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 — PXD017814

SpeciesOrbicella annularis
TissueCoral skeleton
PRIDE accessionPXD017814
Statusreprocessed
Search engineComet 2026.01
Reference proteome/mnt/sdb/jackie/cnidaria_omics/transcriptome_proteins/Orbicella_annularis.rep.pep
Enzymetrypsin
Missed cleavages2
Precursor tolerance10 ppm
Fragment tolerance0.02 Da
Fixed modificationC+57.021464
Variable modificationM+15.9949
Decoy strategyComet internal reversed (1:1)
FDR (PSM)0.01
Quantificationspectral counting (PSMs)
Proteins65
Peptides (q≤0.01)223
PSMs (q≤0.01)759
reprocessed against the CnidoSite reference proteome
12 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_DN8845_c3_g1 TRINITY_DN8845_c3_g1_i1.p1 113 32 50.7 609 0.0052356
TRINITY_DN27672_c1_g3 TRINITY_DN27672_c1_g3_i1.p1 108 26 44.7 517 0.0052356
TRINITY_DN58504_c0_g1 TRINITY_DN58504_c0_g1_i3.p1 66 12 13.2 1108 0.0052356
TRINITY_DN27673_c0_g1 TRINITY_DN27673_c0_g1_i3.p1 35 12 45.1 275 0.0052356
TRINITY_DN27672_c1_g4 TRINITY_DN27672_c1_g4_i1.p1 25 9 14.7 590 0.0052356
TRINITY_DN25487_c0_g1 TRINITY_DN25487_c0_g1_i4.p1 38 7 26.4 144 0.0052356
TRINITY_DN3716_c0_g1 TRINITY_DN3716_c0_g1_i1.p1 9 4 2.8 1686 0.0052356
TRINITY_DN4958_c0_g1 TRINITY_DN4958_c0_g1_i7.p1 6 4 6.7 684 0.0052356
TRINITY_DN146178_c0_g1 TRINITY_DN146178_c0_g1_i1.p1 43 3 11 264 0.0052356
TRINITY_DN9570_c0_g1 TRINITY_DN9570_c0_g1_i1.p1 8 3 7.5 451 0.0052356
TRINITY_DN325_c0_g3 TRINITY_DN325_c0_g3_i1.p1 7 3 3.4 1137 0.0052356
TRINITY_DN21605_c0_g1 TRINITY_DN21605_c0_g1_i1.p1 6 3 6.5 765 0.0052356
TRINITY_DN33035_c0_g1 TRINITY_DN33035_c0_g1_i1.p1 5 3 18 150 0.0052356
TRINITY_DN78804_c0_g1 TRINITY_DN78804_c0_g1_i1.p1 5 3 8.4 463 0.0052356
TRINITY_DN3831_c0_g4 TRINITY_DN3831_c0_g4_i1.p1 3 3 3.8 1001 0.0052356
TRINITY_DN554_c3_g1 TRINITY_DN554_c3_g1_i1.p1 10 2 6 336 0.0052356
TRINITY_DN78231_c0_g1 TRINITY_DN78231_c0_g1_i1.p1 9 2 6.4 404 0.0052356
TRINITY_DN8392_c0_g1 TRINITY_DN8392_c0_g1_i1.p1 6 2 20.3 177 0.0052356
TRINITY_DN5243_c3_g1 TRINITY_DN5243_c3_g1_i1.p1 4 2 10.8 158 0.0052356
TRINITY_DN6368_c1_g1 TRINITY_DN6368_c1_g1_i1.p1 2 2 5.1 451 0.0052356
TRINITY_DN28663_c0_g2 TRINITY_DN28663_c0_g2_i1.p1 12 1 2.7 519 0.0052356
TRINITY_DN26976_c0_g1 TRINITY_DN26976_c0_g1_i1.p1 10 1 2.3 385 0.0052356
TRINITY_DN34846_c0_g1 TRINITY_DN34846_c0_g1_i3.p1 10 1 5 181 0.0052356
TRINITY_DN84265_c0_g1 TRINITY_DN84265_c0_g1_i1.p1 6 1 5.5 325 0.0052356
TRINITY_DN28080_c0_g1 TRINITY_DN28080_c0_g1_i1.p1 5 1 3.3 396 0.0052356
Total protein records: 65  (+12 contaminants hidden)
Show: proteins per page
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