Labshake search
Citations for PacBio :
901 - 950 of 1293 citations since 2020
Citations are collected from bioRxiv only, the total number of publications could be much larger.
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bioRxiv - Genomics 2022Quote: ... Seventeen 1Mv3 SMRT cells were run on a Sequel I sequencer using the Binding Kit 1.0 and the Sequencing Chemistry version 1.0 (all from PacBio) for six hours per cell ...
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bioRxiv - Genomics 2022Quote: ... The output BAM files of the sequencing step were loaded into SMRT Link 5.0.1 according to the recommendation of the manufacturer (PacBio Reference Guide 2018) and converted to FASTA format for downstream processing ...
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bioRxiv - Genomics 2022Quote: ... Two rounds of Arrow polishing (PacBio gcpp v2.0.2) using PacBio reads ...
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bioRxiv - Genomics 2022Quote: ... 150 bp paired-end sequencing on a NovaSeq 6000 instrument) and long-read DNA sequencing (50x sequencing coverage, PacBio HiFi sequencing on a Sequel IIe instrument) ...
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bioRxiv - Genomics 2022Quote: ... The F1 turkey was sequenced by Dovetail Genomics using PacBio singlemolecule real-time (SMRT) sequencing technology (PacBio Sequel System, RRID:SCR_017989) with a total depth of 270X ...
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bioRxiv - Evolutionary Biology 2022Quote: ... we used phase information from PacBio long reads and in vivo Hi-C data ...
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bioRxiv - Genomics 2022Quote: ... long-read PacBio (non-HiFi PacBio long-reads with or without short reads), or HiFi (any assembly where HiFi long-reads were used) ...
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bioRxiv - Genetics 2022Quote: ... The SMRTBell® Template Prep Kit 1.0 (PacBio) was then used to prepare 14-kilobase libraries ...
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bioRxiv - Genomics 2022Quote: ... which assembled based on long sequencing reads from Pacbio SMRT platform ...
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bioRxiv - Genomics 2022Quote: ... Variant calling based on the mapping result of HiFi reads was performed using deepvariant (v1.1.0, --model_type PACBIO) and homozygous variants that passed both a read depth cutoff (DP>10 ...
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bioRxiv - Genomics 2022Quote: ... the BAM output from primrose was analyzed using “aligned_bam_to_cpg_scores.py” script from PacBio’s repository (https://github.com/PacificBiosciences/pb-CpG-tools) ...
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bioRxiv - Genomics 2022Quote: ... using the PacBio Nanobind CBB kit (PacBio, Menlo Park, CA, USA). The blood was drawn during routine veterinary procedures and immediately frozen at -20°C ...
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bioRxiv - Genomics 2022Quote: Long read data was obtained using Pacific Biosciences technologies (PacBio, Menlo Park, CA, USA). Libraries were prepared using SMRTbell Express Template Prep Kit and Sequel Binding Kit 2.1 was used for polymerase binding ...
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bioRxiv - Genomics 2022Quote: ... The genome was assembled from PacBio reads using CANU v1.8 [88] ...
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bioRxiv - Genomics 2022Quote: ... This final assembly was polished with long read data in Arrow (SMRT Link 3.1.1, PacBio).
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bioRxiv - Genomics 2022Quote: ... following the protocol described online (PacBio, 2019). An additional enzymatic digest step (to remove any linear molecules ...
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bioRxiv - Genomics 2022Quote: Raw subreads were collapsed into Circular Consensus Sequence (CCS) reads using ccs version 6.0.0 (PacBio, Menlo Park, CA). K-mer histograms were made with jellyfish version 2.2.6 (Marçais & Kingsford 2011 ...
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bioRxiv - Genomics 2022Quote: ... one PacBio continuous long read (CLR) library using the SMRTbell Express Prep Kit 2.0 (PacBio) and one short read library using the NEBNext Ultra II FS DNA Library Kit for Illumina (New England BioLabs Inc. ...
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bioRxiv - Genomics 2022Quote: ... we obtained a total of 215 Gb (unique coverage 151 Gb) Pacific Biosciences (PacBio) long-read sequence data ...
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bioRxiv - Genomics 2022Quote: ... SMRT sequencing on a Sequel I machine (3 SMRTCells; PacBio) and dedicated library preparation were performed according to provider’s procedure.
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bioRxiv - Genomics 2022Quote: ... The long-read library was then sequenced on the PacBio Sequel IIe system in CLR mode using the Sequel II Binding Kit 2.2 (PacBio). The short-read library with an insert size of 350 bp was sequenced on the NovaSeq6000 platform (Illumina ...
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bioRxiv - Evolutionary Biology 2022Quote: ... Germany on a Sequel II system (PacBio, Menlo Park, CA, USA).
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bioRxiv - Evolutionary Biology 2022Quote: ... Pacific Biosciences continuous long read (PacBio CLR) library construction ...
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bioRxiv - Genomics 2021Quote: ... A sequence library for isoform sequencing (Iso-Seq) was prepared using the Iso-Seq Express Template Preparation Kit (PacBio) and sequenced on the PacBio Sequel system (PacBio) ...
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bioRxiv - Genomics 2021Quote: ... Transcript isoforms for each sample were generated with the Iso-Seq3 pipeline (PacBio) implemented in SMRTlink (PacBio) ...
