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.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| DRA003736 | NGS (Exome) | Unrestricted-access | 2015/08/01 |
*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
MOLECULAR DATA
| 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 | |
| Total Data Volume | 65 GB (fastq) |
| Comments (Policies) |
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 | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Performance comparison of four commercial human whole-exome capture platforms. | doi: 10.1038/srep12742 | DRA003736 |
| 2 |
