Labshake search
Citations for PacBio :
201 - 250 of 1293 citations since 2020
Citations are collected from bioRxiv only, the total number of publications could be much larger.
-
bioRxiv - Genomics 2024Quote: ... Highly Accurate Single-Molecule Consensus Reads (CCS reads) were generated using the CCS v6 program of the SMRT- link package (PacBio, Menlo Park, CA, USA) with a minimum number of full-length subreads of 15 (99.95 base call accuracy).
-
bioRxiv - Genomics 2024Quote: The genome sequencing data (PacBio, Illumina and HiC) of B ...
-
bioRxiv - Genomics 2024Quote: Plant nuclei was isolated from ∼2 g leaf tissues ground with liquid nitrogen using the protocol provided by PacBio (PacBio, 2022), which was modified from Workman et al ...
-
bioRxiv - Genomics 2024Quote: ... which was cleaned with SMRTbell® cleanup beads (PacBio Ref. No. 102158-300). Subsequently ...
-
bioRxiv - Genomics 2024Quote: ... We used the Sequel II Binding Kit 2.0 (PacBio) to bind the library to polymerase and loaded libraries onto PacBio Sequel II ...
-
bioRxiv - Genomics 2024Quote: ... and constructed PacBio SMRTbell library (∼20 kb) for PacBio Sequel using SMRTbell Express Template Prep Kit 2.0 (PacBio, Menlo Park, CA, USA) following the manufacturer recommended protocol ...
-
bioRxiv - Genomics 2024Quote: ... or 0 (for mapped PacBio reads). The output files for all RNA-seq samples were converted to gff3 files using gffread v0.12.7 [45] ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... Sequencing was done by PacBio HiFi technology to obtain from 69 to 99 GB data.We assembled haplotype resolved contigs using Hifiasm47 with Pacbio HiFi reads and Hi-C reads ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... the recommended SMRTbell Express Template Prep Kit 2.0 (PacBio) was used to prepare the libraries ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... Libraries were sequenced in a Sequel II (PacBio), using a 8M SMRT cell ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... Libraries were prepared using the SMRT-bell library kit (PacBio) and sequenced in a 8M SMRT cell in a PacBio Sequel II under the CCS mode ...
-
bioRxiv - Genetics 2024Quote: ... The raw BAM file with CCS reads was processed to obtain the isoforms and transcript structures using the SMRTLink version 10 pipeline from PacBio. In brief ...
-
bioRxiv - Genetics 2024Quote: ... reads were obtained in BAM format and converted to fastq using the bam2fastq tool (version 1.3.0) from PacBio. A de novo assembly was generated using hifiasm v.0.15.4-r347 with default parameters ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... Barcodes were aligned to the codon-variant table previously produced from PacBio long-read sequencing ...
-
bioRxiv - Plant Biology 2024Quote: ... origin contigs were filtered out from the primary contig assembly using ‘Kerman’ plastid and mitochondrial sequences that were pulled out from PacBio HiFi reads in Geneious Prime (https://www.geneious.com) ...
-
bioRxiv - Immunology 2024Quote: ... and the link of N26 barcode and NTD variant was obtained by PacBio sequencing ...
-
bioRxiv - Immunology 2024Quote: ... the barcode sequences detected in both the antibody-screened and reference library were aligned to the barcode-variant dictionary generated from PacBio sequencing data of the BA.5 DMS library using dms_variants (v0.8.9) ...
-
bioRxiv - Genetics 2024Quote: ... Sequencing was performed on a PacBio Sequel II/IIe system using SMRT Cell 8M (Catalog number 101-389-001, PacBio, Menlo Park, CA, USA) on the HiFi sequencing run.
-
bioRxiv - Synthetic Biology 2024Quote: DNA samples for sequencing are extracted either using the Nanobind CBB kit (PacBio, USA)] ...
-
bioRxiv - Synthetic Biology 2024Quote: ... Sequencing data (Sample GSM3290315, MG1655_rich_PacBio RS II ...
-
bioRxiv - Genomics 2024Quote: ... Pacific Biosciences (PacBio) HiFi sequencing was performed on a Sequel II with a depth of >60× ...
-
bioRxiv - Genomics 2024Quote: ... CAT was given Iso-Seq FLNC data to provide extrinsic hints to the Augustus PB (PacBio) module of CAT ...
-
bioRxiv - Plant Biology 2024Quote: The library construction and sequencing of FENGC products on the Pacific Biosciences (PacBio) Sequel IIe SMRT platform was performed by Interdisciplinary Center for Biotechnology Research (ICBR ...
-
bioRxiv - Genetics 2024Quote: ... Libraries were pooled in an equimolar approach prior to construction of SMRTbell® Prep Kit 3.0 (Catalog number 102-182-700, PacBio, Menlo Park, CA, USA) sequencing library preparation according to the manufacturer’s protocol ...
-
bioRxiv - Genetics 2024Quote: ... A non-size-selected PacBio Iso-Seq library was prepared and sequenced on a Sequel II system (PacBio) with a 30-hour movie length (v10 ...
