Help

How to use qPhos

Quick Search

1. Quick Search: In the home page of qPhos, users can specify one field or all the fields to perform a quick search with the keyword(s) in the field(s). Users can simply click example and submit buttons to perform an example search.

Browse

2. Browse: In the Browse page, users can click one term to search the specified data in qPhos. The browse page is consisting of three modules including conditions, samples and genes, which are sorted alphabetically. Users can click the initial and select the term of interest.

Search

3. Search: In the Search page, users can add more keyword boxes and choose 'AND', 'OR' or 'NOT' to perform a more accurate multiple keywords search. Users can simply click example and submit buttons to perform an example search.

Result

4. Result:

qKinAct service

5. qKinAct service: +/- means the phosphorylation site is positive/negative related with the kinase activity. auto means the phosphorylation site is an autophosphorylation site of the kinase.

Phosphorylation Resources

UniProt

1. UniProt: The mission of UniProt is to provide the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information.

Website: https://www.uniprot.org/

HPRD release 9

2. HPRD release 9: HPRD currently contains information for 16,972 PTMs which belong to various categories with phosphorylation (10,858), dephosphorylation (3,118) and glycosylation (1,860) forming the majority of the annotated PTMs. At least one enzyme responsible for PTMs has been annotated for 8,960 PTMs, which resulted in the documentation of 7,253 enzyme - substrate relationships.

Website: http://www.hprd.org/

dbPTM

3. dbPTM: dbPTM is an informative resource of experimental post-translational modifications (PTMs) obtained from public resources as well as manually curated MS/MS peptides associated with PTMs from research articles for investigating the substrate specificity of PTM sites and functional association of PTMs between substrates and their interacting proteins.

Website: http://dbptm.mbc.nctu.edu.tw/index.php

PhosphoSitePlus

4. PhosphoSitePlus: PhosphoSitePlus is a new version of PhosphoSite, is a web-based database to collect protein modification sites, including protein phosphorylation sites from scientific literature as well as high-throughput discovery programs. Currently, PhosphoSitePlus contains over 120,000 phosphorylation sites.

Website: http://www.phosphosite.org/homeAction.do

SysPTM 2.0

5. SysPTM 2.0: SysPTM provides a systematic and sophisticated platform for proteomic PTM research, equipped not only with a knowledge base of manually curated multi-type modification data, but also with four fully developed, in-depth data mining tools.

Website: http://lifecenter.sgst.cn/SysPTM/

PHOSIDA

6. PHOSIDA: PHOSIDA is a posttranslational modification database, comprises more than 80,000 phosphorylated, N-glycosylated or acetylated sites from nine different species. All sites are obtained from high-resolution mass spectrometric data using the same stringent quality criteria. PHOSIDA is comprised of three main components: the database environment, the prediction platform and the toolkit section.

Website: http://141.61.102.18/phosida/index.aspx

PTMcode 2

7. PTMcode 2: PTMCode is a resource of known and predicted functional associations between protein post-translational modifications (PTMs) within and between interacting proteins. It currently contains 316,546 modified sites from 69 different PTM types which are also propagated through ortholgs between 19 different eukaryotic species. A total of 1.6 million sites and 17 million functional associations more than 100,000 proteins can currently be explored.

Website: http://ptmcode.embl.de/index.cgi

iPTMnet

8. iPTMnet: iPTMnet is a bioinformatics resource for integrated understanding of protein post-translational modifications (PTMs) in systems biology context.

Website: https://research.bioinformatics.udel.edu/iptmnet/

Phospho.ELM 9.0

9. Phospho.ELM 9.0: Phospho.ELM contains 8,718 experimentally verified phosphorylated proteins from different species with 3,370 tyrosine, 31,754 serine and 7,449 threonine sites.

Website: http://phospho.elm.eu.org/

PhosphoPep 2.0

10. PhosphoPep 2.0: PhosphoPep contains MS-derived phosphorylation data from 4 different organisms, including D. melanogaster, H. sapiens, C. elegans, and S. cerevisiae.

Website: http://www.phosphopep.org

dbPAF

11. dbPAF: The dbPAF (database of Phospho-sites in Animals and Fungi) is an online data resource specifically designed for protein phosphorylation in seven eukaryotic species, including H. sapiens, M. musculus, R. norvegicus, D. melanogaster, C. elegans, S. pombe and S. cerevisiae.

Website: http://dbpaf.biocuckoo.org

ActiveDriverDB

12. ActiveDriverDB: ActiveDriverDB is a human proteo-genomics database. The database uses information about post-translational modifications (PTMs) in proteins to annotate and interpret genetic variation, disease genes, and cancer driver genes.

