Table III List of validated IMAC-MRM assays
Gene symbolModified peptide sequencePO4 siteGene description
ABLIM1STS(ph)QGSINSPVYSRpS452actin binding LIM protein 1
AHNAKLPS(ph)GSGAASPTGSAVDIRpS210AHNAK nucleoprotein
ATMNLS(ph)DIDQSFNKpS2996ataxia telangiectasia mutated
ATMSLEIS(ph)QSYTTTQRpS367ataxia telangiectasia mutated
ATRIPLS(ph)DGDMTSALRpS518ATR interacting protein
ATRIPLAAPSVSHVS(ph)PRpS224ATR interacting protein
BRCA1NYPS(ph)QEELIKpS1524breast cancer 1, early onset
BRCA2KPS(ph)YNQLASTPIIFKpS70breast cancer 2, early onset
BRIP1ATPELGSSENSASS(ph)PPRpS1032BRCA1 interacting protein C-terminal helicase 1
C16orf54SEDWYGS(ph)AVPLLTDRpS98Transmembrane protein C16orf54
C17orf70APS(ph)PLGPTRpS667Fanconi anemia-associated protein of 100 kDa
C20orf30LSS(ph)TDDGYIDLQFKpS24Transmembrane protein 230
CD3EAPQEQINTEPLEDTVLS(ph)PTKpS285CD3e molecule, epsilon associated protein
CD3EAPFSCPPNFTAKPPASES(ph)PRpS27CD3e molecule, epsilon associated protein
CDC42EP3ANS(ph)TSDSVFTETPSPVLKpS89CDC42 effector protein (Rho GTPase binding) 3
CHEK1YSSS(ph)QPEPRpS317CHK1 checkpoint homolog (S. pombe)
CLSPNSLS(ph)SDSTLLLFKpS720claspin
CTTNLPSS(ph)PVYEDAASFKpS418cortactin
DOCK2VEQEEPIS(ph)PGSTLPEVKpS1685dedicator of cytokinesis 2
DYNC1LI1KPVTVSPTTPTS(ph)PTEGEASpS516dynein, cytoplasmic 1, light intermediate chain 1
ELAVL1NVALLSQLYHS(ph)PARpS202ELAV (embryonic lethal, abnormal vision, Drosophila)-like 1 (Hu antigen R)
EPS15LDS(ph)PDPFKpS796epidermal growth factor receptor pathway substrate 15
EPS15IGT(ph)PTRPCPLPPGKpT777epidermal growth factor receptor pathway substrate 15
FAM129BAAPEASS(ph)PPASPLQHLLPGKpS692family with sequence similarity 129, member B
FANCISADFS(ph)QSTSIGIKpS730Fanconi anemia, complementation group I
GIGYF2S(ph)FDEVEGVFGRpS139GRB10 interacting GYF protein 2
HP1BP3TIPSWATLSAS(ph)QLARpS142heterochromatin protein 1, binding protein 3
HSPB1GPS(ph)WDPFRpS15heat shock 27kDa protein 1
IL16LLS(ph)TQAEESQGPVLKpS946interleukin 16 (lymphocyte chemoattractant factor)
JUNNSDLLTS(ph)PDVGLLKpS63jun proto-oncogene
KIF4ATFS(ph)LTEVRpS801kinesin family member 4A
LASP1GFSVVADT(ph)PELQRpT104LIM and SH3 protein 1
LAT2LLQFYPS(ph)LEDPASSRpS86linker for activation of T cells family, member 2
LCKNLDNGGFY(ph)ISPRpY192lymphocyte-specific protein tyrosine kinase
LIG1EGEDGDQPTT(ph)PPKPLKpT183ligase I, DNA, ATP-dependent
LMNAS(ph)VGGSGGGSFGDNLVTRpS628lamin A/C
LMNASVGGS(ph)GGGSFGDNLVTRpS632lamin A/C
MAP4K4AASSLNLS(ph)NGETESVKpS805mitogen-activated protein kinase kinase kinase kinase 4
MARCKSGEPAAAAAPEAGAS(ph)PVEKpS101myristoylated alanine-rich protein kinase C substrate
MAVSGPVS(ph)PSVSFQPLARpS222mitochondrial antiviral signaling protein
MDC1AQPFGFIDS(ph)DTDAEEERpS329mediator of DNA-damage checkpoint 1
MDC1GPGAPGLAHLQESQAGS(ph)DTDVEEGKpS376mediator of DNA-damage checkpoint 1
MED24LLS(ph)SNEDDANILSSPTDRpS862mediator complex subunit 24
MLL2ASEPLLS(ph)PPPFGESRpS2274myeloid/lymphoid or mixed-lineage leukemia 2
MOCOSSLS(ph)PQEDALTGSRpS530molybdenum cofactor sulfurase
MYBBP1AEIPSATQS(ph)PISKpS1163MYB binding protein (P160) 1a
MYO9BVSPPAPGS(ph)APETPEDKpS1267myosin IXB
MYO9BVQEKPDS(ph)PGGSTQIQRpS1290myosin IXB
NBNTTTPGPSLS(ph)QGVSVDEKpS343nibrin
NBNIPNYQLS(ph)PTKpS432nibrin
NCLGFGFVDFNS(ph)EEDAKpS619nucleolin
NFATC1GLGACTLLGS(ph)PRpS233nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1
