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Table 1 # of ORFs annotated by five different domain annotation tools

From: A multi-source domain annotation pipeline for quantitative metagenomic and metatranscriptomic functional profiling

MG/MT datasets # Predicted ORFs Gene3d Pfam TIGRFAM PRINTS&Prosite MetaCLADE MetaCLADE +UProC
# of ORFs annotated by each tool
 Puerto Rico Rainforest soil metagenome 520 791 189 138 181 777 15 155 27 710 260 953 266 380
 Arctic Winter marine ecosystem 358 095 113 307 104 098 6 835 15 324 150 786 158 496
 Bone sample from Vindija Neanderthal 74 705 12 793 9 717 612 933 18 589 22 673
 Human gut metagenome 45 770 17 873 18 981 905 2 002 27 028 29 645
 Human gut metatranscriptome 37 209 10 297 9 699 183 714 16 522 20 479
# of ORFs annotated by one specific tool
 Puerto Rico Rainforest soil metagenome 520 791 16 482 1 090 2 473 138 37 811 43 222
 Arctic Winter marine ecosystem 358 095 11 564 580 1 703 159 20 531 28 227
 Bone sample from Vindija Neanderthal 74 705 1 824 50 294 14 4 663 8 742
 Human gut metagenome 45 770 1 368 55 27 7 4 477 7 093
 Human gut metatranscriptome 37 209 1 172 20 4 7 3 983 7 938
  1. Number of ORFs (# of ORFs) predicted in reads with FragGeneScan and annotated by different tools. Largest annotations are reported in bold. See Fig. 4 and Additional file 1: Figures S7-S10, S12-S15 for additional information