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_DN6842_c0_g1 TRINITY_DN6842_c0_g1_i1.p2 158 17 43.9 305 0.000124719
TRINITY_DN21492_c0_g2 TRINITY_DN21492_c0_g2_i2.p1 155 17 67.1 146 0.000124719
TRINITY_DN1399_c0_g3 TRINITY_DN1399_c0_g3_i13.p1 136 17 45.8 203 0.000124719
TRINITY_DN320_c0_g2 TRINITY_DN320_c0_g2_i3.p1 120 17 42.6 263 0.000124719
TRINITY_DN18791_c0_g1 TRINITY_DN18791_c0_g1_i3.p1 98 17 46 289 0.000124719
TRINITY_DN55609_c1_g1 TRINITY_DN55609_c1_g1_i2.p1 309 16 75.8 165 0.000124719
TRINITY_DN1940_c0_g2 TRINITY_DN1940_c0_g2_i3.p1 281 16 56.2 137 0.000124719
TRINITY_DN28790_c0_g1 TRINITY_DN28790_c0_g1_i3.p1 228 16 80 100 0.000124719
TRINITY_DN6907_c0_g2 TRINITY_DN6907_c0_g2_i7.p1 228 16 60.4 202 0.000124719
TRINITY_DN3061_c0_g1 TRINITY_DN3061_c0_g1_i4.p1 214 16 49.6 141 0.000124719
TRINITY_DN49_c0_g1 TRINITY_DN49_c0_g1_i5.p1 203 16 75.6 168 0.000124719
TRINITY_DN2760_c0_g2 TRINITY_DN2760_c0_g2_i1.p1 179 16 68.7 166 0.000124719
TRINITY_DN311_c0_g3 TRINITY_DN311_c0_g3_i1.p1 158 16 67.3 107 0.000124719
TRINITY_DN4060_c0_g3 TRINITY_DN4060_c0_g3_i6.p1 153 16 69.3 150 0.000124719
TRINITY_DN31734_c0_g1 TRINITY_DN31734_c0_g1_i3.p1 146 16 49.5 184 0.000124719
TRINITY_DN858_c0_g1 TRINITY_DN858_c0_g1_i3.p1 143 16 57.6 231 0.000124719
TRINITY_DN670_c0_g2 TRINITY_DN670_c0_g2_i2.p1 126 16 71.2 139 0.000124719
TRINITY_DN12623_c0_g3 TRINITY_DN12623_c0_g3_i1.p1 116 16 66 194 0.000124719
TRINITY_DN3998_c0_g2 TRINITY_DN3998_c0_g2_i4.p1 94 16 41.9 303 0.000124719
TRINITY_DN911_c1_g1 TRINITY_DN911_c1_g1_i1.p1 87 16 75.9 108 0.000124719
TRINITY_DN3096_c0_g4 TRINITY_DN3096_c0_g4_i1.p1 85 16 46.1 330 0.000124719
TRINITY_DN36_c0_g1 TRINITY_DN36_c0_g1_i2.p1 85 16 51.1 219 0.000124719
TRINITY_DN3445_c0_g2 TRINITY_DN3445_c0_g2_i4.p1 76 16 63.6 107 0.000124719
TRINITY_DN5206_c0_g4 TRINITY_DN5206_c0_g4_i1.p1 73 16 53.3 214 0.000124719
TRINITY_DN8535_c0_g1 TRINITY_DN8535_c0_g1_i1.p1 460 15 30.7 137 0.000124719
Total protein records: 2239  (+41 contaminants hidden)
Show: proteins per page
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