« All proteomic datasets | Browse the 385 identified proteins »
| Parameter | As reported by the original study | As applied by CnidoSite |
|---|---|---|
| Search engine | PEAKS Studio X+ 10.5 | Comet 2026.01 + Percolator (Crux 4.2) |
| Sequence database | secretome+NeuroPID+predictions | – CnidoSite reference proteome (2.anno), BUSCO-validated |
| Enzyme | – (not restated) | none — endogenous peptides searched without cleavage |
| Precursor tolerance | 5 ppm | 5 ppm |
| Fragment tolerance | 0.02 Da | 0.02 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 | not stated | 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; 1 contaminant protein 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) |
|---|---|---|---|
| 3,147 | 1,393 | 385 | 1 |
Pipeline version cnidosite-proteomics 1.0 · CnidoSite release 1.1 · incorporated 2026-09-18
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 |
|---|---|---|---|---|---|---|---|
| XP_048587521.1 | NVECT_XP_048587521.1 | 116 | 264 | 52 | 708 | 0.00104603 | uncharacterized protein LOC5506148 [Nematostella vectensis] |
| XP_032239956.1 | NVECT_XP_032239956.1 | 74 | 206 | 27 | 1416 | 0.00104603 | melanopsin-A [Nematostella vectensis] |
| XP_048578697.1 | NVECT_XP_048578697.1 | 48 | 285 | 28 | 82 | 0.00104603 | adhesion G-protein coupled receptor D1 isoform X3 [Nematostella vectensis] |
| XP_001636706.2 | NVECT_XP_001636706.2 | 40 | 149 | 29.9 | 211 | 0.00104603 | uncharacterized protein LOC5516591 [Nematostella vectensis] |
| XP_032227077.1 | NVECT_XP_032227077.1 | 32 | 128 | 62.1 | 240 | 0.00104603 | THO complex subunit 6 homolog isoform X1 [Nematostella vectensis] |
| XP_001628185.2 | NVECT_XP_001628185.2 | 23 | 45 | 16.4 | 377 | 0.00104603 | uncharacterized protein LOC5507541 [Nematostella vectensis] |
| XP_032228618.2 | NVECT_XP_032228618.2 | 23 | 39 | 19.1 | 470 | 0.00104603 | elongation factor 1-alpha, oocyte form [Nematostella vectensis] |
| XP_032226777.2 | NVECT_XP_032226777.2 | 18 | 75 | 39.3 | 234 | 0.00104603 | uncharacterized protein LOC5502598 [Nematostella vectensis] |
| XP_001623762.1 | NVECT_XP_001623762.1 | 18 | 31 | 64.2 | 137 | 0.00104603 | uncharacterized protein LOC5502602 [Nematostella vectensis] |
| XP_001625428.1 | NVECT_XP_001625428.1 | 14 | 38 | 17.9 | 728 | 0.00104603 | DNA-directed RNA polymerase I subunit RPA49 [Nematostella vectensis] |
| XP_001629655.3 | NVECT_XP_001629655.3 | 14 | 33 | 4 | 1018 | 0.00104603 | uncharacterized protein LOC5509135 isoform X1 [Nematostella vectensis] |
| XP_048582035.1 | NVECT_XP_048582035.1 | 14 | 28 | 6.2 | 536 | 0.00104603 | zinc metalloproteinase nas-14 [Nematostella vectensis] |
| XP_001638694.3 | NVECT_XP_001638694.3 | 13 | 63 | 56.4 | 78 | 0.00104603 | NAD(P)H-hydrate epimerase [Nematostella vectensis] |
| XP_048581392.1 | NVECT_XP_048581392.1 | 12 | 35 | 47.1 | 121 | 0.00104603 | polynucleotide 5'-hydroxyl-kinase NOL9 [Nematostella vectensis] |
| XP_001618259.1 | NVECT_XP_001618259.1 | 12 | 33 | 50.5 | 103 | 0.00104603 | histone H4 [Nematostella vectensis] |