-
bioRxiv - Genomics 2024Quote: ... For the sequencing of high-fidelity (HiFi) reads using the Pacific Biosciences (PacBio) Sequel II platform ...
-
bioRxiv - Genetics 2024Quote: ... and pooled separately at an equimolar ratio for generating Pacific Biosciences (PacBio) circular-consensus-sequencing libraries ...
-
bioRxiv - Genomics 2024Quote: ... Libraries were sequenced using the Sequel II system (PacBio). Transcript isoforms for each sample were generated using the Iso-Seq analysis pipeline (PacBio ...
-
bioRxiv - Microbiology 2024Quote: ... The individual libraries were barcoded using the Iso-Seq Express Oligo kit (Pacbio PN 101-737-500). The barcoded libraries were multiplexed in equimolar amounts into a inal SMRTbell template mix ...
-
bioRxiv - Microbiology 2024Quote: ... reads using ccs v6.4.0 (––min-rq 0.9) (this and all other PacBio software referenced was installed from the PacBio Bioconda packages (https://github.com/PacificBiosciences/pbbioconda ...
-
bioRxiv - Genomics 2024Quote: ... and long reads (PacBio). The genome was analyzed using BlobToolKit 4.0.7 including BUSCO scores (Challis et al. ...
-
bioRxiv - Genomics 2024Quote: Plant nuclei was isolated from ∼2 g leaf tissues ground with liquid nitrogen using the protocol provided by PacBio (PacBio, 2022), which was modified from Workman et al ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... We then pooled all the barcoded libraries to be multiplexed and purified the pooled library using the AMPure PB Kit (PacBio # 100-265-900). We used a concentration of 0.6X of AMPure Beads and eluted the DNA in 37 µl of elution buffer ...
-
bioRxiv - Genomics 2024Quote: ... high molecular weight (HMW) DNA was obtained with the Nanobind plant nuclei kit (Circulomics-PacBio), either from roots or young leaves ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... Pacific Biosciences (PacBio) highly accurate long-read (HiFi ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... These were converted to FASTA files using DeepVariant (version 1.3.0, settings: –model type=PACBIO) and bcftools consensus (version 1.12) ...
-
bioRxiv - Genomics 2024Quote: ... the Sequel®II binding kit 3.2 (PacBio Cat. No. 102-194-100) was used for the final library preparation with primer annealing ...
-
bioRxiv - Genomics 2024Quote: ... The DNA samples were eluted with 120 µL of elution buffer (PacBio Cat. No. 101-633-500) and were subjected to quality check by the Qubit® Fluorometer ...
-
bioRxiv - Genomics 2024Quote: ... we grouped overlapping transcripts from the three datasets (i.e. Illumina PE, PacBio and Nanopore) into loci using ‘gffcompare -i {gtf_list.txt}’ and ‘gffcompare gffcmp.combined.gtf’ - repeated at least three times to completely collapse overlapping exons/transcripts ...
-
bioRxiv - Genomics 2024Quote: ... We used 5µg of fragmented DNA with the PacBio library preparation kit 2.0 (PacBio). The final HiFi library was size-selected with a 10kb cut-off using a BluePippin instrument (Sage Biosciences ...
-
bioRxiv - Genomics 2024Quote: ... This involved combining data from long-read (PacBio and Oxford Nanopore) and linked-read (10x genomics plus Illumina ...
-
bioRxiv - Genomics 2024Quote: ... and aligned to hg38 using pbmm2 (PacBio v1.11.99 ...
-
bioRxiv - Genomics 2024Quote: ... USA for high-molecular-weight genomic DNA extraction and Pacific BioSciences (PacBio) Single Molecule Real Time (SMRT ...
-
bioRxiv - Genomics 2024Quote: ... The DNA was then size-selected using a Short Read Eliminator XS kit (PacBio) and g-TUBEs (Covaris) ...
-
bioRxiv - Immunology 2024Quote: ... The assemblies were produced using third generation long reads (PacBio Sequel / PacBio Hifi, BioNano®) and Hi-C ...
-
bioRxiv - Microbiology 2024Quote: ... provided by PacBio. HiFi reads were de novo assembled using Hifiasm (90 ...
-
bioRxiv - Microbiology 2024Quote: ... the reference genome was selected manually (GCF_003288775.1, a Complete Genome from the NCBI RefSeq database, sequenced using PacBio, 120x coverage ...
-
bioRxiv - Immunology 2024Quote: Libraries were generated from one donor using the Iso-Seq-Express-Template-Preparation protocol according to the manufacturer’s recommendations (PacBio, Menlo Parc, CA, USA). We followed the recommendation for 2-2.5kb libraries ...
-
bioRxiv - Plant Biology 2024Quote: ... Three total SMRT cells (PacBio Sequel II platform) worth of HiFi sequencing were produced from this FC309 individual plant ...
-
bioRxiv - Plant Biology 2024Quote: ... Sequencing primer v4 was annealed to the Iso-Seq library pool and complexed to the sequencing polymerase with the Sequel II binding kit v2.1 (PacBio, 101-843-000). Calculations for primer to template and polymerase to template binding ratios were kept at default values for the library type ...