Research Article

Proteomic Characterization of Cerebrospinal Fluid from Ataxia-Telangiectasia (A-T) Patients Using a LC/MS-Based Label-Free Protein Quantification Technology

Table 3

Priority 1 and Priority 2 proteins.

Protein namePriority groupSwiss-Prot accession numberPeptides used for protein identificationPeptide ID confidence
(%)
Fold-Change (negative values indicate downregulation)(a)

LVRPADINFLACVMECEGKLPSLK>99.99
AEEDDSLANSSDLLKELLETGDNR>99.99
Proenkephalin-A1P01210ECSQDCATCSYR93.451.29
ELLETGDNR99.31
ELLQLSKPELPQDGTSTLR99.23

FSCFQEEAPQPHYQLR>99.99
Isoform 1 of Extracellular matrix protein 11Q16610QHVVYGPWNLPQSSYSHLTR>99.991.42
NIWRDPALCCYLSPGDEQVNCFNINYLR>99.99
ACPSHQPDISSGLELPFPPGVPTLDNIK>99.99

IESQTQEEVR>99.99
TNEIVEEQYTPQSLATLESVFQELGK>99.99
VLEYLNQEK>99.99
Secretogranin 21P13521GQGSSEDDLQEEEQIEQAIK>99.991.35
EHLNQGSSQETDKLAPVS>99.99
ALEYIENLR 90.56
QYWDEDLLMK 99.73

Isoform 1 of CD166 antigen1Q13740SSPSFSSLHYQDAGNYVCETALQEVEGLK>99.991.52
ALFLETEQLK91.12

ITVVDALHEIPVK>99.99
SSSDTCGPCEPASCPPLPPLGCLLGETR>99.99
SRYPVCGSDGTTYPSGCQLR>99.99
Insulin-like growth factor binding protein 71Q16270TELLPGDRDNLAIQTR99.98 −1.46
EDAGEYECHASNSQGQASASAK99.99
AGAAAGGPGVSGVCVCK>99.99
GTCEQGPSIVTPPK99.50

YIPPCLDSELTEFPLR>99.99
SPARC1P09486APLIPMEHCTTR99.96 −1.47
PPCLDSELTEFPLR99.52
RLEAGDHPVELLAR>99.99

GRPEAQPPPLSSEHKEPVAGDAVPGPK>99.99
LADLASDLLLQYLLQGGAR>99.99
ESAREEEEAEQER>99.99
NSEPQDEGELFQGVDPR>99.99
RPESALLGGSEAGER>99.99
Neurosecretory protein VGF1O15240THLGEALAPLSK>99.991.42
VGEEDEEAAEAEAEAEEAER>99.99
LLQQGLAQVEAGR>99.99
NAPPEPVPPPR>99.99
GLQEAAEER 95.27
FGEGVSSPK>99.99
AYQGVAAPFPK>99.99

TPP11B5MDC1YLTLENVADLVRPSPLTLHTVQK98.74 −1.44
VPIPWVSGTSASTPVFGGILSLINEHR>99.99

GIEDEQDLVPLEVTGVVFHYR>99.99
Neurocan core protein1O14594RNPQELYDVYCFAR>99.991.30
ELGGEVFYVGPAR>99.99

HSGFEDELSEVLENQSSQAELK>99.99
AEGNNQAPGEEEEEEEEATNTHPPASLPSQK>99.99
GEQEHSQQKEEEEEMAVVPQGLFR99.07
ELQDLALQGAK>99.99
PQALPEPMQESK>99.99
Chromogranin A1P10645SEALAVDGAGKPGAEEAQDPEGK>99.991.31
RPEDQELESLSAIEAELEK>99.99
EDSLEAGLPLQVR>99.99
YPGPQAEGDSEGLSQGLVDREK>99.99
SGELEQEEER>99.99
TDGARPQALPEPMQESK>99.99
GLSAEPGWQAK>99.99

AIGAVPLIQGEYMIPCEK>99.99
ISVNNVLPVFDNLMQQK>99.99
FDGILGMAYPR>99.99
Cathepsin D1P07339VSTLPAITLK98.91 −1.37
TMSEVGGSVEDLIAK>99.99
VGFAEAAR90.97
LLDIACWIHHK99.98

VTEIWQEVMQR>99.99
LACCVVGVCGPGLWER>99.99
SOD31P08294AGLAASLAGPHSIVGR96.66 −1.37
AVVVHAGEDDLGR>99.99
RDDDGALHAACQVQPSATLDAAQPR>99.99
GGNQASVENGNAGR>99.99

NGVNVISGPIFDYDYDGLHDTEDKIK99.71
YDAFLVTNMVPMYPAFK>99.99
SYTSCCHDFDELCLK>99.99
NKLDELNKR>99.99
RLHYANNR>99.99
VNSMQTVFVGYGPTFK>99.99
DIEHLTSLDFFR>99.99
ENPP21Q13822EIDKIVGQLMDGLK>99.99 −1.36
TEFLSNYLTNVDDITLVPGTLGR>99.99
RWHVAR92.27
SCGTHSPYMRPVYPTK>99.99
SYPEILTLK94.45
QAEVSSVPDHLTSCVRPDVR99.79
GESHWVDDDCEEIK>99.99
VMPNIEK94.62
IEDIHLLVER>99.99
VSPSFSQNCLAYK99.85
KPDQHFKPYLK99.79
PAVLYR91.70
PAGFVRPPLIIFSVDGFR>99.99
CFFQGDHGFDNK90.16
QMSYGFLFPPYLSSSPEAK99.03

Insulin-like growth factor binding protein complex acid abile chain2P35858LAYLQPALFSGLAELR>99.99 −1.45

Caspase recruitment domain-containing protein 142Q9BXL6GALPGAK95.91 −1.95

Endothelial cell-selective adhesion molecule2Q96AP7QLPSFQTFFAPALDVIR99.94 1.95

Isoform 1 of phosphatidylinositol 3-kinase regulatory subunit gamma2Q92569LGEIHDSK90.36 −2.16

Neutral amino acid transporter B2Q15758SCTVLNVEGDALGAGLLQNYVDR90.14 −1.87

Isoform 1 of latrophilin-12O94910TDDKICDADPFQMENVQCYLPDAFK>99.991.57

Isoform 1 of histone-lysine N-methyltransferase MLL32Q8NEZ4IQPPIAQLPIK91.362.03

(a)The fold-changes are the average values from all the peptides used for protein quantification; individual values from individual peptide are given in the supplementary data.