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bioRxiv - Genomics 2021Quote: ... and sequenced on the PacBio Sequel system (PacBio). The obtained long reads were assembled with Falcon_Unzip to obtain two haplotype-resolved sequences ...
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bioRxiv - Genomics 2021Quote: ... and sequenced on the PacBio Sequel system (PacBio). Transcript isoforms for each sample were generated with the Iso-Seq3 pipeline (PacBio ...
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bioRxiv - Genomics 2021Quote: ... implemented in SMRTlink (PacBio). The transcript sequences were aligned to the pseudomolecule sequences of R ...
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bioRxiv - Genomics 2021Quote: ... ripense was constructed using the SMRTbell Express Template Prep Kit 2.0 (PacBio, Menlo Park, CA, USA) and sequenced on the PacBio Sequel system (PacBio) ...
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bioRxiv - Genetics 2021Quote: We constructed phylogenies of TEs by using TE fasta sequences extracted from PacBio genomes ...
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bioRxiv - Genetics 2021Quote: ... we determined whether the position of TE insertions (taken from the TE alignments to the PacBio assemblies) were within heterochromatin or euchromatin ...
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bioRxiv - Genomics 2021Quote: ... we focused exclusively on assemblies produced by long-read (i.e., PacBio or Oxford Nanopore) and/or linked-read (i.e. ...
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bioRxiv - Microbiology 2021Quote: The mCherry-E3L integration sites in the purified HGT virus genomes were located by inverse PCR amplification and by PacBio sequencing ...
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bioRxiv - Genomics 2021Quote: ... AF36 were additionally sequenced and scaffolded by PacBio RS II platform (Pacific Biosciences ...
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bioRxiv - Evolutionary Biology 2021Quote: ... and long read (Nanopore or PacBio) technologies as described in supplementary notes 2 ...
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bioRxiv - Evolutionary Biology 2021Quote: Two lymphoblastoid cell lines (LCLs) per species were used for isoform sequencing experiments (PacBio Iso-seq) (human ...
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bioRxiv - Evolutionary Biology 2021Quote: After poly-A trimming (trim_isoseq_polyA script from official PacBio Github repository), Iso-seq isoforms were mapped to the reference genomes hg38 (human) ...
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bioRxiv - Evolutionary Biology 2021Quote: ... and only sequences with 5’ and 3’ primers and poly-A tail were selected for further analyses (full-length non-chimeric CCS; FLNC) following the IsoSeq3 workflow (PacBio SMRTAnalysis software). Then ...
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bioRxiv - Evolutionary Biology 2021Quote: ... or CCS reads with more than Q20 were retained (PacBio Sequel). Host or parasite CCS reads at each round (Supplementary Table S1 ...
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bioRxiv - Evolutionary Biology 2021Quote: ... followed by single molecule real-time (SMRT) sequencing on Sequel I Platform (PacBio).
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bioRxiv - Evolutionary Biology 2021Quote: ... Libraries were constructed using SMRTbell Express Template Prep Kit 2.0 (Pacific Biosciences, PacBio, USA) followed by single molecule real-time (SMRT ...
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bioRxiv - Evolutionary Biology 2021Quote: ... suecica genome assembly generated by Pacbio RSII can be found under ERR5037702 and those from Sequel under ERR5031296 ...
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bioRxiv - Evolutionary Biology 2021Quote: ... arenosa (the PacBio contig assembly presented in this study ...
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bioRxiv - Evolutionary Biology 2021Quote: Demultiplexed sequence reads (available on the NCBI Sequence Read Archive, BioSample SAMN20174027) were aligned to library barcodes as determined from PacBio sequencing using dms_variants (version 0.8.5) ...
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bioRxiv - Evolutionary Biology 2021Quote: ... which accepts a short-read assembly (rather than raw short-read sequence data) and long-read sequence data (in this case, our combined PacBio and Oxford Nanopore reads) as input ...
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bioRxiv - Evolutionary Biology 2021Quote: ... asplanchnoidis reference genome is based on long-read sequencing technology (PacBio SMRT® on the Sequel-platform). In total ...
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bioRxiv - Evolutionary Biology 2021Quote: Genes were structurally annotated on the repeat masked genome assembly using the MAKER2 annotation pipeline (v2.31.10, Cantarel et al. 2008) using evidence from Pacbio Iso-Seq transcripts of the same B ...
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bioRxiv - Evolutionary Biology 2021Quote: ... DNA was extracted using the Qiagen kits Dneasy (for short-read sequencing; from approximately 5000-7000 rotifers) and GenomicTips 100 (for long read Pacbio sequencing; from >20000 rotifers), and RNA was extracted from freshly prepared biomass with Rneasy.
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bioRxiv - Evolutionary Biology 2021Quote: ... HiFi library preparation and sequencing were performed at the McGill University and Génome Québec Innovation Center on a Sequel II instrument (PacBio, Menlo Park, CA, USA). Each individual was sequenced on an individual SMRT cell 8M ...
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bioRxiv - Immunology 2021Quote: ... with overhanging sequences containing identifiers (sequences of 6 base-pairs) and adapter sequences appropriate for Illumina HiSeq platforms (or PacBio; Pacific Biosciences). Unique identifiers were used for each T-cell population targeting one antigen ...