Table 1.
Dataset Identifier | Ref | MS Instrument | Sample Preparation a | # MS runs | # MS/MS spectra | # Positive SEQ IDs b |
---|---|---|---|---|---|---|
HUPO-ISB/b1-CIT_glyco_lcq | 27 | LCQ Classic | Gly,IAM,SCX | 46 | 148536 | 8206 c |
HUPO-ISB/NIBSC_glyco_lcq | 27 | LCQ Classic | Gly,IAM,SCX | 47 | 157370 | 18486 c |
HUPOPPP12/HUPO12_run31 | 27 | LCQ Deca | Alb,Ig,IAM,SCX | 15 | 27007 | 1041 d |
HUPOPPP12/HUPO12_run32 | 27 | LCQ Deca | Alb,Ig,IAM,SCX | 15 | 29383 | 1292 d |
HUPOPPP12/HUPO12_run33 | 27 | LCQ Deca | Alb,Ig,IAM,SCX | 15 | 24726 | 1463 d |
HUPOPPP12/HUPO12_run34 | 27 | LCQ Deca | Alb,Ig,IAM,SCX | 15 | 21311 | 1043 d |
HUPOPPP22/HUPO22_M_CA_S | 27 | LCQ Deca XP | Top6,IAM,SCX | 219 | 517747 | 11706 d |
HUPOPPP28/HUPO28_b1-CIT | 27 | LCQ Duo | None | 1 | 3570 | 412 c |
HUPOPPP28/HUPO28_b1-SERUM | 27 | LCQ Duo | None | 1 | 3640 | 529 c |
HUPOPPP28/HUPO28_b2-CIT | 27 | LCQ Duo | None | 5 | 12534 | 2032 c |
HUPOPPP28/HUPO28_b2-SERUM | 27 | LCQ Duo | None | 5 | 12483 | 1676 c |
HUPOPPP28/HUPO28_b3-CIT | 27 | LCQ Duo | None | 1 | 3631 | 578 c |
HUPOPPP28/HUPO28_b3-SERUM | 27 | LCQ Duo | None | 1 | 3618 | 583 c |
HUPOPPP28/HUPO28_Ref-CIT | 27 | LCQ Duo | None | 1 | 3543 | 413 c |
HUPOPPP28/HUPO28_Ref-SERUM | 27 | LCQ Duo | None | 1 | 3546 | 366 c |
HUPOPPP29/HUPO29_b1-CIT_1 | 27 | LCQ Deca XP | Top6,IAM,SCX | 17 | 132484 | 6313 c |
HUPOPPP29/HUPO29_b1-CIT_win1 | 27 | LCQ Deca XP | Top6,IAM,SCX | 15 | 106995 | 3205 c |
HUPOPPP29/HUPO29_b1-CIT_win2 | 27 | LCQ Deca XP | Top6,IAM,SCX | 15 | 90803 | 657 c |
HUPOPPP29/HUPO29_b1-EDTA_1 | 27 | LCQ Deca XP | Top6,IAM,SCX | 15 | 130894 | 1250 c |
HUPOPPP29/HUPO29_b1-EDTA_win1 | 27 | LCQ Deca XP | Top6,IAM,SCX | 15 | 112090 | 6117 c |
HUPOPPP29/HUPO29_b1-EDTA_win2 | 27 | LCQ Deca XP | Top6,IAM,SCX | 14 | 84068 | 2286 c |
HUPOPPP29/HUPO29_b1-HEP | 27 | LCQ Deca XP | Top6,IAM,SCX | 15 | 133616 | 762 c |
HUPOPPP29/HUPO29_b1-SERUM | 27 | LCQ Deca XP | Top6,IAM,SCX | 15 | 129002 | 2057 c |
HUPOPPP34/HUPO34 | 27 | LCQ Deca XP | Top6,IAM,pI,Size | 140 | 477321 | 13522 c |
HUPOPPP34/HUPO34_b1-SERUM | 27 | LTQ | Top6,IAM,pI,Size | 157 | 1116626 | 75221 d |
HUPOPPP37/HUPO37_b1-HEP_2LCQ | 27 | LCQ Deca XP | None | 17 | 10953 | 27 c |
HUPOPPP40/HUPO40 | 27 | LCQ | Alb,Ig,IAM,SCX | 126 | 66695 | 6124 c |
wqian/HsPlasma_tryp_nonalkylated | 28 | LCQ Deca XP | Alb,Ig,SCX | 321 | 451115 | 141852 e |
wqian/HsPlasma_tryp_alkylated | 28 | LCQ Duo | Alb,Ig,SCX,IAM | 140 | 2277496 | 46480 e |
mpeitsch/NovartisPlasma/MicroProt | 29 | Bruker Esquire | Alb,Ig,IAM,Size,SCX | 38252 | 5741424 | 284100 c |
mpeitsch/NovartisPlasma/MicroProt2 | 29 | Bruker Esquire | Alb,Ig,IAM,Size,SCX | 7480 | 2522032 | 480193 d |
apaulovich/serum_fractionation/01_glyco | 30 | LTQ | Gly,IAM | 10 | 171207 | 33789 c |
apaulovich/serum_fractionation/15_clinprot_c3 | 30 | LTQ | HIC,IAM | 10 | 138430 | 14891 c |
apaulovich/serum_fractionation/16_clinprot_c8 | 30 | LTQ | HIC,IAM | 10 | 142338 | 13999 c |
apaulovich/serum_fractionation/17_wcx | 30 | LTQ | WCX,IAM | 10 | 147259 | 26813 c |
apaulovich/serum_fractionation/18_size | 30 | LTQ | Size,IAM | 10 | 166796 | 19813 c |
apaulovich/serum_fractionation/19_proteintag | 30 | LTQ | Ig,IAM | 10 | 155402 | 8556 c |
apaulovich/serum_fractionation/20_cys | 30 | LTQ | Cys,IAM | 10 | 150152 | 31852 c |
apaulovich/serum_fractionation/21_unfract | 30 | LTQ | IAM | 10 | 74936 | 16013 c |
apaulovich/serum_fractionation/22_mars | 30 | LTQ | Top6,IAM | 10 | 194523 | 37004 c |
Abbreviations for sample preparation: Alb = albumin depletion, Ig = Immunoglobulin depletion, Top6 = Depletion of 6 highest-abundance serum proteins, Gly: glycocapture enrichment, Cys: cysteinyl chemistry enrichment, IAM: alkylation of cysteines by iodoacetamide, SCX: strong cation exchange, pI: fractionation based on isoelectric point, Size: fractionation based on size, HIC: hydrophobic interaction chromatography, WCX: weak cation exchange.
SEQUEST identifications with PeptideProphet-estimated probabilities at or above 0.9.
Searched against human IPI (International Protein Index) database version 3.21;
Searched against human IPI database version 3.17;
Searched against human IPI database version 3.16.