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_DN28693_c0_g1 TRINITY_DN28693_c0_g1_i1.p1 5 1 13 115 0.0052356
TRINITY_DN28862_c0_g1 TRINITY_DN28862_c0_g1_i1.p1 5 1 3.1 293 0.0052356
TRINITY_DN3993_c0_g1 TRINITY_DN3993_c0_g1_i3.p1 5 1 16 119 0.0052356
TRINITY_DN6691_c0_g1 TRINITY_DN6691_c0_g1_i1.p1 5 1 3.8 234 0.0052356
TRINITY_DN2550_c3_g1 TRINITY_DN2550_c3_g1_i10.p1 4 1 1.1 1244 0.0052356
TRINITY_DN16616_c0_g1 TRINITY_DN16616_c0_g1_i2.p1 3 1 10.7 103 0.0052356
TRINITY_DN2570_c0_g2 TRINITY_DN2570_c0_g2_i1.p1 3 1 3.7 402 0.0052356
TRINITY_DN38605_c0_g1 TRINITY_DN38605_c0_g1_i1.p1 3 1 4 273 0.0052356
TRINITY_DN74540_c0_g1 TRINITY_DN74540_c0_g1_i1.p1 3 1 1.3 859 0.0052356
TRINITY_DN99876_c0_g1 TRINITY_DN99876_c0_g1_i1.p1 3 1 10.6 123 0.0052356
TRINITY_DN149983_c0_g1 TRINITY_DN149983_c0_g1_i1.p1 2 1 3.6 302 0.0052356
TRINITY_DN16062_c0_g1 TRINITY_DN16062_c0_g1_i1.p1 2 1 7.8 205 0.0052356
TRINITY_DN2011_c0_g1 TRINITY_DN2011_c0_g1_i9.p1 2 1 14 114 0.0052356
TRINITY_DN23397_c0_g1 TRINITY_DN23397_c0_g1_i1.p1 2 1 2.7 489 0.0052356
TRINITY_DN24780_c0_g1 TRINITY_DN24780_c0_g1_i1.p1 2 1 0.9 965 0.0052356
TRINITY_DN3281_c1_g1 TRINITY_DN3281_c1_g1_i5.p1 2 1 9.7 185 0.0052356
TRINITY_DN3312_c1_g1 TRINITY_DN3312_c1_g1_i6.p1 2 1 1.7 543 0.0052356
TRINITY_DN43139_c0_g2 TRINITY_DN43139_c0_g2_i1.p1 2 1 10.4 115 0.0052356
TRINITY_DN4344_c0_g2 TRINITY_DN4344_c0_g2_i3.p1 2 1 2.3 619 0.0052356
TRINITY_DN52606_c0_g1 TRINITY_DN52606_c0_g1_i1.p2 2 1 1.7 879 0.0052356
TRINITY_DN85116_c0_g1 TRINITY_DN85116_c0_g1_i1.p1 2 1 4.2 335 0.0052356
TRINITY_DN92112_c0_g1 TRINITY_DN92112_c0_g1_i1.p1 2 1 6.2 161 0.0052356
TRINITY_DN97768_c0_g1 TRINITY_DN97768_c0_g1_i1.p1 2 1 0.7 1399 0.0052356
TRINITY_DN99935_c0_g1 TRINITY_DN99935_c0_g1_i2.p1 2 1 1.7 471 0.00896861
TRINITY_DN15598_c0_g1 TRINITY_DN15598_c0_g1_i1.p1 1 1 5.8 173 0.00896861
Total protein records: 65  (+12 contaminants hidden)
Show: proteins per page
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