International Journal of Proteomics

Research Article

Combined Phosphoproteomics and Bioinformatics Strategy in Deciphering Drug Resistant Related Pathways in Triple Negative Breast Cancer

Table 2

Selected phosphopeptide list with quantification data.


Protein name	Peptide	Gene	Site	231, 436, 1187, 1937 versus 1806 & 468		231 & 436 versus 1806 & 468		1187 & 1937 versus 1806 & 468
Protein name	Peptide	Gene	Site	value	Fold change	value	Fold change	value	Fold change

Serine/arginine repetitive matrix protein 1	KEKtPELPEPSVK	SRRM1	T220	0.001	0.39	0.023	0.35	0.049	0.42
Serine/arginine repetitive matrix protein 1	RYsPPIQR	SRRM1	S606	0.000	0.34	0.022	0.46	0.002	0.22
Serine/arginine repetitive matrix protein 1	RRsPsPPPTR	SRRM1	S558			0.038	Sensitive only
Serine/arginine repetitive matrix protein 1	RRsPsPPPTR	SRRM1	S560			0.038	Sensitive only
Catenin delta-1	VGGSsVDLHR	CTNND1	S269	0.005	Sensitive only	0.038	Sensitive only	0.038	Sensitive only
Catenin delta-1	GSLAsLDSLR	CTNND1	S349	0.008	0.31	0.013	0.08
Catenin delta-1	GsLASLDSLR	CTNND1	S346	0.035	0.25	0.038	0.25
Catenin delta-1	sGDLGDMEPLK	CTNND1	S920	0.035	0.25	0.038	0.25	0.038	0.25
Catenin delta-1	HYEDGYPGGSDNYGsLSR	CTNND1	S230					0.038	Resistant only
Sororin	IVAHAVEVPAVQsPR	CDCA5	S75	0.012	Sensitive only
Eukaryotic translation initiation factor 4 gamma 2	FsPTMGR	EIF4G2	S395	0.011	0.39			0.005	0.11
Methyl-CpG-binding domain protein 1	VTNDIsPESSPGVGR	PCM1	S65	0.038	2.75	0.002	3.50
Eukaryotic translation initiation factor 4 gamma 1	ANKtPLRPLDPTR	EIF4G1	T607	0.007	0.10			0.021	Sensitive only
Eukaryotic translation initiation factor 4 gamma 1	SFsKEVEER	EIF4G1	S1148					0.002	3.50
Eukaryotic translation initiation factor 4 gamma 3	RsPVPAQIAITVPK	EIF4G3	S99	0.043	3.75	0.033	4.0	0.015	3.50
Nuclear pore complex protein Nup153	sPGFASPK	NUP153	S645	0.005	Sensitive only	0.038	Sensitive only	0.038	Sensitive only
Alpha-2-HS-glycoprotein	cDSSPDsAEDVRK	AHSG	S138	0.033	7.33			0.002	11.67
Ras GTPase-activating protein-binding protein 1	SSsPAPADIAQTVQEDLR	G3BP1	S232	0.000	Sensitive only	0.013	Sensitive only	0.013	Sensitive only
Inositol 1,4,5-trisphosphate receptor type 3	VAsFSIPGSSSR	ITPR3	S1832	0.025	4.25	0.000	5.50
Transcription factor AP-1	LAsPELER	JUN	S73	0.022	Resistant only	0.002	Resistant only
Thymidine kinase, cytosolic	LFAPQQILQcsPAN	TK1	S231	0.000	Sensitive only	0.002	Sensitive only	0.002	Sensitive only
Thymidine kinase, cytosolic	scINLPTVLPGsPSK	TK1	S13	0.001	Sensitive only	0.020	Sensitive only	0.020	Sensitive only
Lamin-B1	AGGPTTPLsPTR	LMNB1	S23	0.025	Resistant only			0.013	Resistant only
Microtubule-associated protein 1B	VQSLEGEKLsPK	MAP1B	S1779	0.044	Resistant only	0.001	Resistant only
Microtubule-associated protein 1B	SPSLSPSPPsPLEK	MAP1B	S1265			0.020	Resistant only
Mitogen-activated protein kinase 1	VADPDHDHTGFLTEyVATR	MAPK1	Y187	0.043	0.21
Phosphatidylserine synthase 2	DAGGPRPEsPVPAGR	PTDSS2	S16	0.004	Resistant only	0.020	Resistant only	0.002	Resistant only
Epidermal growth factor receptor	GSTAENAEyLR	EGFR	Y1197	0.000	Sensitive only	0.019	Sensitive only	0.019	Sensitive only
Epidermal growth factor receptor	RPAGSVQNPVyHNQPLNPAPSR	EGFR	Y1110	0.002	Sensitive only	0.030	Sensitive only	0.030	Sensitive only
Epidermal growth factor receptor	NGLQScPIKEDsFLQR	EGFR	S1064	0.006	Sensitive only
Epidermal growth factor receptor	GSHQISLDNPDyQQDFFPK	EGFR	Y1172	0.008	Sensitive only