Website: https://www.activedriverdb.org/

Summary of datasets

PMID	Number of raw peptides	Number of unique sites	Number of unique proteins


16396503	208	198	117
17081983	29998	7862	2258
17389395	1011	171	123
18691976	6539	4667	1434
18776048	122	61	49
19351860	2346	762	514
19651622	55143	8760	2486
19690332	1611	796	498
19691289	4100	2050	626
19770167	327	174	123
20049867	358	345	174
20068231	133662	20592	4822
20071362	31808	7100	2136
20363803	48168	11126	2812
20572634	46	46	27
20639409	4782	1829	783
20686112	382	354	229
20927383	229	223	129
21152398	480	227	174
21210654	444	440	309
21406692	85048	14385	3506
21437283	812	362	218
21552520	1356	698	454
21609022	402	194	124
21637843	8290	1375	713
21712546	177479	37203	6380
21751366	54	54	44
21857030	5365	4460	1882
21902226	4120	3377	1386
21936566	123668	26900	7224
21949786	3845	3834	1791
21955146	6950	5462	2101
21964256	316	316	191
22115753	61294	11321	2832
22199227	38766	20947	4710
22210691	53607	17484	6413
22496350	20608	11456	3350
22497526	441	142	104
22509832	3416	531	249
22641159	263	252	77
22912867	3663	2830	1359
22964224	4019	468	221
22985185	22902	10464	4294
23041048	6480	412	323
23071622	2398	324	232
23090842	68236	15038	3478
23312004	105119	53067	6719
23322592	4804	4800	1245
23403867	230	230	166
23532336	75848	6998	3030
23684312	6217	6211	2534
23716303	706	243	165
23793017	713	611	258
23836654	6837	6019	2012
23874979	1853	430	299
23879269	6169	2856	1541
23882029	899	387	271
23898821	38847	23497	5413
23909892	6688	5509	1626
23911959	2431	2283	1610
24117733	4077	3262	1742
24129246	357	357	288
24211406	8698	8331	2406
24260401	2586	2365	1576
24275748	16888	2450	1176
24349301	2856	2455	1298
24400094	1363	855	440
24425749	7194	2884	1259
24501219	40505	10624	3119
24637012	66	22	14
24670416	13136	6878	2338
24702127	1780	1648	700
24706070	9182	3779	1836
24708550	131	122	71
24825855	8440	1759	871
24850871	56248	11748	3102
24905233	3437	2973	1439
24919575	423	291	172
24961811	82278	13430	3910
24972180	2095	2091	1207
24985106	930	164	85
25002506	58811	15039	4258
25003641	9098	8578	3151
25056879	48616	12139	3718
25117565	3321	938	424
25142963	74	37	26
25219547	3480	1522	677
25223752	189	140	106
25225353	51	50	31
25247763	48555	7443	2029
25278378	4414	2432	1115
25311616	2388	1841	859
25332170	7364	5120	1694
25348772	1506	1467	892
25348954	408	319	245
25367220	1096	455	216
25404012	20783	7993	2929
25599653	1098	379	224
25849741	173449	20311	5049
25850435	58173	18239	5105
25852190	5458	2311	1082
25867546	4951	3543	814
25907765	8383	3813	1587
26029660	3013	2755	1141
26043137	3690	864	567
26055452	15176	15074	3554
26091039	5196	3810	1784
26261332	15441	3258	1053
26265067	41886	16952	4107
26267517	3930	1164	349
26270265	14574	10905	4036
26330541	10311	6763	2042
26387754	678	678	472
26399325	39	39	10
26434776	17412	8543	3064
26437602	19427	11586	3106
26462736	966	913	469
26471730	9755	9726	4161
26503892	11618	2198	758
26546556	61552	6058	2296
26572502	39177	12246	4134
26670566	3287	2775	1507
26699800	11474	7133	2912
26714015	8860	7223	2545
26783066	9424	4641	1943
26787912	14698	10395	3441
26830761	2313	432	114
26853621	29838	4536	2362
27050516	16737	16419	4987
27080861	5231	4396	1595
27107777	1754	1754	916
27134283	31494	10728	3039
27155012	49624	14780	4594
27174698	3944	3508	1344
27251275	26686	24161	6607
27251789	7922	2946	993
27273156	32949	2875	1126
27282143	45232	3173	1241
27307780	1445	999	393
27383761	287	281	178
27422710	13874	9394	3281
27461979	2994	942	599
27486199	1416	1233	849
27535140	12175	2464	1026
27542207	1646	1503	994
27642862	494	484	262
27696853	538	517	295
27703031	1587	1347	778
27732954	59523	29823	6040
27794612	30112	14247	4207
27834733	19677	6147	2656
27956182	99	33	23
28060719	28464	5814	2151
28102081	20191	19857	5200
28103766	6500	4378	1634
28122231	61551	21361	5219
28165663	34365	8156	3235
28176443	28772	5625	2349
28179408	46350	9260	2963
28188228	163955	8944	3253
28192239	11952	8503	2959
28209619	19172	8963	3099
28210003	2238	1427	849
28270605	158	130	95
28287266	2706	2239	1174
28331001	8590	928	552
28418008	8528	2724	1394
28464451	7239	5508	2070
28539327	19776	9080	3081
28606917	35165	5414	2334
28634120	65628	18393	3614
28644030	12016	1761	1021
28656000	880	871	656
28674419	43090	19288	5179
28731282	2127	2120	1292
28803361	124	124	102
28816646	684	624	492
28842319	15559	8919	2953
28961369	7754	4950	2167
28978645	12501	2504	1324
29020638	10280	3458	1878
29052541	9942	3307	1453
29154753	35588	21931	5120
29214152	28501	18560	4389
29255136	36794	12202	3974
29382783	2050	320	230
29435015	9714	4785	2006
29438985	1590	743	428
29460479	6484	2762	1440
29496907	2121	2120	1210

Summary of curated literatures

PMID	Sample	Quantification method	Condition	Publication	Enrichment method	Mass Spectrometer


