NBDC Research ID: hum0036.v1

 

SUMMARY

Aims: Performance comparison of four commercial human whole-exome capture platforms.

Methods: Each exome captured sequencing library was produced from one of four different technologies: Roche/NimbleGen’s SeqCap EZ Human Exome Library v3.0, Illumina’s Nextera Rapid Capture Exome (v1.2), Agilent’s SureSelect XT Human All Exon v5 and Agilent’s SureSelect QXT. The captured DNA was sequenced using the Illumina HiSeq 2500 platform with paired-end reads of 161 bp for insert libraries according to the manufacturer’s instructions.

Participants/Materials: EBV-transformed lymphoblastoid cell lines (LCL) derived from two HapMap-JPT samples obtained from Coriell.

 

Data Set IDType of DataCriteriaRelease Date
DRA003736 NGS (Exome) Un-restricted Access 2015/08/01

*Release Note

 

MOLECULAR DATA

DRA003736

Participants/Materials EBV-transformed lymphoblastoid cell lines (LCL) derived from two HapMap-JPT samples obtained from Coriell.
Targets Exome
Target Loci for Capture Methods -
Platform Illumina [Hiseq 2500]
Library Source -
Cell Lines https://catalog.coriell.org/1/NHGRI/Collections/HapMap-Collections/Japanese-in-Tokyo-Japan-JPT
Library Construction (kit name)

Roche/NimbleGen [SeqCap EZ Human Exome Library v3.0]

Illumina [Nextera Rapid Capture Exome (v1.2)]

Agilent [SureSelect XT Human All Exon v5]

Agilent [SureSelect QXT Human All Exon v5]

Fragmentation Methods

Roche/NimbleGen [SeqCap EZ Human Exome Library v3.0]:Ultrasonic fragmentation (Covaris)

Illumina [Nextera Rapid Capture Exome (v1.2)]:Tagmentation reaction (transposon cleaving)

Agilent [SureSelect XT Human All Exon v5]:Ultrasonic fragmentation (Covaris)

Agilent [SureSelect QXT Human All Exon v5]:Tagmentation reaction (transposon cleaving)

Spot Type Paired-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 161 bp x 2
DDBJ Sequence Read Archive ID

DRA003736

Total Data Volume 65 GB (fastq)
Comments (Policies)

NBDC policy

*When the research results including the data which were downloaded from NHA/DRA, are published or presented somewhere, the data user must refer the papers which are related to the data, or include in the acknowledgment. Learn more

 

DATA PROVIDER

Principal Investigator: Michiaki Kubo

Affiliation: RIKEN Center for Integrative Medical Science

Project / Group Name: Core for Genomic Medicine

Funds / Grants (Research Project Number):

Name Title Project Number
- - -

 

PUBLICATIONS

Title DOIData Set ID
1 Performance comparison of four commercial human whole-exome capture platforms. doi: 10.1038/srep12742 DRA003736
2