NSUN2ESTQLS(ph)PADLTEGKPTDPSKpS456NOP2/Sun domain family, member 2
NUFIP2NDS(ph)WGSFDLRpS652nuclear fragile X mental retardation protein interacting protein 2
NUMA1VSLEPHQGPGT(ph)PESKpT2000nuclear mitotic apparatus protein 1
NUP107SGFGEISS(ph)PVIRpS11nucleoporin 107kDa
PALB2TVEEQDCLS(ph)QQDLSPQLKpS59partner and localizer of BRCA2
PALLDIAS(ph)DEEIQGTKpS893palladin, cytoskeletal associated protein
PGM1AIGGIILTAS(ph)HNPGGPNGDFGIKpS117phosphoglucomutase 1
PHACTR2ASIANSDGPTAGSQT(ph)PPFKpT25phosphatase and actin regulator 2
PKP3AGGLDWPEATEVS(ph)PSRpS238plakophilin 3
PLEC1S(ph)GGGAGSNGSVLDPAERpS42PLEC_isoform2
PLEKHA2SIS(ph)LTRPGSSSLSSGPNSILCRpS314pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 2
PPP1R10VLS(ph)PTAAKPSPFEGKpS313protein phosphatase 1, regulatory (inhibitor) subunit 10
PRKRAEDS(ph)GTFSLGKpS18protein kinase, interferon-inducible double stranded RNA dependent activator
PWP1NSS(ph)ISGPFGSRpS485PWP1 homolog (S. cerevisiae)
RAD18NDLQDTEIS(ph)PRpS471RAD18 homolog (S. cerevisiae)
RAD18NHLLQFALES(ph)PAKpS99RAD18 homolog (S. cerevisiae)
RANBP2FESPATGILS(ph)PRpS955RAN binding protein 2
RAVER1LLS(ph)PLSSARpS567RAVER1_isoform2
RB1TAVIPINGS(ph)PRpS249retinoblastoma 1
RB1IPGGNIYIS(ph)PLKpS807retinoblastoma 1
RBM7SFS(ph)SPENFQRpS136RNA binding motif protein 7
RCSD1SQS(ph)DCGELGDFRpS179RCSD domain containing 1
RDBPSIS(ph)ADDDLQESSRpS115RD RNA binding protein
REV3LSGTLS(ph)PEIFEKpS1724REV3-like, catalytic subunit of DNA polymerase zeta (yeast)
RFTN1GDHAS(ph)LENEKPGTGDVCSAPAGRpS199raftlin, lipid raft linker 1
RPL12IGPLGLS(ph)PKpS38ribosomal protein L12
SAMHD1NFTKPQDGDVIAPLIT(ph)PQKpT592SAM domain and HD domain 1
SAPS3IQQFDDGGS(ph)DEEDIWEEKpS617protein phosphatase 6, regulatory subunit 3
SGOL2DNFFSLT(ph)PKpT845shugoshin-like 2 (S. pombe)
SH2D4ATLS(ph)SSAQEDIIRpS315SH2 domain containing 4A
SH3BP1TESEVPPRPAS(ph)PKpS544SH3-domain binding protein 1
SLC9A1CLS(ph)DPGPHPEPGEGEPFFPKpS796solute carrier family 9 (sodium/hydrogen exchanger), member 1
SMC3GSGS(ph)QSSVPSVDQFTGVGIRpS1083structural maintenance of chromosomes 3
SNRNP70GGGGGQDNGLEGLGNDS(ph)RpS410small nuclear ribonucleoprotein 70kDa (U1)
SNRPCFYCDYCDTYLTHDS(ph)PSVRpS17small nuclear ribonucleoprotein polypeptide C
SRRM2ENS(ph)FGSPLEFRpS1326serine/arginine repetitive matrix 2
STAU2VISGTTLGYLS(ph)PKpS440staufen, RNA binding protein, homolog 2 (Drosophila)
STMN1ASGQAFELILS(ph)PRpS25stathmin 1
STMN1AS(ph)GQAFELILSPRpS16stathmin 1
TACC2FSS(ph)PTEELDYRpS2512transforming, acidic coiled-coil containing protein 2
TMPOHAS(ph)PILPITEFSDIPRpS306thymopoietin
TNKS1BP1YESQEPLAGQES(ph)PLPLATRpS601tankyrase 1 binding protein 1, 182kDa
TNKS1BP1S(ph)QEADVQDWEFRpS836tankyrase 1 binding protein 1, 182kDa
TOPBP1NAVALSAS(ph)PQLKpS888topoisomerase (DNA) II binding protein 1
TP53ALPNNTSSS(ph)PQPKpS315tumor protein p53
TP53BP1NS(ph)PEDLGLSLTGDSCKpS500tumor protein p53 binding protein 1
TP53BP1SGTAETEPVEQDS(ph)SQPSLPLVRpS830tumor protein p53 binding protein 1
TPX2SSDQPLTVPVS(ph)PKpS738TPX2, microtubule-associated, homolog (Xenopus laevis)
USP1ALDFTDS(ph)QENEEKpS42ubiquitin specific peptidase 1
VIMETNLDS(ph)LPLVDTHSKpS430vimentin
VIMSLYASS(ph)PGGVYATRpS56vimentin
YLPM1GPASQFYITPSTSLS(ph)PRpS634YLP motif containing 1
ZC3H11ATVLPTVPES(ph)PEEEVKpS108zinc finger CCCH-type containing 11A
ZCCHC8GT(ph)PPPVFTPPLPKpT479zinc finger, CCHC domain containing 8
ZYXS(ph)PGAPGPLTLKpS344zyxin