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 — PXD010839

SpeciesZoanthus natalensis
Tissuecolony
PRIDE accessionPXD010839
Statusreprocessed
Search engineComet 2026.01
Reference proteome/mnt/sdb/jackie/cnidaria_omics/transcriptome_proteins/Zoanthus_sociatus.rep.pep
Enzymetrypsin
Missed cleavages2
Precursor tolerance10 ppm
Fragment tolerance0.02 Da
Fixed modificationC+57.021464
Variable modificationM+15.9949,n+42.010565,NQ+0.984016
Decoy strategyComet internal reversed (1:1)
FDR (PSM)0.01
Quantificationspectral counting (PSMs)
Proteins3675
Peptides (q≤0.01)13401
PSMs (q≤0.01)50724
reprocessed against the CnidoSite reference proteome
10 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_DN6974_c0_g4 TRINITY_DN6974_c0_g4_i1.p1 15 9 14 957 0.000100503
TRINITY_DN108_c0_g1 TRINITY_DN108_c0_g1_i1.p1 11 9 6.3 2041 0.000100503
TRINITY_DN681_c1_g1 TRINITY_DN681_c1_g1_i1.p1 11 9 5.1 2525 0.000100503
TRINITY_DN615_c1_g1 TRINITY_DN615_c1_g1_i1.p1 65 8 33 103 0.000100503
TRINITY_DN33315_c0_g1 TRINITY_DN33315_c0_g1_i1.p1 50 8 30 397 0.000100503
TRINITY_DN52825_c0_g1 TRINITY_DN52825_c0_g1_i1.p1 50 8 26.2 366 0.000100503
TRINITY_DN3691_c0_g1 TRINITY_DN3691_c0_g1_i8.p1 47 8 11.8 662 0.000100503
TRINITY_DN936_c0_g2 TRINITY_DN936_c0_g2_i3.p1 47 8 34.8 256 0.000100503
TRINITY_DN87690_c0_g1 TRINITY_DN87690_c0_g1_i1.p1 45 8 28.7 363 0.000100503
TRINITY_DN3629_c0_g2 TRINITY_DN3629_c0_g2_i1.p1 44 8 38.2 275 0.000100503
TRINITY_DN23230_c0_g1 TRINITY_DN23230_c0_g1_i3.p1 43 8 27.1 487 0.000100503
TRINITY_DN3251_c1_g1 TRINITY_DN3251_c1_g1_i1.p1 42 8 12.8 958 0.000100503
TRINITY_DN29901_c0_g1 TRINITY_DN29901_c0_g1_i1.p1 39 8 14.4 360 0.000100503
TRINITY_DN1539_c0_g2 TRINITY_DN1539_c0_g2_i1.p1 38 8 23.2 495 0.000100503
TRINITY_DN3781_c2_g1 TRINITY_DN3781_c2_g1_i11.p1 38 8 29.2 397 0.000100503
TRINITY_DN128696_c0_g1 TRINITY_DN128696_c0_g1_i1.p1 37 8 39.8 123 0.000100503
TRINITY_DN179802_c0_g1 TRINITY_DN179802_c0_g1_i1.p1 37 8 12.3 710 0.000100503
TRINITY_DN21222_c0_g1 TRINITY_DN21222_c0_g1_i1.p1 37 8 41.6 279 0.000100503
TRINITY_DN28630_c0_g1 TRINITY_DN28630_c0_g1_i6.p1 37 8 38.3 290 0.000100503
TRINITY_DN159400_c0_g1 TRINITY_DN159400_c0_g1_i1.p1 36 8 55.7 185 0.000100503
TRINITY_DN32751_c0_g1 TRINITY_DN32751_c0_g1_i1.p1 34 8 24.1 535 0.000100503
TRINITY_DN71004_c0_g1 TRINITY_DN71004_c0_g1_i1.p1 34 8 12.7 829 0.000100503
TRINITY_DN121158_c0_g1 TRINITY_DN121158_c0_g1_i1.p1 33 8 36 247 0.000100503
TRINITY_DN670_c2_g4 TRINITY_DN670_c2_g4_i2.p1 33 8 39.8 191 0.000100503
TRINITY_DN1773_c0_g2 TRINITY_DN1773_c0_g2_i2.p1 32 8 43.5 322 0.000100503
Total protein records: 3675  (+10 contaminants hidden)
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