16396503	HeLa S3	15N	TNFA/Ctr	J Proteome Res. 2006 Jan; 5(1):127-34.	IMAC	LTQ (Thermo Electron)
17081983	HeLa	SILAC	EGF 10min/Ctr; EGF 1min/Ctr; EGF 20min/Ctr; EGF 5min/Ctr	Cell. 2006 Nov 3; 127(3):635-48.	TiO2	LTQ-FT (Thermo Electron, Bremen, Germany)
17389395	184A1	iTRAQ	EGF 16min/Ctr; EGF 1min/Ctr; EGF 2min/Ctr; EGF 32min/Ctr; EGF 4min/Ctr; EGF 8min/Ctr	Proc Natl Acad Sci U S A. 2007 Apr 3; 104(14):5860-5.	IMAC; PY100; PT66	QSTAR XL Pro (Applied Biosystems); QTRAP 4000 (Applied Biosystems)
18691976	HeLa S3	SILAC	M/S	Mol Cell. 2008 Aug 8; 31(3):438-48.	TiO2	LTQ-Orbitrap (Thermo Fisher Scientific, Bremen, Germany)
18776048	HEBC	SILAC	EGFR Del/WT; EGFR L858R/WT	Proc Natl Acad Sci U S A. 2008 Sep 16; 105(37):14112-7.	4G10; RC20	QSTAR Pulsar (Applied Biosystems)
19351860	HeLa	SILAC	Adhesion+Spreading, 120min/30min; Adhesion+Spreading, 12min/0min; Adhesion+Spreading, 30min/12min	Cancer Res. 2009 Apr 15; 69(8):3713-20.	IMAC	LTQ-Orbitrap (Thermo Electron)
19651622	HeLa; K-562	SILAC	Dasatinib 50nM/5nM ; Dasatinib 50nM/Ctr; Dasatinib 5nM/Ctr; EGF 15min, SB202190 20min/Ctr; EGF 15min, U0126 20min/Ctr; EGF 15min/Ctr; SB202190 20min+EGF 15min/Ctr; U0126 20min+EGF 15min/Ctr	Mol Cell Proteomics. 2009 Dec; 8(12):2796-808.	TiO2	LTQ-Orbitrap (Thermo Electron, Bremen, Germany)
19690332	Jurkat	SILAC	OKT3 15min/Ctr; OKT3 5min/Ctr; OKT3 60min/Ctr	Sci Signal. 2009 Aug 18; 2(84):ra46.	IMAC; PT66; PY100; PY99	LTQ (Thermo Finnigan)
19691289	HeLa S3	SILAC	Noscapine 15min/Ctr; Noscapine 60min/Ctr	J Proteome Res. 2009 Oct; 8(10):4553-63.	TiO2	Orbitrap (Thermo Electron)
19770167	HeLa	SILAC	EGF 10min/Ctr; EGF 30min/Ctr; Pervanadate 10min/Ctr	Mol Cell Proteomics. 2010 Jan; 9(1):84-99.	PY99	LTQ-Orbitrap (Thermo Electron, Bremen, Germany)
20049867	SGC-7901	SILAC	Genistein/Ctr	Proteomics. 2010 Mar; 10(5):976-86.	PY100; 4G10	LTQ-Orbitrap (Thermo Electron, Bremen, Germany)
20068231	HeLa S3	SILAC	Ctr/G1; Ctr/G1-S; Ctr/mitosis; Early S/Ctr; G2/Ctr; Late S/Ctr	Sci Signal. 2010 Jan 12; 3(104):ra3.	TiO2; IMAC	LTQ-Orbitrap (Thermo Fisher Scientific)
20071362	A-498	SILAC	HB-EGF/Ctr; HB-EGF/LPA; LPA/Ctr	Mol Cell Proteomics. 2010 Jun; 9(6):1047-62.	TiO2	LTQ-Orbitrap (Thermo Fisher Scientific)
20363803	HEK293	SILAC	Ang 15min/Ctr; Ang 3min/Ctr; SII Ang 15min/Ctr; SII Ang 3min/Ctr	Mol Cell Proteomics. 2010 Jul; 9(7):1540-53.	TiO2	LTQ-Orbitrap XL (Thermo Electron, Bremen, Germany)
20572634	CL1-0; CL1-5	label-free	CL1-5/CL1-0	J Proteome Res. 2010 Aug 6; 9(8):4102-12.	PT66; 4G10; TiO2	LTQ-Orbitrap (Thermo Fisher Scientific)
20639409	SCC-9	SILAC	LPA 1.5min/Ctr; LPA 5min/Ctr	Mol Cell Proteomics. 2010 Nov; 9(11):2337-53.	TiO2	LTQ-Orbitrap (Thermo Fisher Scientific)
20686112	HEK293	SILAC	SII/Ctr	Proc Natl Acad Sci U S A. 2010 Aug 24; 107(34):15299-304.	IMAC	LTQ-Orbitrap XL (Thermo Scientific); LTQ-FT (Thermo Scientific)
20927383	U266B1	SILAC	Bortezomib/Ctr	PLoS One. 2010 Sep 29; 5(9).	TiO2	LTQ-Oribitrap XL (Thermo Fisher Scientific, Waltham, MA)
21152398	NHDF	label-free	2 cGy/Ctr; 50 cGy/Ctr	PLoS One. 2010 Nov 30; 5(11):e14152.	IMAC	LTQ-Orbitrap (Waltham, MA)
21210654	MCF-7	SIDL	E2 30min/Ctr	J Proteome Res. 2011 Mar 4; 10(3):1088-97.	IMAC	LTQ-Orbitrap XL (Thermo Fisher Scientific, San Jose, CA)
21406692	HUES 9	SILAC	NCM 0.5h/Ctr; NCM 1h/Ctr; NCM 24h/Ctr; NCM 6h/Ctr; PMA 0.5h/Ctr; PMA 1h/Ctr; PMA 24h/Ctr; PMA 6h/Ctr	Sci Signal. 2011 Mar 15; 4(164):rs3.	TiO2	LTQ-FT Ultra (Thermo Scientific); LTQ-Orbitrap (Thermo Scientific); LTQ-Orbitrap XL (Thermo Scientific)
21437283	HES-3	SIDL	FGF-2 15min/Ctr; FGF-2 5min/Ctr	PLoS One. 2011 Mar 17; 6(3):e17538.	PY99	LTQ-Orbitrap (Thermo Electron, Bremen, Germany)
21552520	K-562; MOLM-14; MV4-11; SEM	SILAC	MLN518/Ctr	PLoS One. 2011 Apr 28; 6(4):e19169.	PY100	LTQ-Orbitrap (Thermo-Finnigan)
21609022	DLD-1	label-free	HGF 10min/Ctr; HGF 60min/Ctr	J Proteome Res. 2011 Jul 1; 10(7):3200-11.	PY100	LTQ-Orbitrap (ThermoFisher, San Jose, CA)
