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_DN1861_c1_g1 TRINITY_DN1861_c1_g1_i1.p1 118 13 69.1 152 0.000124719
TRINITY_DN10600_c0_g2 TRINITY_DN10600_c0_g2_i1.p1 113 13 81.4 210 0.000124719
TRINITY_DN2773_c0_g1 TRINITY_DN2773_c0_g1_i5.p1 112 13 45.7 269 0.000124719
TRINITY_DN7258_c0_g3 TRINITY_DN7258_c0_g3_i2.p1 112 13 55.8 156 0.000124719
TRINITY_DN2086_c4_g1 TRINITY_DN2086_c4_g1_i2.p2 108 13 75.8 178 0.000124719
TRINITY_DN891_c1_g1 TRINITY_DN891_c1_g1_i7.p1 107 13 62.5 128 0.000124719
TRINITY_DN20655_c0_g2 TRINITY_DN20655_c0_g2_i1.p1 101 13 63.8 105 0.000124719
TRINITY_DN2452_c0_g5 TRINITY_DN2452_c0_g5_i2.p1 99 13 43.4 129 0.000124719
TRINITY_DN6739_c0_g1 TRINITY_DN6739_c0_g1_i2.p1 97 13 62.2 119 0.000124719
TRINITY_DN8447_c1_g1 TRINITY_DN8447_c1_g1_i1.p1 91 13 57.9 228 0.000124719
TRINITY_DN9023_c0_g2 TRINITY_DN9023_c0_g2_i3.p1 88 13 51.8 220 0.000124719
TRINITY_DN11840_c0_g1 TRINITY_DN11840_c0_g1_i3.p1 83 13 64.2 109 0.000124719
TRINITY_DN34008_c0_g1 TRINITY_DN34008_c0_g1_i1.p1 82 13 61.8 220 0.000124719
TRINITY_DN8134_c0_g1 TRINITY_DN8134_c0_g1_i1.p1 77 13 71.7 159 0.000124719
TRINITY_DN364_c0_g1 TRINITY_DN364_c0_g1_i11.p1 76 13 54.7 181 0.000124719
TRINITY_DN1512_c1_g1 TRINITY_DN1512_c1_g1_i1.p2 74 13 23.6 225 0.000124719
TRINITY_DN53314_c0_g1 TRINITY_DN53314_c0_g1_i2.p1 58 13 41.4 333 0.000124719
TRINITY_DN218_c1_g1 TRINITY_DN218_c1_g1_i12.p1 292 12 53.3 152 0.000124719
TRINITY_DN4440_c0_g1 TRINITY_DN4440_c0_g1_i10.p1 260 12 60.6 160 0.000124719
TRINITY_DN4237_c2_g1 TRINITY_DN4237_c2_g1_i1.p1 253 12 54.2 153 0.000124719
TRINITY_DN2772_c0_g2 TRINITY_DN2772_c0_g2_i2.p2 250 12 47.1 221 0.000124719
TRINITY_DN39599_c0_g1 TRINITY_DN39599_c0_g1_i3.p1 216 12 64.7 204 0.000124719
TRINITY_DN31523_c0_g1 TRINITY_DN31523_c0_g1_i1.p1 208 12 50.3 199 0.000124719
TRINITY_DN22_c3_g2 TRINITY_DN22_c3_g2_i2.p1 191 12 48 152 0.000124719
TRINITY_DN2677_c0_g4 TRINITY_DN2677_c0_g4_i1.p1 169 12 57.3 150 0.000124719
Total protein records: 2239  (+41 contaminants hidden)
Show: proteins per page
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