - 1200 of 1293 citations since 2020
Citations are collected from bioRxiv only, the total number of publications could be much larger.
-
bioRxiv - Genomics 2020Quote: ... We then examined the intersection between calls from PacBio and from standard short-reads with an extension of ±500bp for insertion sites.
-
bioRxiv - Genomics 2020Quote: ... US).Library complex wasthen sequenced using SMRT Cell 8M (PacBio)compatible with the Sequel II sequencer.
-
bioRxiv - Genomics 2020Quote: ... Sequencing primer annealing and polymerase binding to the PacBio SMRTbell Templates were performed using the manufacturer’s recommendations (PacBio, US).Library complex wasthen sequenced using SMRT Cell 8M (PacBio)compatible with the Sequel II sequencer.
-
bioRxiv - Genomics 2020Quote: ... we included only transcripts that were validated by two different library preparation techniques (PacBio Iso-Seq & MinION 1D or PacBio Iso-Seq and Lexogen TeloPrime or MinION 1D and Lexogen TeloPrime) ...
-
bioRxiv - Genomics 2020Quote: ... we included only transcripts that were validated by two different library preparation techniques (PacBio Iso-Seq & MinION 1D or PacBio Iso-Seq and Lexogen TeloPrime or MinION 1D and Lexogen TeloPrime) ...
-
bioRxiv - Genomics 2020Quote: ... HMW DNA was used to generate HiFi libraries via the SMRTbell Express Template Prep Kit v2 and SMRTbell Enzyme Clean Up kits (PacBio). Size selection was performed with SageELF (Sage Science) ...
-
bioRxiv - Genomics 2020Quote: ... CHM13 PacBio HiFi and ONT data were aligned to the entire chromosome 8 assembly via pbmm2 (v1.1.0) (for PacBio data ...
-
bioRxiv - Genomics 2020Quote: ... the chromosome 8 assembly is comprised of 146,254,195 bp of PacBio HiFi contigs and only 5,490 bp of ONT sequence scaffolds (99.9963% PacBio HiFi contigs and 0.0037% ONT scaffold). The chromosome 8 assembly was incorporated into a whole-genome assembly of CHM1311 for validation via orthogonal methods (detailed below) ...
-
bioRxiv - Genomics 2020Quote: ... and macaque genomes were assembled from PacBio HiFi data (Extended Data Table 2 ...
-
bioRxiv - Genomics 2020Quote: ... Libraries were sequenced on the Sequel II platform with three to seven SMRT Cells 8M (PacBio) using either Sequel II Sequencing Chemistry 1.0 and 12-hour pre-extension or Sequel II Sequencing Chemistry 2.0 and 3- or 4-hour pre-extension ...
-
Genome of Solanum pimpinellifolium provides insights into structural variants during tomato breedingbioRxiv - Genomics 2020Quote: ... PacBio reads were then aligned to the contigs and based on the alignments errors in the assembled contigs were corrected using the Arrow program implemented in SMRT-link-5.1 (PacBio). Furthermore ...
-
Genome of Solanum pimpinellifolium provides insights into structural variants during tomato breedingbioRxiv - Genomics 2020Quote: ... and 2) the distance between the two blast hits was largely consistent with the SV size estimated by PacBio read mapping ...
-
Genome of Solanum pimpinellifolium provides insights into structural variants during tomato breedingbioRxiv - Genomics 2020Quote: ... DNA following the standard SMRTbell library preparation protocol and sequenced on a PacBio Sequel platform using the 2.0 chemistry (PacBio). Meantime ...
-
bioRxiv - Genomics 2020Quote: ... (b) All SVs detected by PacBio CCS Reads and supported by either PacBio CLR or ONT were retained ...
-
bioRxiv - Genomics 2020Quote: ... and adapter trimming was done in PacBio SMRTLink 8 with default parameters followed by deduplication of reads via pbmarkdup (Version 0.2.0, https://github.com/PacificBiosciences/pbmarkdup) as suggested by PacBio for the UL protocol ...