21637843	HBEC3-KT; HBEC3-KT; A-549; HBEC3-KT; NCI-H1299; HBEC3-KT; NCI-H322; NCI-H1299; A-549; NCI-H1299; NCI-H322; NCI-H322; A-549	label-free	3KTR/3KT; A549/3KT; A549/H1299; A549/H322; H1299/3KT; H322/3KT; H322/H1299	PLoS One. 2011; 6(5):e20199.	IMAC	Waters Q-Tof PremierTM (Waters Corp., Milford, MA, USA)
21712546	HeLa	SILAC	AZD1152 1uM+ZM447439 5uM/Ctr; BI2536 0.1uM entry/Ctr; BI2536 0.1uM mitosis/Ctr; MLN8054 0.25uM/Ctr; MLN8054 1uM/Ctr; MLN8054 5uM/Ctr; Taxol/Ctr	Sci Signal. 2011 Jun 28; 4(179):rs5.	TiO2	LTQ-Orbitrap (Thermo Electron)
21751366	SW480	SILAC	TGFB/Ctr	Proteomics. 2011 Aug; 11(16):3390-401.	TiO2	QStar Elite (Applied Biosystems, Foster City, CA, USA)
21857030	HeLa	SILAC	Ctr/BI 4834	Mol Cell Proteomics. 2011 Nov; 10(11):M111.008540.	IMAC	LTQ-FT Ultra (Thermo Fisher Scientific); LTQ Orbitrap XL (Thermo Fisher Scientific)
21902226	liver	SILAC	HCC/Normal	J Physiol. 2011 Oct 15; 83(20):7755-62.	IAMC	LTQ-Orbitrap (Thermo, San Jose, CA)
21936566	GTL-16; GTL16 R3 Resistant	TMT	PF-04217903 24h/Ctr; PF-04217903 6h/Ctr	J Proteome Res. 2011 Nov 4; 10(11):5084-94.	TiO2	LTQ-Orbitrap XL (ThermoFisher, San Jose, CA)
21949786	CCRF-CEM	SILAC	CXCL12/Ctr	PLoS One. 2011; 6(9):e24918.	IMAC	LTQ-Orbitrap (Thermofisher Scientific, San Jose, CA)
21955146	HeLa	SILAC	EGF/Ctr	J Proteome Res. 2011 Dec 2; 10(12):5383-97.	SIMAC; TiO2	LTQ-Orbitrap XL (Thermo Scientific, Bremen, Germany)
21964256	SGC-7901	SILAC	Genistein/Ctr	J Proteomics. 2011 Dec 21; 75(2):695-707.	TiO2	LTQ-Orbitrap (Thermo Electron, Bremen, Germany)
22115753	KG-1	SILAC	Ctr/Gefitinib; Erlotinib/Ctr; Erlotinib/Gefitinib	J Proteomics. 2012 Feb 2; 75(4):1343-56.	IMAC	LTQ-Orbitrap (Thermo Fisher Scientific)
22199227	hTERT-RPE1	SILAC	Plk1(as) 3-MB-PP1/Ctr; Plk1(wt) 3-MB-PP1/Ctr	Mol Cell Proteomics. 2012 Apr; 11(4):O111.012351.	IMAC	LTQ-Orbitrap (Thermo Fisher Scientific)
22210691	HeLa	iTRAQ; mTRAQ	EGF 10min/Ctr; EGF 24h/Ctr	Mol Cell Proteomics. 2012 Jun; 11(6):M111.014423.	IMAC	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
22496350	HEK293	SILAC	Nocodazole, PKD1kd/Parental; PKD1kd/Parental	Mol Cell Proteomics. 2012 May; 11(5):160-70.	TiO2	LTQ-Orbitrap XL (Thermo Scientific); LTQ-Orbitrap Elite (Thermo Scientific)
22497526	HAEC	iTRAQ	Ang-(1-7) 20min/Ctr; Ang-(1-7) 3min/Ctr; Ang-(1-7) 5min/Ctr	J Proteome Res. 2012 Jun 1; 11(6):3370-81.	TiO2; SIMAC	LTQ-Orbitrap XL (Thermo Fisher, Waltham, MA)
22509832	skin	iTRAQ	10 cGy/3 cGy; 10 cGy/Ctr; 200 cGy/10 cGy; 200 cGy/3 cGy; 200 cGy/Ctr; 3 cGy/Ctr	Exp Dermatol. 2012 May; 21(5):352-7.	IMAC	LTQ-Orbitrap (Thermo Fisher Scientific)
22641159	blood	label-free	Schizophrenia/Ctr	J Proteomics. 2012 Dec 5; 76 Spec No.:43-55.	IMAC	nanoAquity UPLC-ESI-QTOF Premier (Waters Corporation; Milford, MA, USA)
22912867	Glioblastoma initiating cell	SILAC	EGF 15min/Ctr	PLoS One. 2012; 7(8):e43398.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
22964224	SK-BR-3	SILAC	Lapatinib 10uM 10min/Ctr; Lapatinib 10uM 1min/Ctr; Lapatinib 10uM 5min/Ctr; Lapatinib 10uM 60min/Ctr; Lapatinib 1uM 10min/Ctr; Lapatinib 1uM 1min/Ctr; Lapatinib 1uM 5min/Ctr; Lapatinib 1uM 60min/Ctr	Mol Cell Proteomics. 2012 Dec; 11(12):1741-57.	TiO2	LTQ-Orbitrap XL (Thermo Fisher Scientific, Bremen, Germany)
22985185	breast cancer	iTRAQ	Breast cancer high risk/Normal; Breast cancer low risk/Normal	J Proteome Res. 2012 Nov 2; 11(11):5311-22.	Fe-IMAC	LTQ-Orbitrap XL (Thermo Fisher Scientific, Bremen, Germany); LTQ-Orbitrap Velos (Thermo Fisher Scientific, Bremen, Germany)
23041048	MCF-10A	label-free	ATP 0uM+EGF+LY294002/Ctr; ATP 0uM+EGF+U0126/Ctr; ATP 0uM+EGF/Ctr; ATP 100uM+EGF+LY294002/Ctr; ATP 100uM+EGF+U0126/Ctr; ATP 100uM+EGF/Ctr; ATP 10uM+EGF+LY294002/Ctr; ATP 10uM+EGF+U0126/Ctr; ATP 10uM+EGF/Ctr; ATP 500uM+EGF+LY294002/Ctr; ATP 500uM+EGF+U0126/Ctr; ATP 500uM+EGF/Ctr; ATP 50uM+EGF+LY294002/Ctr; ATP 50uM+EGF+U0126/Ctr; ATP 50uM+EGF/Ctr	J Proteomics. 2012 Dec 21; 77:492-503.	TiO2	LTQ-Orbitrap XL (Thermo Fisher Scientific, Hemel Hempstead, UK)
