Labshake search
Citations for PacBio :
751 - 800 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: ... The assemblies were corrected with two rounds of arrow (PacBio’s SMRT Link software release 5.0.0.6792 ...
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bioRxiv - Microbiology 2022Quote: ... The consensus assembly was subjected to rounds of polishing with PacBio reads using pbmm2 and pbgcpp (PacBio Toolkit), followed by one round of short-read polishing with Pilon (Walker et al. ...
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bioRxiv - Microbiology 2022Quote: ... Demultiplexing and quality control were performed using SMRTlink (PacBio), then reads shorter than 1000 bp were removed with filtlong (Wick ...
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bioRxiv - Molecular Biology 2022Quote: ... NEB394 was carried out using Pacific Biosciences (PacBio) SMRT sequencing technology (27) ...
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bioRxiv - Evolutionary Biology 2022Quote: ... Eluted DNA was processed in a PacBio SMRTbell template prep kit v1.0 (PacBio, #100-222-300) following the manufacture’s protocol ...
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bioRxiv - Genomics 2022Quote: ... and the PacBio RS II platform (PacBio Inc., CA, USA). Different insert size (bp ...
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bioRxiv - Genomics 2022Quote: ... consensus sequences generated from PacBio sub-reads were filled using PBJelly2 101 ...
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bioRxiv - Evolutionary Biology 2022Quote: ... We then sequenced each on a Sequel II SMRTcell 8M (PacBio), the P ...
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bioRxiv - Evolutionary Biology 2022Quote: We converted the bam files from each movie to fastq files using bam2fastx (PacBio). We then used flye52 to create de novo genome assemblies at the contig-level for each population ...
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bioRxiv - Evolutionary Biology 2022Quote: ... libraries were prepared with the SMRTbell Express Template Prep Kit 2.0 (PacBio). We performed a size selection of 30 kb for the P ...
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bioRxiv - Evolutionary Biology 2022Quote: ... we then determined centromere locations in the reference genome (converting alignment positions in the PacBio genomes to their corresponding or closest reference genome coordinates) ...
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Phylogenomics provides insights into the evolution of cactophily and host plant shifts in DrosophilabioRxiv - Evolutionary Biology 2022Quote: ... Pacific Biosciences (hereafter PacBio) long reads were sequenced in two stages ...
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bioRxiv - Evolutionary Biology 2022Quote: Polishing to correct sequencing errors was performed for the two MB18102 assemblies (the SB211 assemblies did not require polishing as they were generated using PacBio HiFi reads). Two rounds of polishing were carried out simultaneously on the MB18102MAT and MB18102PAT assemblies using Illumina data from the assembled F1 individual in the program Hapo-G (allowing the correct mapping of reads to the correct haplotype) ...
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Comprehensive fitness landscape of SARS-CoV-2 Mpro reveals insights into viral resistance mechanismsbioRxiv - Molecular Biology 2022Quote: ... with a 0.4-hour pre-extension time (PacBio Core Enterprise ...
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bioRxiv - Molecular Biology 2022Quote: ... Barcoded adapters recommended by PacBio were ligated to purified Cas9 digestion products using 0.4μM barcode adapters and 0.9U/μl T4 DNA ligase (Thermo Fisher Scientific ...
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bioRxiv - Immunology 2022Quote: UMIs were extracted from PacBio SMRT-seq Q30 fastq files and primers were trimmed using MaskPrimer from Immcantation’s presto package (v0.5.4 ...
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bioRxiv - Genomics 2022Quote: For Pacific Biosciences long read (PacBio; Pacific Biosciences ...
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bioRxiv - Genomics 2022Quote: ... and used GCpp v1.9.0 with the Arrow algorithm (PacBio® tools ...
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bioRxiv - Genomics 2022Quote: ... and used GCpp v1.9.0 with the Arrow algorithm (PacBio® tools ...
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bioRxiv - Microbiology 2022Quote: ... Of these 314 were sequenced on Pacific Bioscience’s (PacBio) Real-time Sequencer (RS ...
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bioRxiv - Genetics 2022Quote: ... to generate genome sequences of parental lines (and to correct PacBio sequences) we used two rounds of mapping ...
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bioRxiv - Genomics 2022Quote: ... highly accurate reads such as those from PacBio HiFi sequencing ...
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bioRxiv - Genomics 2022Quote: q20 High Fidelity (HiFi) reads were generated with the Circular Consensus Sequencing tool from PacBio® ccs v6.0.0 (--min-passes 3 --min-length 10 --max-length 60000 --min-rq 0.99) ...
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bioRxiv - Genetics 2022Quote: ... carinata genome was assembled from PacBio sequencing data using the Hi-C scaffolding method ...
