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_DN416_c1_g1 TRINITY_DN416_c1_g1_i1.p1 370 26 78.4 259 0.000124719
TRINITY_DN10551_c0_g2 TRINITY_DN10551_c0_g2_i1.p1 327 26 57 263 0.000124719
TRINITY_DN11774_c0_g1 TRINITY_DN11774_c0_g1_i3.p1 297 26 88.8 179 0.000124719
TRINITY_DN31431_c0_g1 TRINITY_DN31431_c0_g1_i5.p1 256 26 71.7 272 0.000124719
TRINITY_DN54746_c0_g1 TRINITY_DN54746_c0_g1_i1.p1 591 25 67.8 211 0.000124719
TRINITY_DN3_c1_g1 TRINITY_DN3_c1_g1_i1.p1 307 25 68.6 207 0.000124719
TRINITY_DN2745_c0_g2 TRINITY_DN2745_c0_g2_i2.p2 299 25 72.2 180 0.000124719
TRINITY_DN35527_c0_g1 TRINITY_DN35527_c0_g1_i1.p1 281 25 66.5 191 0.000124719
TRINITY_DN26797_c0_g2 TRINITY_DN26797_c0_g2_i2.p1 277 25 67.1 210 0.000124719
TRINITY_DN15379_c0_g1 TRINITY_DN15379_c0_g1_i1.p1 254 25 83.1 142 0.000124719
TRINITY_DN11370_c0_g2 TRINITY_DN11370_c0_g2_i2.p1 379 24 75.4 232 0.000124719
TRINITY_DN32500_c0_g1 TRINITY_DN32500_c0_g1_i1.p1 375 24 74.8 151 0.000124719
TRINITY_DN10043_c0_g1 TRINITY_DN10043_c0_g1_i4.p1 272 24 72.9 177 0.000124719
TRINITY_DN1941_c0_g1 TRINITY_DN1941_c0_g1_i1.p1 368 23 51.8 197 0.000124719
TRINITY_DN24109_c1_g2 TRINITY_DN24109_c1_g2_i1.p1 354 23 68.6 185 0.000124719
TRINITY_DN8307_c0_g1 TRINITY_DN8307_c0_g1_i14.p1 338 23 83.3 204 0.000124719
TRINITY_DN22182_c0_g1 TRINITY_DN22182_c0_g1_i1.p1 310 23 66.3 205 0.000124719
TRINITY_DN5087_c0_g2 TRINITY_DN5087_c0_g2_i1.p1 223 23 90.9 297 0.000124719
TRINITY_DN4923_c0_g2 TRINITY_DN4923_c0_g2_i1.p1 209 23 68.2 258 0.000124719
TRINITY_DN5794_c0_g4 TRINITY_DN5794_c0_g4_i1.p1 159 23 76.7 279 0.000124719
TRINITY_DN796_c1_g4 TRINITY_DN796_c1_g4_i1.p1 472 22 73.3 202 0.000124719
TRINITY_DN1241_c0_g5 TRINITY_DN1241_c0_g5_i2.p1 326 22 67.5 114 0.000124719
TRINITY_DN146_c0_g1 TRINITY_DN146_c0_g1_i1.p1 289 22 68.8 192 0.000124719
TRINITY_DN7032_c0_g2 TRINITY_DN7032_c0_g2_i1.p1 262 22 57.6 203 0.000124719
TRINITY_DN2044_c0_g3 TRINITY_DN2044_c0_g3_i4.p1 251 22 96.1 181 0.000124719
Total protein records: 2239  (+41 contaminants hidden)
Show: proteins per page
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