23071622	J14	SILAC	Anti-lgG 0min, SLP76+/SLP76-; Anti-lgG 1.5min, SLP76+/SLP76-; Anti-lgG 10min, SLP76+/SLP76-; Anti-lgG 1min, SLP76+/SLP76-; Anti-lgG 2min, SLP76+/SLP76-; Anti-lgG 3min, SLP76+/SLP76-; Anti-lgG 5min, SLP76+/SLP76-; Unstimulated, SLP76+/SLP76-	PLoS One. 2012; 7(10):e46725.	IMAC	LTQ-FT (Thermo Fisher Scientific)
23090842	SCC-9	SILAC	LPA 10min/Ctr; LPA 30min/Ctr; LPA 3min/Ctr; LPA 90min/Ctr	Proteomics. 2012 Dec; 12(23-24):3485-98.	IMAC	LTQ-Orbitrap (Thermo Fisher Scientific, Bremen, Germany)
23312004	HCT 116; SW620; SW480; colorectal cancer	SILAC; iTRAQ	Metastatic/Non-metastatic; SW620/SW480	J Proteome Res. 2013 Jun 7; 12(6):2414-21.	IMAC	LTQ-Orbitrap Velos (Thermo Fisher Scientific, Bremen, Germany)
23322592	HeLa S3	SILAC	Asynchronous/Thy double arrest	Proteomics. 2013 Apr; 13(8):1233-46.	TiO2	LTQ-Orbitrap (Thermo Fisher Scientific)
23403867	HUVEC-C	SIDL	007-AM/Ctr	Mol Biosyst. 2013 Apr 5; 9(4):732-49.	Ti4+-IMAC	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
23532336	AML; AML; GMPB; GMPB; Kasumi-1; P31/FUJ; P31/FUJ; Kasumi-1	iTRAQ	AML/GMPB; AZ123 1000nM/Ctr; AZ123 100nM/Ctr; Ku-794 1000nM/Ctr; Ku-794 100nM/Ctr; P31/Fuj/Kasumi-1; PI-103 1000nM/Ctr; Pervanadate/Ctr	Sci Signal. 2013 Mar 26; 6(268):rs6.	TiO2	unknow
23684312	CD4+T cell	SILAC	HIV/Mock vesicles	Cell Host Microbe. 2013 May 15; 13(5):613-623.	IMAC	LTQ-Orbitrap (Thermofisher Scientific, San Jose, CA)
23716303	GIST-T1	iTRAQ	Imatinib 1h/Ctr; Imatinib 24h/Ctr; Imatinib 6h/Ctr	Int J Cancer. 2013 Dec 1; 133(11):2737-43.	PY100	LTQ-Orbitrap XL (Thermo Fisher Scientific, Waltham, MA)
23793017	DG-75	SILAC	SYK/Ctr	Mol Cell Proteomics. 2013 Oct; 12(10):2969-80.	PT66; PY20; PolyMAC-Ti	LTQ-Orbitrap Velos (Thermo Fisher)
23836654	A-549	SILAC	sh-TBK1/Ctr	Proc Natl Acad Sci U S A. 2013 Jul 23; 110(30):12414-9.	IMAC	LTQ-Orbitrap (Thermo)
23874979	Jurkat E6.1	SILAC	U0126 0min/Ctr; U0126 10min/Ctr; U0126 2.5min/Ctr; U0126 5min/Ctr	PLoS One. 2013 Jul 17; 8(7):e69641.	PY100	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
23879269	U-937	SILAC	Tet-free 0d/Ctr; Tet-free 2d/Ctr; Tet-free 3d/Ctr; Tet-free 4d/Ctr; Tet-free 5d/Ctr	J Proteome Res. 2013 Oct 4; 12(10):4280-301.	TiO2	LTQ-Orbitrap XL (Thermo Fisher Scientific, San Jose, CA)
23882029	Jurkat E6.1	SIDL	PGE2 1min/Ctr; PGE2 60min Ctr	Mol Cell Proteomics. 2013 Nov; 12(11):3350-9.	RRX[pS/pT]	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
23898821	NCI-H2228	SILAC; mTRAQ	Crizotinib/Ctr	Elife. 2013 Sep 6; 12(9):4089-100.	IMAC	Q-Exactive (Thermo Fisher Scientific)
23909892	MCF-7	SILAC	TIMP-1, high/Low	J Proteome Res. 2013 Sep 6; 12(9):4136-51.	TiO2/DHB	LTQ-Orbitrap Velos (Thermo Electron, Bremen, Germany)
23911959	NSCLC	SILAC	NSCLC B/NSCLC A	J Proteomics. 2013 Oct 8; 91:286-96.	TiO2	LTQ-Orbitrap (control software v 2.5.5, build 4, 06/20/2008)
24117733	SH-SY5Y	SILAC	LRRK2-IN-1/Ctr	J Neurochem. 2014 Feb; 128(4):561-76.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
24129246	MCF-7	SILAC	pCMV6-KSR1/pCMV6-vector	Br J Cancer. 2013 Nov 12; 109(10):2675-84.	TiO2	LTQ-Orbitrap Velos (Thermo Scientific)
24211406	HaCaT; SCC-9	label-free	SCC-9/HaCaT	J Proteomics. 2014 Jan 16; 96:67-81.	TiO2	Orbitrap Velos (Thermo Fisher Scientific, Waltham, MA, USA)
24260401	placenta	SIDL	Preeclampsia/Ctr	PLoS One. 2013 Nov 15; 8(11):e80480.	Ti-MPS	LTQ-Orbitrap (Thermo Fisher, USA)
24275748	MCF-7	SILAC	Rapamycin 15min/Ctr; Rapamycin 2min/Ctr; Rapamycin 30min/Ctr; Rapamycin 7min/Ctr; Starvation 15min/Ctr; Starvation 2min/Ctr; Starvation 30min/Ctr; Starvation 7min/Ctr	Autophagy. 2014 Feb; 10(2):356-71.	TiO2	LTQ-Orbitrap XL (Thermo Scientific)