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bioRxiv - Genomics 2022Quote: HiFi reads were converted from BAM to FASTA and FASTQ with SMRTLink v9.0 (PacBio, 2020) bam2fastx ...
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bioRxiv - Genomics 2022Quote: ... We also produced low-coverage PacBio reads (PacBio Sequel ...
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bioRxiv - Microbiology 2022Quote: ... BioSample SAMN25941479 (PacBio CCS reads), SAMN25944367 (Illumina reads for ACE2 binding and expression experiments ...
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bioRxiv - Microbiology 2022Quote: ... as suggested by PacBio Product Application Specialists (Fig ...
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bioRxiv - Microbiology 2022Quote: ... causing individual subreads to contain both sense and antisense sequences (pers, commun. with PacBio Field Applications Scientist). While the recalladapters script is now available to correct this issue ...
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bioRxiv - Microbiology 2022Quote: ... which were only ameliorated after implementing custom subread filtering scripts provided by PacBio’s software development team (Text S1).
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bioRxiv - Genomics 2022Quote: ... variants called from PacBio HiFi reads using DeepVariant and from haplotype-resolved assemblies using Dipcall were also used ...
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bioRxiv - Developmental Biology 2022Quote: High-quality isoforms were generated from PacBio reads using the Iso-Seq analysis pipeline of single-molecule real-time (SMRT ...
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bioRxiv - Microbiology 2022Quote: ... A.aerophoba DNA was also prepared for Pacific Biosciences (PacBio, Menlo Park, CA, USA) long-read sequencing and was processed as in (48 ...
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bioRxiv - Microbiology 2022Quote: ... The resulting assembly had further base pair-level error correction performed using the Arrow polishing tool from PacBio SMRTTools v5.1.0.26412 (87).
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bioRxiv - Microbiology 2022Quote: A separate script written in Python 3.8 was used to process data files received from PacBio high-throughput sequencing and find deletions in the lambda phage genome ...
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bioRxiv - Microbiology 2022Quote: Library preparation and sequencing for long reads (PacBio Sequel SMRT Cell 1M v2) and short reads (Illumina NovaSeq 6000 platform ...
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bioRxiv - Genomics 2022Quote: ... (2017) (http://yjx1217.github.io/Yeast_PacBio_2016/data/Nuclear_Genome/YPS128.genome.fa.gz) ...
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bioRxiv - Genomics 2022Quote: ... we used hifiasm [61] with the default parameters to construct contigs from PacBio HiFi CCS clean reads ...
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bioRxiv - Genomics 2022Quote: ... due to the assembly of IESs from PacBio CLR reads ...
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bioRxiv - Systems Biology 2022Quote: ... Analysis of the collected spectra files performed either using the HUVEC sample-specific database (HUVEC-derived PacBio reads + GENCODE entries ...
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bioRxiv - Systems Biology 2022Quote: The CCS reads obtained from PacBio sequencing were analyzed using the IsoSeq workflow described previously.22 Primer removal was done on the 5’ and 3’ end ...
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bioRxiv - Systems Biology 2022Quote: A hybrid database was developed that incorporated isoforms from PacBio if the gene resided in the high confidence region ...
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bioRxiv - Immunology 2022Quote: ... Barcodes extracted from escape and reference population sequences were counted and the lookup table generated from PacBio sequencing results was used to identify the associated mutations ...
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bioRxiv - Genomics 2022Quote: ... Sequencing libraries were prepared for each species using the SMRTbell Express Template Prep Kit 2.0 (PacBio, Menlo Park, CA, USA) and following the ultra-low protocol ...
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bioRxiv - Genomics 2022Quote: ... we used long-read (Pacbio; W744×W766) and short-read (Illumina ...
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bioRxiv - Evolutionary Biology 2022Quote: ... DNA was shipped to Brigham Young University for quality check with pulse field capillary electrophoresis followed by CLR library construction and sequencing (PacBio Sequel II). The unique molecular yields were 38 Gb and 123 Gb ...
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bioRxiv - Genetics 2022Quote: ... After that sequence library was sequenced by PacBio SMRT link ...
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bioRxiv - Genomics 2022Quote: ... Sheared DNA Sample was then concentrated with AMPure PB Beads (PacBio). 10μg of the sheared DNA was end repaired and A-tailed to remove single-strand overhangs and repair DNA damage ...
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bioRxiv - Genomics 2022Quote: ... and 142X (the median depth of real PacBio data used to predict SVs using long-read tools) ...
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bioRxiv - Genetics 2022Quote: ... such as the genotypes from PacBio CLR and HiFi in AFRs ...