« All proteomic datasets | Browse the 1669 identified proteins »
| Parameter | As reported by the original study | As applied by CnidoSite |
|---|---|---|
| Search engine | not stated | Comet 2026.01 + Percolator (Crux 4.2) |
| Sequence database | CCPRD custom database / study-specific | /mnt/sda/jackie/cnidaria/2.anno/Myxobolus_honghuensis.pep; /mnt/sda/jackie/cnidaria/2.anno/Thelohanellus_kitauei.pep Combined search space of Myxobolus honghuensis (reference), Thelohanellus kitauei (reference) |
| Enzyme | – (not restated) | trypsin (fully enzymatic, 2 termini) · up to 2 missed cleavages |
| Precursor tolerance | not stated | 10 ppm |
| Fragment tolerance | not stated | 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; 29 contaminant proteins identified and excluded from the reported protein list |
| Gene mapping | – | Combined search space: peptides are mapped to gene models of whichever species in the deposit they match, and each protein links to that gene page. |
| PSMs at q≤0.01 | Peptides at q≤0.01 | Gene-linked proteins | Contaminants (excluded) |
|---|---|---|---|
| 20,078 | 6,436 | 1,669 | 29 |
Pipeline version cnidosite-proteomics 1.0 · CnidoSite release 1.1 · incorporated 2026-09-21
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 |
|---|---|---|---|---|---|---|---|
| EVM0007958.1 | MHONG_EVM0007958.1 | 66 | 598 | 39.9 | 1507 | 0.000254065 | gene=EVM0007958 |
| EVM0013745.1 | MHONG_EVM0013745.1 | 57 | 181 | 38.1 | 1575 | 0.000254065 | gene=EVM0013745 |
| KII74575.1 | TKITA_KII74575.1 | 42 | 110 | 28.1 | 1592 | 0.000254065 | hypothetical protein RF11_16185 [Thelohanellus kitauei] |
| EVM0008257.1 | MHONG_EVM0008257.1 | 39 | 138 | 26 | 1820 | 0.000254065 | gene=EVM0008257 |
| KII71942.1 | TKITA_KII71942.1 | 32 | 99 | 30.1 | 1089 | 0.000254065 | GTP-binding protein 1 [Thelohanellus kitauei] |
| KII73242.1 | TKITA_KII73242.1 | 27 | 360 | 39.7 | 517 | 0.000254065 | Serum response factor [Thelohanellus kitauei] |
| EVM0011333.1 | MHONG_EVM0011333.1 | 26 | 143 | 43.9 | 697 | 0.000254065 | gene=EVM0011333 |
| EVM0003529.1 | MHONG_EVM0003529.1 | 26 | 93 | 68.2 | 488 | 0.000254065 | gene=EVM0003529 |
| EVM0011848.1 | MHONG_EVM0011848.1 | 26 | 64 | 18.2 | 1692 | 0.000254065 | gene=EVM0011848 |
| EVM0010657.1 | MHONG_EVM0010657.1 | 24 | 106 | 64.8 | 446 | 0.000254065 | gene=EVM0010657 |
| KII73715.1 | TKITA_KII73715.1 | 24 | 101 | 48.4 | 636 | 0.000254065 | hypothetical protein RF11_11013 [Thelohanellus kitauei] |
| KII64171.1 | TKITA_KII64171.1 | 24 | 75 | 59.1 | 435 | 0.000254065 | hypothetical protein RF11_03226 [Thelohanellus kitauei] |
| EVM0001225.1 | MHONG_EVM0001225.1 | 24 | 68 | 69.8 | 368 | 0.000254065 | gene=EVM0001225 |
| EVM0011159.1 | MHONG_EVM0011159.1 | 24 | 49 | 17.6 | 1337 | 0.000254065 | gene=EVM0011159 |
| EVM0014152.1 | MHONG_EVM0014152.1 | 23 | 168 | 60.6 | 391 | 0.000254065 | gene=EVM0014152 |