24349301	NPC; SJNB-10	label-free	NB10/NPC	PLoS One. 2013 Dec 11; 8(12):e82513.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
24400094	venous blood	label-free	KODA-PC/PLPC; Thrombin/Rest	PLoS One. 2014 Jan 6; 9(1):e84488.	IMAC; TiO2	LTQ-Orbitrap (Thermo Fisher Scientific, Waltham, MA)
24425749	MCF-7	label-free	RT 120min/Incubator; RT 15min/Incubator	Mol Cell Proteomics. 2014 Mar; 13(3):836-48.	TiO2	LTQ-Orbitrap XL (Thermo Fisher Scientific)
24501219	BOEC	SILAC	Thrombin 10min/Ctr; Thrombin 2min/Ctr; Thrombin 30min/Ctr; Thrombin 5min/Ctr	Blood. 2014 Mar 20; 123(12):e22-36.	TiO2	LTQ-Orbitrap Elite (Thermo Scientific)
24637012	HEK293	SILAC	DOI/Lisuride; DOI/Vehicle; Lisuride/Vehicle	Mol Cell Proteomics. 2014 May; 13(5):1273-85.	IMAC	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
24670416	pancreas	TMT	Pancreatic cancer/Normal	PLoS One. 2014 Mar 26; 9(3):e90948.	IMAC; TiO2	LTQ-Orbitrap Velos (Thermo Scientific)
24702127	lung	label-free	HOPE/SF	J Proteome Res. 2014 Nov 7; 13(11):5230-9.	IMAC	LTQ-Orbitrap Velos (Thermo Scientific)
24706070	DFC	iTRAQ	SFM 24h/Ctr; SFM 48h/Ctr	Neurochem Res. 2014 Jul; 39(7):1199-205.	TiO2	Q-Exactive (Thermo Scientific, Bremen, Germany)
24708550	6-10B	SILAC	DNP/Ctr	BMC Cancer. 2014 Apr 5; 14:243.	TiO2	LTQ-Orbitrap (Thermo Electron, Bremen, Germany)
24825855	SW1736	label-free	AZD6244 15min/Ctr; AZD6244 30min/Ctr; PLX4032 15min/Ctr; PLX4032 30min/Ctr	Mol Cancer Ther. 2014 Jul; 13(7):1894-906.	TiO2	TripleTOF 5600 (AB Sciex)
24850871	Jurkat	label-free	PGE2 10min/Ctr; PGE2 20min/Ctr; PGE2 30min/Ctr; PGE2 5min/Ctr; PGE2 60min/Ctr	Mol Cell Proteomics. 2014 Sep; 13(9):2426-34.	Ti4+-IMAC	LTQ-Orbitrap Elite (Thermo Fisher Scientific, Bremen, Germany)
24905233	DG-75	SILAC	Piceatannol/Ctr	Anal Chem. 2014 Jul 1; 86(13):6363-71.	PolyMAC-Zr; PolyMAC-Ti	LTQ-Orbitrap Velos (Thermo Fisher)
24919575	PC-9	label-free	PC9+Erlotinib/Ctr; PC9GR+Erlotinib/Ctr; PC9GR/PC9	Clin Cancer Res. 2014 Aug 1; 20(15):4059-4074.	PY100	LTQ-Orbitrap (Thermo, San Jose, CA)
24961811	TIG-3	SIDL	OIS 3d/Ctr; OIS 3d/OISb 3d; OIS 9d/Ctr; OIS 9d/OISb 9d; OISb 3d/Ctr; OISb 9d/Ctr	Mol Cell Proteomics. 2014 Aug; 13(8):2089-100.	PY99; Ti4+-IMAC	LTQ-Orbitrap Velos (Thermo, San Jose, CA)
24972180	liver	SIDL	HCC/Normal	J Proteome Res. 2014 Aug 1; 13(8):3645-54.	PS-DVB	LTQ-Orbitrap Velos (Thermo, San Jose, CA)
24985106	Skeletal muscle	iTRAQ	Ctr/Insulin; Ctr/PMI 5011; Ctr/PMI 5011+Insulin; Insulin, Ctr/PMI 5011; PMI 5011, Ctr/Insulin	Nutrition. 2014 Jul-Aug; 30(7-8 Suppl):S43-51.	TiO2	QTRAP 4000(AB SCIEX, Framingham, MA, USA)
25002506	A-375; HEK293	SILAC	BI-D1870/DMSO; PD184352/DMSO; PMA, BI-D1870/Ctr; PMA, PD184352/Ctr; PMA, RSK1/2 RNAi/Ctr; RSK1/2 RNAi/Ctr	Proc Natl Acad Sci U S A. 2014 Jul 22; 111(29):E2918-27.	TiO2	LTQ-Orbitrap Elite
25003641	HL-60	SILAC	VE-821/Ctr	Int J Mol Sci. 2014 Jul 7; 15(7):12007-26.	TiO2	Q-Exactive (Thermo Scientific, Bremen, Germany)
25056879	HaCaT	label-free	TGFB 10min/Ctr; TGFB 15min/Ctr; TGFB 20min/Ctr; TGFB 5min/Ctr	Sci Signal. 2014 Jul 22; 7(335):rs5.	TiO2	Q-Exactive (116) (Thermo Fisher Scientific)
25117565	myocardial	label-free	IF/NF; NIF/IF; NIF/NF	PLoS One. 2014 Aug 12; 9(8):e104157.	TiO2	LTQ-Orbitrap XL (Thermo Fisher Scientific, Waltham, MA)
25142963	Kit225	SILAC	IL-15/Ctr; IL-2/Ctr	Proteomics. 2015 Jan; 15(2-3):520-31.	PY100; 4G10; TiO2	Q-Exactive (Thermo Fisher Scientific)
25219547	LNCaP clone FGC	SILAC	B-ionone 10min/Ctr; B-ionone 2min/Ctr	Biochim Biophys Acta. 2015 Jun; 1854(6):632-40.	TiO2	LTQ-Orbitrap XL (Thermo Fisher Scientific, Bremen, Germany)
25223752	HSF	label-free	PGE2/Ctr	J Proteome Res. 2014 Nov 7; 13(11):5262-80.	RRX(S/T)	LTQ-Orbitrap XL
25225353	nfHCC	iTRAQ	HCC/Normal	Mol Cell Proteomics. 2014 Dec; 13(12):3473-83.	TiO2	LTQ-Orbitrap XL (Thermo Scientific, France)
