Table 1 Characteristics of sequence databases used in this study
From: The impact of sequence database choice on metaproteomic results in gut microbiota studies
Source | Depth | Sample | Type | Further information | Sequences |
|---|---|---|---|---|---|
UniProt | Bacteria | 72,669,092 | |||
UniProt | Bacteria | Human_0 | 16S | Family | 3,590,268 |
UniProt | Bacteria | Human_0 | 16S | Genus | 2,422,588 |
UniProt | Bacteria | Human_0 | 16S | Species | 610,219 |
UniProt | Bacteria | Human_0 | PI | Family—MPA | 3,095,210 |
UniProt | Bacteria | Human_0 | PI | Genus—MPA | 2,317,980 |
UniProt | Bacteria | Human_0 | PI | Species—MPA | 178,908 |
UniProt | Bacteria | Human_0 | PI | Family—MQ | 2,717,146 |
UniProt | Bacteria | Human_0 | PI | Genus—MQ | 2,162,216 |
UniProt | Bacteria | Human_0 | PI | Species—MQ | 190,367 |
UniProt | Bacteria | Human_0 | PI | Family—PD | 3,173,395 |
UniProt | Bacteria | Human_0 | PI | Genus—PD | 2,602,972 |
UniProt | Bacteria | Human_0 | PI | Species—PD | 225,013 |
Metagenome | 18 Mbps | Human_0 | Reads | FragGeneScan | 5,130,156 |
Metagenome | 18 Mbps | Human_0 | Reads | Six-frame translation | 27,651,587 |
Metagenome | 18 Mbps | Human_0 | Contigs | FragGeneScan | 224,163 |
Metagenome | 18 Mbps | Human_0 | Contigs | Six-frame translation | 4,353,453 |
Metagenome | 6 Mbps | Human_0 | Reads | FragGeneScan | 3,423,708 |
Metagenome | 6 Mbps | Human_0 | Reads | Six-frame translation | 18,350,764 |
Metagenome | 6 Mbps | Human_0 | Contigs | FragGeneScan | 192,582 |
Metagenome | 6 Mbps | Human_0 | Contigs | Six-frame translation | 3,205,893 |
Metagenome | 3 Mbps | Human_0 | Reads | FragGeneScan | 3,294,112 |
Metagenome | 3 Mbps | Human_0 | Reads | Six-frame translation | 17,340,365 |
Metagenome | 3 Mbps | Human_0 | Contigs | FragGeneScan | 109,233 |
Metagenome | 3 Mbps | Human_0 | Contigs | Six-frame translation | 2,447,096 |
Metagenome | 6 Mbps | Human_1 | Contigs | FragGeneScan | 101,903 |
Metagenome | 6 Mbps | Human_1 | Reads | FragGeneScan | 1,288,040 |
Metagenome | 6 Mbps | Human_2 | Contigs | FragGeneScan | 97,532 |
Metagenome | 6 Mbps | Human_2 | Reads | FragGeneScan | 953,147 |
Metagenome | 6 Mbps | Human_3 | Contigs | FragGeneScan | 60,517 |
Metagenome | 6 Mbps | Human_3 | Reads | FragGeneScan | 625,354 |
Metagenome | 6 Mbps | Mouse_1 | Contigs | FragGeneScan | 14,743 |
Metagenome | 6 Mbps | Mouse_1 | Reads | FragGeneScan | 510,364 |
Metagenome | 6 Mbps | Mouse_2 | Contigs | FragGeneScan | 88,366 |
Metagenome | 6 Mbps | Mouse_2 | Reads | FragGeneScan | 600,697 |
Metagenome | 6 Mbps | Mouse_3 | Contigs | FragGeneScan | 18,112 |
Metagenome | 6 Mbps | Mouse_3 | Reads | FragGeneScan | 329,261 |