« All proteomic datasets | Browse the 2805 identified proteins »
| Parameter | As reported by the original study | As applied by CnidoSite |
|---|---|---|
| Search engine | MaxQuant (Andromeda) | Comet 2026.01 + Percolator (Crux 4.2) |
| Sequence database | Trinity+TransDecoder assembly of the same animal (D1a.Transdecoder.fasta) | – CnidoSite reference proteome (2.anno), BUSCO-validated |
| Enzyme | – (not restated) | trypsin/P (fully enzymatic, 2 termini) · up to 2 missed cleavages |
| Precursor tolerance | 20 ppm first / 4.5 ppm main | 10 ppm |
| Fragment tolerance | not stated | 0.5 Da |
| Fixed modification | – | C+57.021464 (carbamidomethyl cysteine) |
| Variable modification | – | M+15.9949 (methionine oxidation) |
| Decoy strategy | – | Comet internal reversed (1:1) |
| False discovery rate | 1% | q ≤ 0.01 at the PSM level (Percolator q-values, target-decoy); protein level q ≤ 0.01 |
| Quantification | – | spectral counting (PSMs) |
| Contaminants | – | cRAP appended and flagged; 16 contaminant proteins identified and excluded from the reported protein list |
| Gene mapping | – | Peptides mapped to CnidoSite gene models; each protein links to its gene page |
| PSMs at q≤0.01 | Peptides at q≤0.01 | Gene-linked proteins | Contaminants (excluded) |
|---|---|---|---|
| 113,323 | 10,482 | 2,805 | 16 |
Pipeline version cnidosite-proteomics 1.0 · CnidoSite release 1.1 · incorporated 2026-09-20
Every stage is a single command; the parameter file written by stage 2 is the one shown in the table above.
| Gene | Protein | Unique peptides | PSMs | Coverage (%) | Length | Best q | Description |
|---|---|---|---|---|---|---|---|
| KXJ13133.1 | EDIAP_KXJ13133.1 | 145 | 1515 | 20.4 | 9496 | 0.000174307 | Agrin [Exaiptasia diaphana] |
| KXJ17389.1 | EDIAP_KXJ17389.1 | 133 | 2272 | 45.6 | 2825 | 0.000174307 | hypothetical protein AC249_AIPGENE23779 [Exaiptasia diaphana] |
| KXJ26570.1 | EDIAP_KXJ26570.1 | 128 | 2834 | 48.9 | 1944 | 0.000174307 | [Protein ADP-ribosylarginine] hydrolase [Exaiptasia diaphana] |
| KXJ11690.1 | EDIAP_KXJ11690.1 | 120 | 1133 | 14.1 | 10785 | 0.000174307 | High affinity cationic amino acid transporter 1 [Exaiptasia diaphana] |
| KXJ13091.1 | EDIAP_KXJ13091.1 | 88 | 1027 | 31.1 | 2871 | 0.000174307 | Peroxisomal biogenesis factor 19 [Exaiptasia diaphana] |
| KXJ26578.1 | EDIAP_KXJ26578.1 | 83 | 1064 | 42.9 | 1966 | 0.000174307 | hypothetical protein AC249_AIPGENE8218 [Exaiptasia diaphana] |
| KXJ15312.1 | EDIAP_KXJ15312.1 | 78 | 982 | 41.4 | 2353 | 0.000174307 | Sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 [Exaiptasia diaphana] |
| KXJ25225.1 | EDIAP_KXJ25225.1 | 78 | 975 | 29.4 | 2799 | 0.000174307 | hypothetical protein AC249_AIPGENE22509 [Exaiptasia diaphana] |
| KXJ20344.1 | EDIAP_KXJ20344.1 | 71 | 853 | 50.4 | 1682 | 0.000174307 | Alpha-tubulin N-acetyltransferase [Exaiptasia diaphana] |
| KXJ15583.1 | EDIAP_KXJ15583.1 | 63 | 1256 | 35.4 | 2001 | 0.000174307 | hypothetical protein AC249_AIPGENE10299 [Exaiptasia diaphana] |
| KXJ09111.1 | EDIAP_KXJ09111.1 | 63 | 289 | 9 | 10714 | 0.000174307 | DNA-binding protein SATB1 [Exaiptasia diaphana] |
| KXJ30222.1 | EDIAP_KXJ30222.1 | 53 | 857 | 25.3 | 3185 | 0.000174307 | Mannose-1-phosphate guanyltransferase beta-B [Exaiptasia diaphana] |
| KXJ09375.1 | EDIAP_KXJ09375.1 | 48 | 467 | 12.6 | 4428 | 0.000174307 | Transmembrane protein 230 [Exaiptasia diaphana] |
| KXJ24050.1 | EDIAP_KXJ24050.1 | 47 | 332 | 13.8 | 4392 | 0.000174307 | hypothetical protein AC249_AIPGENE25573 [Exaiptasia diaphana] |
| KXJ27556.1 | EDIAP_KXJ27556.1 | 46 | 267 | 8.2 | 9092 | 0.000174307 | Zonadhesin [Exaiptasia diaphana] |