25247763	MCF-10A	SILAC	Ex20-KI/Ex20-KI-J124; Ex20-KI/MCF10A; Ex9-KI/Ex9-KI-J124; Ex9-KI/MCF10A	Nat Commun. 2014 Sep 23; 5:4961.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
25278378	HEK293	SILAC	Quinalizarin/Ctr	Biochim Biophys Acta. 2015 Jun; 1854(6):609-23.	TiO2	LTQ-Orbitrap XL (Thermo Fisher Scientific)
25311616	MCF-7	SILAC	Resveratrol/Ctr	J Proteome Res. 2014 Dec 5; 13(12):5734-42.	IMAC	LTQ-Orbitrap (Thermo Electron, Waltham, MA)
25332170	brain	label-free	Alzheimer/Control	Proteomics. 2015 Jan; 15(2-3):508-519.	IMAC	LTQ-Orbitrap (Thermo Finnigan, San Jose, CA)
25348772	Jurkat E6.1	label-free	IO+PMA/Ctr	Proteomics. 2015 Jan; 15(1):25-33.	TiO2	LTQ-Orbitrap Velos (Thermo Scientific, US)
25348954	HCC366; NCI-H2286	label-free	Dasatinib/Ctr	Cancer Res. 2014 Dec 15; 74(24):7217-7228.	PY100	LTQ-Orbitrap (Thermo)
25367220	MCF-10A	SILAC	E545K/MCF10A; H1047R/MCF10A	Proteomics. 2015 Jan; 15(2-3):318-26.	PY100	LTQ-Orbitrap Velos (Thermo Scientific)
25404012	NCI-H1975; NCI-H3255	SILAC	EGF, Erlotinib/Ctr; EGF/Ctr	Proteomics. 2015 Jan; 15(2-3):340-55.	TiO2	LTQ-Orbitrap XL (Thermo Scientific)
25599653	SW48	SILAC	G12D/SW48; G12V/SW48; G13D/SW48	J Proteome Res. 2015 Mar 6; 14(3):1535-46.	TiO2	LTQ-Orbitrap XL (Thermo Fisher)
25849741	MCF-7	SILAC	IKKB(K44M), TNFA/Ctr; IKKB(WT), TNFA/Ctr; SC-514/Ctr; TNFA+SC-514/Ctr; TNFA, Ctr/SC-514; TNFA, IKKB(K44M)/Ctr; TNFA, IKKB(WT)/Ctr; TNFA/Ctr; TNFA/IKK-B(K44M); TNFA/IKK-B(WT); TNFA/SC-514	Nat Commun. 2015 Apr 7; 6:6658.	TiO2	Q-Exactive (Thermo Scientific); LTQ Velos (Thermo Scientific)
25850435	WM239A	SILAC	AZD6244/Ctr; PLX4032/AZD6244; PLX4032/Ctr	Mol Cell Proteomics. 2015 Jun; 14(6):1599-615.	TiO2	LTQ-Orbitrap Velos
25852190	DLD-1	SILAC	TRAIL 5min/Ctr; TRAIL 60min/Ctr	Sci Signal. 2015 Apr 7; 8(371):rs3.	IAMC	LTQ-Orbitrap (Thermo Fisher Scientific)
25867546	MRC-5	SILAC	pUL97/UL97-K355Q	Proteomics. 2015 Jun; 15(12):2006-22.	TiO2	LTQ-Orbitrap (ThermoFisher Scientific),
25907765	HeLa Kyoto	SILAC	Insulin+aa, Raptor KD/Ctr; Starve/Insulin+aa	Mol Cell Proteomics. 2015 Aug; 14(8):2042-55.	TiO2	LTQ-FT (Thermo Fisher Scientific, Bremen, Germany)
26029660	LM-MEL-28	label-free	PLX4720/Ctr	Front Oncol. 2015 May 15; 5:95.	TiO2	Q-Exactive
26043137	J.VAv1	label-free	IgG 0min, J.Vav1/J.Vav1.WT; IgG 10min, J.Vav1/J.Vav1.WT; IgG 3min, J.Vav1/J.Vav1.WT; IgG 5min, J.Vav1/J.Vav1.WT	J Proteome Res. 2015 Jul 2; 14(7):2963-75.	PY100	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
26055452	HeLa	SILAC	RO3306/Ctr	Mol Cell Proteomics. 2015 Aug; 14(8):2194-212.	TiO2	LTQ-Orbitrap Velos Pro (Thermo Fisher Scientific)
26091039	Hep-G2	TMT; label-free	Fam20C KD/WT; Fam20C KO/WT	Cell. 2015 Jun 18; 161(7):1619-32.	IMAC	Q-Exactive (Thermo)
26261332	THP-1	label-free	MAA-co-IDA/MM-co-IDA 10min; MAA-co-IDA/MM-co-IDA 20min; MAA-co-IDA/MM-co-IDA 30min	Proc Natl Acad Sci U S A. 2015 Aug 25; 112(34):10673-8.	TiO2	Orbitrap Velos (Thermo Fisher Scientific)
26265067	PaSC	TMT	A-bungarotoxin/Ctr; Nicotine/Ctr	J Proteome Res. 2015 Oct 2; 14(10):4246-56.	TiO2	Orbitrap Fusion (ThermoFisher Scientific, San Jose, CA)
26267517	MCF-10A	SILAC	E545K/MCF10A; H1047R/MCF10A	J Proteome Res. 2015 Sep 4; 14(9):3882-3891.	PY1000	LTQ-Orbitrap Elite (Thermo Fisher Scientific)
26270265	HeLa S3	SILAC	AZD1152/Ctr; VX680/Ctr	J Proteome Res. 2015 Sep 4; 14(9):4087-98.	TiO2	LTQ-Orbitrap (Thermo Scientific)
26330541	MCF-7	SILAC	Tamoxifen, sensitive/Resistant	Mol Cell Proteomics. 2015 Nov; 14(11):2887-900.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
26387754	Shef4	SILAC	ELA Mut/WT	Cell Stem Cell. 2015 Oct 1; 17(4):435-47.	IMAC	Q-Exactive (Thermo Fisher Scientific)
26399325	HeLa	SILAC	Myc-Bub1 WT/KD	Nat Commun. 2015 Sep 24; 6:8364.	Antibody	LTQ-Orbitrap (Thermo Fisher Scientific)
26434776	NCI-H929	SILAC	Imatinib/Ctr; Velcade/Ctr	Anal Chem. 2015 Nov 3; 87(21):10995-1006.	IMAC; PY1000	LTQ-Orbitrap Elite (Thermo Fisher Scientific)