-
bioRxiv - Genomics 2020Quote: ... The PacBio reads were mapped against this contig selection using ngmlr (with the PacBio preset settings) (61) ...
-
bioRxiv - Genomics 2020Quote: ... following the manufacturer’s recommendations (PacBio, USA). The produced data are summarized in Table 2.
-
bioRxiv - Genomics 2020Quote: ... the libraries were prepared with the SMRTbell Express Template kit v2.0 (PacBio) to perform PacBio Sequel sequencing.
-
bioRxiv - Genomics 2020Quote: ... circular consensus sequences (CCS) were generated using the SMRT® pipe RS_ReadsOfInsert Protocol (PacBio) with a minimum of three full passes and minimum predicted accuracy greater than 90% ...
-
Genome of Solanum pimpinellifolium provides insights into structural variants during tomato breedingbioRxiv - Genomics 2020Quote: ... we required that the difference in SV size determined by PacBio read mapping and distance between the two blast hits was smaller than 20% of the estimated SV size ...
-
bioRxiv - Genomics 2020Quote: ... The whole-genome sequencing was implemented by PacBio RSII platform using P6/C4 chemistry (Pacific Biosciences ...
-
bioRxiv - Genomics 2020Quote: Raw reads from Sequel II machine were processed by PacBio circular consensus package (CCS v4.0.0 ...
-
bioRxiv - Genomics 2020Quote: ... SMRTbell library was annealed to sequencing primer at values predetermined by the Binding Calculator (PacBio) and a complex made with the DNA polymerase (P6/C4 chemistry) ...
-
bioRxiv - Genomics 2020Quote: Sample cleaning of SageELF fractions and throughout SMRT bell library construction was done following the manufacturer’s protocol (PACBIO). In brief ...
-
bioRxiv - Genomics 2020Quote: Full-length RNA sequencing libraries (i.e., Iso-Seq™) were constructed according to the recommended protocol by PacBio (PN 101-070-200 Version 05 (November 2017)63,64 ...
-
bioRxiv - Pharmacology and Toxicology 2020Quote: ... All samples were sequenced with Pacific Bioscience’s (PacBio) SMRT-sequencing technique using full length CYP2D6 amplicons3 ...
-
bioRxiv - Synthetic Biology 2020Quote: ... To allow comprehensive long-read sequencing of the library (PacBio sequel II, see below), we further reduced the library size by dilution of the FACS-selected library to create a population bottleneck of the desired size ...
-
bioRxiv - Genetics 2020Quote: ... DNA amplicons covering the gRNA target region were amplified and analyzed by PacBio sequencing following the manufacturer’s instructions (Pacific Biosciences ...
-
bioRxiv - Evolutionary Biology 2020Quote: ... oryzae reference genome (GUY-11 PacBio assembly [59]) using bwa-mem V.0.7.12 [60] with default parameters.
-
bioRxiv - Plant Biology 2020Quote: ... All PacBio SMRT reads were mapped back to the assembled contigs with Blast and the Arrow program implemented in SMRT Link (PacBio) was used for error correction with default parameters ...
-
bioRxiv - Immunology 2020Quote: ... 5 ug of fragmented DNAs were converted to SMRTbell libraries using the SMRTbell Template Prep Kit 1.0 (PacBio). The libraries were size-selected (7-kb size cutoff ...
-
bioRxiv - Genetics 2020Quote: ... We skipped the misjoin detection step due to its high false-positive rate in the contigs derived from PacBio long reads ...
-
bioRxiv - Genomics 2020Quote: ... total RNA was isolated from the abomasum pyloric with high expression of MUC6 from two heterozygous goats and sequenced by PacBio Sequel ...