Epidermal growth factor receptor	RPAGsVQNPVYHNQPLNPAPSR	EGFR	S1104	0.012	Sensitive only
Epidermal growth factor receptor	mHLPsPTDSNFYR	EGFR	S991	0.039	Sensitive only
Epidermal growth factor receptor	ELVEPLtPSGEAPNQALLR	EGFR	T693	0.003	0.16			0.025	0.13
Isoform 2 of hepatocyte growth factor receptor	VHtPHLDR	MET	T977	0.000	0.17	0.002	0.17	0.002	0.17
Heterogeneous nuclear ribonucleoproteins A2/B1	GGGGNFGPGPGsNFR	HNRNPA2B1	S225	0.000	Sensitive only	0.013	Sensitive only	0.013	Sensitive only
Heterogeneous nuclear ribonucleoproteins A2/B1	GGNFGFGDsR	HNRNPA2B1	S212	0.003	0.17			0.006	Sensitive only
Isoform PML-5 of protein PML	TPAsPHFR	PML	S583	0.025	Resistant only			0.006	Resistant only
Isoform 2 of dual specificity protein kinase TTK	VPVNLLNsPDcDVK	TTK	S240	0.035	Sensitive only
PDZ and LIM domain protein 4	IHIDPEIQDGsPTTSR	PDLIM4	S112	0.031	8.00	0.009	12.00	0.037	4.0
Heat shock factor protein 1	VKEEPPsPPQSPR	HSF1	S303	0.026	Resistant only	0.038	Resistant only	0.021	Resistant only
Isoform 2 of serine/arginine-rich splicing factor 11	LNHVAAGLVsPSLK	SRSF11	S207			0.025	0.25
Isoform 4 of acetyl-CoA carboxylase 1	SSmsGLHLVK	ACACA	S117	0.005	Resistant only	0.003	Resistant only	0.016	Resistant only
Serine/threonine-protein kinase PAK 1	sVIEPLPVTPTR	PAK1	S181	0.005	Sensitive only
Beta-2-syntrophin	GPAGEAGAsPPVR	SNTB2	S110	0.034	2.31	0.002	3.25
Beta-2-syntrophin	GLGPPsPPAPPR	SNTB2	S95			0.000	3.00
Cullin-4A	KGsFSALVGR	CUL4A	S10	0.012	4.38			0.000	5.75
Isoform 2 of protein scribble homolog	ALsPAELR	SCRIB	S1405	0.029	Resistant only			0.005	Resistant only
Isoform 2 of protein scribble homolog	RVsLVGADDLR	SCRIB	S1297			0.005	0.33
Isoform 2 of protein scribble homolog	NsLESISSIDR	SCRIB	S1139					0.021	3.50
Isoform 2 of protein scribble homolog	LPLLPPEsPGPLR	SCRIB	S772			0.019	0.41
Src substrate cortactin	LQLHEsQKDYK	CTTN	Y421	0.035	Sensitive only
Pleckstrin homology-like domain family B member 1	GGHERPPsPGLR	PHLDB1	S324	0.035	Resistant only			0.010	Resistant only
Isoform 2 of pleckstrin homology-like domain family B member 1	ALsPLPTR	PHLDB1	S470					0.005	0.14
Isoform 2 of actin filament-associated protein 1	SGTSSPQsPVFR	AFAP1	S752	0.013	Resistant only	0.006	Resistant only	0.037	Resistant only
Actin-binding protein anillin	AAsPPRPLLSNASATPVGR	ANLN	S182	0.000	0.12	0.004	0.24	0.000	Sensitive only
Myelin expression factor 2	AEVPGATGGDsPHLQPAEPPGEPR	MYEF2	S17	0.013	Resistant only	0.005	Resistant only	0.038	Resistant only
CAP-Gly domain-containing linker protein 2	KIsGTTALQEALK	CLIP2	S352	0.014	7.00
Serine/arginine repetitive matrix protein 2	SSsPVTELASR	SRRM2	S1103	0.018	2.25			0.02	2.50
Serine/arginine repetitive matrix protein 2	MAPALSGANLTsPR	SRRM2	S2382	0.005	Sensitive only	0.049	Sensitive only	0.049	Sensitive only
Serine/arginine repetitive matrix protein 2	AGMSSNQSISsPVLDAVPR	SRRM2	S1404	0.035	Sensitive only
Serine/arginine repetitive matrix protein 2	DIPRtPSR	SRRM2	T1472	0.035	Sensitive only
Serine/arginine repetitive matrix protein 2	ScFESsPDPELK	SRRM2	S876					0.044	2.20
Serine/arginine repetitive matrix protein 2	ALPQtPRPR	SRRM2	T1492					0.02	0.50
Serine/arginine repetitive matrix protein 2	MALPPQEDATAsPPR	SRRM2	S1179	0.030	0.40
Targeting protein for Xklp2	SSDQPLTVPVsPK	TPX2	S738	0.003	0.39	0.010	0.33	0.022	0.44
Nucleoprotein TPR	TDGFAEAIHsPQVAGVPR	TPR	S2155	0.028	0.50
Vimentin	SLYASsPGGVYATR	VIM	S56	0.025	Resistant only	0.01	Resistant only
Vimentin	LRSsVPGVR	VIM	S73	0.039	Resistant only	0.01	Resistant only