Table 1.
Summary of investigated datasets from BaseSpace and SRA.
| Study | Protocol | Sequencer Read length | Species | #Samples |
|---|---|---|---|---|
| NovaSeq S1 Xp: Nextera DNA Flex (Replicates of NA12878) | WGS | NovaSeq 6000 (2*151 bp) | Homo sapiens | 1/4 |
| HiSeqX: Nextera DNA Flex (replicates of Coriell Trio Samples) | WGS | HiSeqX (2*151 bp) | Homo sapiens | 1/24 |
| HiSeq 4000: TruSeq PCR-Free (NA12878) | WGS | HiSeq 4000 (2*151 bp) | Homo sapiens | 1/6 |
| HiSeq 2500: TruSeq PCR-Free DNA 2 × 251 (NA12878) | WGS | HiSeq 2500 (2*251 bp) | Homo sapiens | 1/2 |
| HiSeq X: TruSeq PCR-Free and Nano (UDI Replicates of NA12878 + /- Free Adapter Blocking Reagent) | WGS | HiSeqX (2*151 bp) | Homo sapiens | 64/64 |
| NovaSeq S2: TruSeq PCR-Free 350 (Replicates of NA12878) | WGS | NovaSeq 6000 (2*151 bp) | Homo sapiens | 12/12 |
| HiSeq 4000: TruSeq PCR-Free and Nano (350 bp to 550 bp insert size) | WGS | HiSeq 4000 (2*151 bp) | Homo sapiens | 8/8 |
| HiSeq 4000: RNA-Seq 64-plex (MAQC HBRR and UHRR) | RNA-Seq | HiSeq 4000 (2*76 bp) | Homo sapiens | 1/64 |
| HiSeq 2500: TruSeq Stranded mRNA LT (SEQC: UHRR & Brain) | RNA-Seq | HiSeq 2500 (2*75 bp) | Homo sapiens | 1/4 |
| NovaSeq S2: TruSeq Exome (96 replicates of NA12878) | WES | NovaSeq 6000 (2*76 bp) | Homo sapiens | 1/96 |
| HiSeq 4000: TruSeq Exome (12plex replicates of NA12878) | WES | HiSeq 4000 (2*76 bp) | Homo sapiens | 1/48 |
| HiSeq 2500: TruSeq Rapid Exome (12 replicates of NA12878) | WES | HiSeq 2500 (2*101 bp) | Homo sapiens | 1/12 |
| SRP066955 | RNA-Seq | HiSeq 4000 (2*50 bp) | Mus musculus | 4/4 |
| SRP139105 | RNA-Seq | HiSeq 4000 (2*151 bp) | Mus musculus | 4/16 |
| SRP137053 | RNA-Seq | HiSeq 4000 (2*126 bp) | Mus musculus | 4/16 |
| SRP132952 | RNA-Seq | NovaSeq 6000 (2*101 bp) | Mus musculus | 4/12 |
| SRP124637 | RNA-Seq | NovaSeq 6000 (2*150 bp) | Mus musculus | 2/15 |
| SRP143964 | RNA-Seq | HiSeq 2500 (2*150 bp) | Mus musculus | 3/18 |
| SRP142426 | RNA-Seq | HiSeqX (2*150 bp) | Mus musculus | 4/6 |
| SRP136620 | RNA-Seq | HiSeqX (2*150 bp) | Mus musculus | 4/6 |
| SRP143392 | RNA-Seq | HiSeq 2500 (2*101 bp) | Mus musculus | 4/9 |
| SRP124981 | WGS | HiSeq 4000 (2*150 bp) | Mus musculus | 1/32 |
| SRP072373 | WGS | HiSeq 4000 (2*100 bp) | Mus musculus | 1/1 |
| ERP016331 | WGS | HiSeq 2500 (2*151 bp) | Mus musculus | 2/487 |
| SRP145593 | WGS | HiSeqX (2*150 bp) | Mus musculus | 2/9 |
| SRP132517 | RNA-Seq | NextSeq 500 (2*75 bp) | Mus musculus | 3/10 |
| SRP129935 | RNA-Seq | NextSeq 500 (2*76 bp) | Mus musculus | 3/14 |