Proteomic Analysis

Peptides and proteins identified by re-processing the raw mass-spectrometry data of every proteomic dataset with a single documented pipeline (Comet 2026.01 against the CnidoSite reference proteome plus cRAP contaminants, with Percolator target-decoy FDR control). Search parameters are dataset-specific and are shown in full for each dataset; peptides were mapped onto CnidoSite gene models, so every row links to its gene page.

Dataset
Contaminants

Dataset provenance & search parameters — PXD022770

SpeciesCeratonova shasta
TissueDevelopmental stages (in Ascites fluid)
PRIDE accessionPXD022770
Statusreprocessed
Search engineComet 2026.01
Reference proteome/mnt/sdb/jackie/cnidaria_omics/transcriptome_proteins/Ceratonova_shasta.rep.pep
Enzymetrypsin/P
Missed cleavages2
Precursor tolerance10 ppm
Fragment tolerance0.02 Da
Fixed modificationC+57.021464
Variable modificationM+15.9949,n+42.010565
Decoy strategyComet internal reversed (1:1)
FDR (PSM)0.01
Quantificationspectral counting (PSMs)
Proteins2239
Peptides (q≤0.01)12107
PSMs (q≤0.01)103880
reprocessed against the CnidoSite reference proteome
41 cRAP contaminant protein s (keratins, trypsin, serum albumin …) were identified in this dataset and are excluded from the table below. Tick “include cRAP contaminants” to display them.
Gene Protein PSMs Unique peptides Coverage (%) Length Best q-value Description
TRINITY_DN1241_c0_g4 TRINITY_DN1241_c0_g4_i5.p1 743 60 64.7 453 0.000124719
TRINITY_DN23861_c0_g2 TRINITY_DN23861_c0_g2_i9.p1 666 42 78.8 325 0.000124719
TRINITY_DN4080_c0_g1 TRINITY_DN4080_c0_g1_i7.p1 490 38 72.1 312 0.000124719
TRINITY_DN2907_c0_g1 TRINITY_DN2907_c0_g1_i10.p1 443 38 76.2 286 0.000124719
TRINITY_DN2968_c0_g2 TRINITY_DN2968_c0_g2_i3.p1 423 36 90.9 351 0.000124719
TRINITY_DN46125_c0_g2 TRINITY_DN46125_c0_g2_i1.p1 336 36 58.5 398 0.000124719
TRINITY_DN2260_c0_g2 TRINITY_DN2260_c0_g2_i2.p1 2216 35 75.4 268 0.000124719
TRINITY_DN32671_c0_g1 TRINITY_DN32671_c0_g1_i9.p1 614 34 75.7 276 0.000124719
TRINITY_DN1303_c7_g1 TRINITY_DN1303_c7_g1_i1.p1 533 34 85.3 177 0.000124719
TRINITY_DN546_c0_g2 TRINITY_DN546_c0_g2_i5.p1 654 32 87.5 184 0.000124719
TRINITY_DN1467_c1_g1 TRINITY_DN1467_c1_g1_i18.p1 555 32 91.8 196 0.000124719
TRINITY_DN41537_c0_g1 TRINITY_DN41537_c0_g1_i1.p1 354 32 55.3 318 0.000124719
TRINITY_DN679_c0_g2 TRINITY_DN679_c0_g2_i2.p1 338 30 71.8 330 0.000124719
TRINITY_DN11234_c0_g1 TRINITY_DN11234_c0_g1_i10.p1 408 29 72.1 323 0.000124719
TRINITY_DN17855_c0_g1 TRINITY_DN17855_c0_g1_i2.p1 232 29 74.5 231 0.000124719
TRINITY_DN3112_c0_g3 TRINITY_DN3112_c0_g3_i2.p1 553 28 70.1 221 0.000124719
TRINITY_DN1597_c0_g2 TRINITY_DN1597_c0_g2_i7.p1 328 28 71.7 173 0.000124719
TRINITY_DN2237_c0_g2 TRINITY_DN2237_c0_g2_i2.p1 221 28 49.7 296 0.000124719
TRINITY_DN4237_c0_g3 TRINITY_DN4237_c0_g3_i2.p1 681 27 47.1 280 0.000124719
TRINITY_DN359_c2_g1 TRINITY_DN359_c2_g1_i1.p1 403 27 60.7 272 0.000124719
TRINITY_DN14661_c0_g2 TRINITY_DN14661_c0_g2_i2.p1 301 27 69.6 158 0.000124719
TRINITY_DN5783_c0_g1 TRINITY_DN5783_c0_g1_i6.p1 238 27 72.4 174 0.000124719
TRINITY_DN18819_c0_g1 TRINITY_DN18819_c0_g1_i3.p1 209 27 61.2 436 0.000124719
TRINITY_DN1242_c0_g1 TRINITY_DN1242_c0_g1_i10.p1 383 26 70 253 0.000124719
TRINITY_DN1139_c0_g3 TRINITY_DN1139_c0_g3_i3.p2 373 26 56.5 336 0.000124719
Total protein records: 2239  (+41 contaminants hidden)
Show: proteins per page
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