-
bioRxiv - Biochemistry 2020Quote: ... We usually pooled approximately 40-60 samples (depending on the PacBio system used for sequencing, see below). The pooled amplicons were concentrated using a 0.7x AMPure bead wash and eluted in 37 μl of EB buffer (obtained from SMRTbell Template Prep Kit 1.0) ...
-
bioRxiv - Biochemistry 2020Quote: AMPure PB beads from PacBio (PN 100-265-900) were used ...
-
bioRxiv - Biochemistry 2020Quote: ... commit 1035f6f for (PacBio RS II and Sequel I) or v8.0 (for Sequel II ...
-
bioRxiv - Biochemistry 2020Quote: ... Libraries were built as per the “Procedure & Checklist – 2 kb Template Preparation and Sequencing” protocol (PN 001-143-835-08) from PacBio with some modifications ...
-
bioRxiv - Biochemistry 2020Quote: ... SMRTbell Template Prep Kit 1.0 (PN 100-259-100) from PacBio was used for preparing the libraries ...
-
bioRxiv - Genomics 2020Quote: ... Consortium (ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/data_collections/hgsv_sv_discovery/working/integration/20170515_Integrated_indels_Illumina_PacBio/Illumina_Indels_Merged_20170515.vcf.gz ...
-
bioRxiv - Genetics 2020Quote: Genomic DNA of Apibacter isolates was extracted using a bead-beating method as previously described (12). Two strains (Apibacter sp. B2966 and B3706) were sequenced with the PacBio RS (PacBio) at Nextomics Biosciences Co ...
-
bioRxiv - Evolutionary Biology 2020Quote: ... and one female plant (116X coverage from 670-34) were used together to trim and correct low base-call-accuracy long-reads generated by PacBio sequencing from the same two plants (19X coverage from the male 670-1190 and 21X coverage from the female 670-1190) ...
-
bioRxiv - Evolutionary Biology 2020Quote: ... The MinION data was also passed through the Organelle PBA pipeline (with minor modifications for MinION as opposed to PacBio data) (Soorni et al ...
-
bioRxiv - Evolutionary Biology 2020Quote: ... DNA isolation and sequencing was carried out by Dovetail Genomics (Scotts Valley, CA, USA) using PacBio sequencing for de novo assembly with Arrow (genomicconsensus package, PacBio tools) followed by preparation of Chicago and HiC libraries that were sequenced on Illumina platforms ...
-
bioRxiv - Cancer Biology 2020Quote: ... Circular consensus sequencing program from PacBio SMRTportal software (version 4.1.0 ...
-
bioRxiv - Genomics 2020Quote: ... we previously released this data to Genome in a Bottle (ftp://ftp-trace.ncbi.nlm.nih.gov/giab/ftp/data/AshkenazimTrio/HG003_NA24149_father/PacBio_CCS_Google_15kb/) and to the Human Pangenome Reference Consortium ...
-
bioRxiv - Genomics 2020Quote: ... Synteny breakpoints were identified manually and were confirmed not to be misassemblies by verifying that they had continuous read coverage from PacBio and Illumina reads ...
-
bioRxiv - Genomics 2020Quote: ... The generated SMRT bell templates were sequenced on the PacBio Sequel instrument (PacBio Sequel System, RRID:SCR_017989) with the Sequel™ SMRT® cells 1M v2 Tray as per the manufacturer’s instructions ...
-
bioRxiv - Plant Biology 2020Quote: ... The 1,121 individual original format FASTA sequences (PacBio reads) are available in a supplemental file (Supplementary Material 2).
-
bioRxiv - Plant Biology 2020Quote: ... Real-Time (SMRT) cells (libraries submitted Dec 2014, University of Washington PacBio Sequencing Services ...
-
bioRxiv - Neuroscience 2020Quote: ... SMRTbell libraries of pooled amplicons (up to 29 samples per library) were prepared using SMRTbell Template Prep Kit 1.0 (PAcbio) and Sequel chemistry v3 and sequenced on a PacBio Sequel SMRT cell with a 10 hr ...