Datasets

Here are some sample datasets so that you can explore PacBio® sequence data as well as file types generated by the PacBio RS and SMRT® Analysis.

Sequel II Data Sets

Sequel II System Data Release

SNVs and SVs Calling Data Set with HiFi reads (HiFi reads powered by CCS) - PacBio Sequel II System, Chemistry 1.0, Analysis SMRT Link Early Access v6.1.0

• HG002 SV and SNVs Analysis (CCS)

Structural Variant Calling Data Set with CLR (Continuous Long Reads) - PacBio Sequel II System, Chemistry 1.0, Analysis SMRT Link Early Access v6.1.0

• HG002 SV Analysis (CLR)

Iso-Seq Data Set - PacBio Sequel II System, Chemistry 1.0, Analysis SMRT Link v7.0.0

• Universal Human Reference (UHR) Data Set - Iso-Seq

Sequel Data Sets

Melanoma Cancer Cell Line Iso-Seq Data - PacBio Sequel System, Iso-Seq Express Template Preparation, Chemistry v3.0, SMRT Link v7.0 Analysis

• Melanoma Cancer Cell Line Iso Seq Data)

Structural Variant Calling Data Set - PacBio Sequel System,Chemistry v3.0, SMRT Link v6.0.0 Analysis

• Sequel System Data Release: Structural Variant Calling in SMRT Link v6.0.0

Genome In A Bottle (GIAB)

• Human Genomes sequenced on PacBio Platforms

Microbial Multiplexing Data Set - PacBio Sequel System, Chemistry - v3.0, Analysis - SMRT Link v6.0.0

• Sequel System Data Release: Sequencing and analysis data for a 10-plex microbial data set, Chemistry - v3.0, Analysis - SMRT Link v6.0.0

Microbial Multiplexing Data Set - PacBio Sequel System, Chemistry - v2.1, Analysis - SMRT Link v5.1.0

• Sequel System Data Release: Sequencing and analysis data for a 10-plex microbial data set, Chemistry - v2.1, Analysis - SMRT Link v5.1.0

PacBio Sequel Data v2 Chemistry, SMRT Link v5.0.1 Analysis

• Sequel System Data Release: Iso-Seq Results for Hummingbird and Zebra Finch Brain Tissue

Alzheimer’s Disease Capture Panel

• Alzheimer’s Disease Capture Panel Data Release

PacBio Sequel Data

• Arabidopsis Sequence and Assembly
• Multiplexed Microbial Assembly (8-plex E. coli)

PacBio RS II P6/C4 Sequencing Chemistry

• Genome in a Bottle Ashkenazim Trio
• Caenorhabditis elegans 40x Sequence Coverage
• HLA Multiplexed GenDx Amplicons HLA-A, -B, -C, -DQB1, and -DRB1
• E. coli library

PacBio RS II P5/C3 Sequencing Chemistry

• Human 54x Sequence Coverage
• Human 10x Sequence Coverage
• Human microbiome mock community shotgun sequencing data
• Arabidopsis Sequence and Assembly (Arabidopsis thaliana Ler-0
• Arabidopsis Sequence and Assembly (Arabidopsis lyrata)
• Drosophila Sequence and Assembly
• Neurospora Crassa (Fungus) Genome, Epigenome, and Transcriptome

PacBio RS II P4/C2 Sequencing Chemistry

• Human MCF7 Transcriptome
• Arabidopsis Sequence and Assembly (Arabidopsis thaliana Ler-0)
• E. coli size selected 20kb library
• Saccharomyces cerevisiae W303
• Full-length 16S Amplicons from Chunlab collaboration
• EGFR MET Barcoded Amplicons Validation sequenced with C2 & P4 polymerase and C2 chemistry on PacBio RS
• P4-C2 384-barcoded dataset of 384 mutated constructs of the Phi29 DNA Polymerase

Earlier Chemistries:

• HBV Amplicon Sequencing minor variant detection sequenced with C2 polymerase and C2 chemistry on PacBio RS
• E. coli K12 MG1655 Methylome
• Human cDNA demo data
• E. coli K12 MG1655 Hybrid Assembly with Celera Assembler pacBioToCA
• E. coli K12 MG1655 Resequencing
• Plasmodium 3D7 (23Mb, 80% AT) Assembly Data, Code and Example
  • A Computation Note for Assembling Plasmodium 3D7 with CLEAR, Part I (PDF), IPython Notebook web view
  • A Computation Note for Assembling Plasmodium 3D7 with CLEAR, Part II (PDF), IPython Notebook web view

Data supporting publications

• FLT3 Internal Tandem Duplication (ITD)
• Murray et al, The Methylomes of Six Bacteria Nucleic Acids Res. 2012 Dec
• Schadt et al, Modeling kinetic rate variation in third generation DNA sequencing data to detect putative modifications to DNA bases Genome Res. 2012
• E. coli, M. ruber and P. heparinus with assemblies using HGAP beta implementation

Bacterial Methylome Summaries on REBASE

• PacBio list of methylomes at REBASE