Table 1 Summary of data available for GIAB samples.
From: Extensive sequencing of seven human genomes to characterize benchmark reference materials
Lab | Technology | Library Type | Date Produced | Mean Paired end distance | Mean read length | Mean coverage per individual for AJ trio | Mean coverage per individual for Chinese trio |
|---|---|---|---|---|---|---|---|
NIST | Illumina HiSeq 2500 Rapid SBS | WGS paired end PCR-free | Jul to Sep 2014 | 565 bp | 2×250 (Chinese son), 2×148 (others) | 296.83x | 300x (son) 100x/parent |
NIST/ Stanford | Illumina HiSeq 2500 v3/v4 | WGS mate-pair | Dec 2014 to Mar 2015 | 6000 to 7000 bp | 100 | 13x to 14x | 14x to 17x |
NIST/ Illumina | Illumina HiSeq 2500 v4 | Synthetic Long Reads | Mar to Apr 2015 | N/A | 2×125 | 20x to 30x | 20x to 30x |
Oslo University Hospital | Illumina HiSeq 2500 v4 | WES paired end | Oct 2015 | 202 bp | 2×125 | 192x to 225x | 181x (Son) |
10X Genomics | 10X GemCode WGS | WGS Linked-Reads | June to July 2015 | 200 to 220 bp | 2×98 | 25x (son) 24x (mother) 22x (father) | None |
Complete Genomics | Complete Genomics | WGS paired end | Sep 2014 | 388 | 26 | 101x | 98x |
Complete Genomics | Complete Genomics | WGS LFR | Dec 2014 | 278 | 26 | 100x | None |
Thermo Fisher | Ion Proton | WES | Jun 2014 | N/A | 190 | 1020x | 1036x |
NIST | SOLiD 5500×l Wildfire | WGS single end | Jan to Aug 2015 | N/A | 55 to 57 | 79x (Son) | 62x (Son) |
BioNano Genomics | BioNano Genomics | WG optical mapping | Feb to Dec 2014 | N/A | 251 kb (Chinese son), 195 kb (AJ Son), 213 kb (AJ Mother), 246 kb (AJ Father) | 92x (Mother), 87x (Father), 112x (Son) | 57x (Son) |
NIST/Mt. Sinai | PacBio P6-C4 (90%) & P5-C3 (10%) | WGS single end | Oct 2014 to Mar 2015 | N/A | 10–11 kb N50 | 69x son; 30–32x/parent | None |
Weill Cornell | Oxford Nanopore | 2D reads | May 2015 | N/A | 5.8 kb | 0.017x (son) | None |