26437602	HEK293; muscle	TMT; iTRAQ; label-free	AMPK+Compound C/Ctr; AMPK/Ctr; Exercise/Ctr	Cell Metab. 2015 Nov 3; 22(5):922-35.	TiO2; SIMAC	Q-Exactive
26462736	HeLa	TMT	sh PP6c/Ctr	Sci Signal. 2015 Oct 13; 8(398):rs12.	TiO2	Fusion Orbitrap Tribrid (Thermo Fisher Scientific)
26471730	HEK293	SILAC	PINK1 WT/KD	Embo j. 2015 Nov 12; 34(22):2840-61.	TiO2	LTQ-Orbitrap Velos Pro (Thermo)
26503892	CL1-0	SIDL	Citreoviridin 10min/Ctr; Citreoviridin 10s/Ctr; Citreoviridin 12h/Ctr; Citreoviridin 1h/Ctr; Citreoviridin 1min/Ctr; Citreoviridin 24h/Ctr; Citreoviridin 2h/Ctr; Citreoviridin 36h/Ctr; Citreoviridin 48h/Ctr; Citreoviridin 5min/Ctr; Citreoviridin/Ctr	Mol Cell Proteomics. 2015 Dec; 14(12):3284-98.	TiO2	LTQ-Orbitrap XL (Thermo Scientific, Berman, Germany)
26546556	J.gamma1; Jurkat E6.1	TMT	Anti-CD3+Anti-CD28 120min/Ctr; Anti-CD3+Anti-CD28 15min/Ctr; Anti-CD3+Anti-CD28 30min/Ctr; Anti-CD3+Anti-CD28 60min/Ctr	J Proteomics. 2016 Jan 10; 131:190-198.	IMAC; TiO2	LTQ-Orbitrap XL
26572502	U2OS	SILAC	HU/Ctr; VE-821+HU/Ctr; VE-821+HU/HU	Proteomics. 2016 Feb; 16(3):402-16.	TiO2	Q-Exactive Plus (Thermo Scientific)
26670566	GB-2	SILAC	Ctr/Serum	Mol Cell Proteomics. 2016 Mar; 15(3):1017-31.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific, Bremen, Germany)
26699800	AT34 ABR; NFF	SILAC	H2O2/Ctr	Mol Cell Proteomics. 2016 Mar; 15(3):1032-47.	SIMAC; TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
26714015	Akata(EBV+)	SILAC	Vector/BGLF4	PLoS Pathog. 2015 Dec; 11(12):e1005346.	TiO2	LTQ-Orbitrap Elite
26783066	MDA-MB-231	TMT	Genistein 24h/Ctr; Genistein 3h/Ctr	Int J Oncol. 2016 Mar; 48(3):1016-28.	TiO2	LTQ-Orbitrap Velos
26787912	liver	SILAC	HCC, Sorafenib/Ctr; Normal, Sorafenib/Ctr	Proc Natl Acad Sci U S A. 2016 Feb 2; 113(5):1381-6.	TiO2	Orbitrap Elite FT (Thermo Scientific)
26830761	Erythrocyte	TMT	Heparin, Ctr/Erythrocyte; R1, Ctr/Erythrocyte; Uninhibited/Erythrocyte	Sci Rep. 2016 Feb 2; 6:19766.	TiO2	LTQ-Orbitrap Velos (Thermo Scientific)
26853621	HNSCC	TMT	CAL27/(OKF6/TERT1); FADU/(OKF6/TERT1); JHU-O11/(OKF6/TERT1); JHU-O22/(OKF6/TERT1); JHU-O28/(OKF6/TERT1); JHU-O29/(OKF6/TERT1)	Cancer Biol Ther. 2016; 17(2):219-29.	TiO2	LTQ-Orbitrap Velos (Thermo Scientific)
27050516	HCT 116	SILAC	Cortistatin A/Ctr	Cell Rep. 2016 Apr 12; 15(2):436-50.	TiO2	LTQ-Orbitrap (Thermo Fisher)
27080861	Kit225	SIDL	IL-23 30min/Ctr	Sci Rep. 2016 Apr 15; 6:24491.	IMAC; TiO2	Q-Exactive (Thermo Scientific, Bremen, Germany)
27107777	AML	SILAC	Fresh/Frozen	J Proteomics. 2016 Aug 11; 145:214-25.	IMAC; SIMAC; MOAC	Orbitrap Elite (Thermo Scientific, Waltham, MA, USA)
27134283	HeLa	SILAC	Flavopiridol/Ctr; RO-3306/Ctr	Mol Cell Proteomics. 2016 Jul; 15(7):2448-61.	TiO2	Q-Exactive Plus (ThermoFisher Scientific)
27155012	DG-75; Daudi	SILAC	BCR stimulation 10min/Ctr; BCR stimulation 20min/Ctr; BCR stimulation 2min/Ctr; BCR stimulation 5min/Ctr; CD79a KD/Ctr; SYK inhibition/Ctr	Proc Natl Acad Sci U S A. 2016 May 17; 113(20):5688-93.	TiO2; PY1000	LTQ-Orbitrap Velos (Thermo Scientific); Q-Exactive (Thermo Scientific)
27174698	HeLa	SIDL	CHC siRNA/Luc siRNA	Mol Cell Proteomics. 2016 Aug; 15(8):2537-53.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
27251275	breast cancer	iTRAQ	Breast cancer/Normal	Nature. 2016 Jun 2; 534(7605):55-62.	IMAC	Q-Exactive (Thermo Fisher Scientific)
27251789	Melanocytes	SILAC	G12/E; Q61/E	J Invest Dermatol. 2016 Oct; 136(10):2041-2048.	TiO2; PY100	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
27273156	HCT 116	label-free	ERKi resistant+GDC0973/Ctr; ERKi resistant/Ctr; G824 1uM/Ctr; G824 3uM/Ctr; GDC0973 0.3uM/Ctr; GDC0973 1uM/Ctr; MEKi resistant+G824/Ctr; MEKi resistant/Ctr	Proteomics. 2016 Jul; 16(14):1998-2004.	R-R-X-p[S\|T]; R-X-X-p[S\|T]; Py; P-X-p[S\|T]-P	LTQ-Orbitrap
27282143	SW48; SW48 PIK3CA (E545K/+); SW48 PIK3CA (H1047R/+)	label-free	GDC0032/Ctr; GDC0941/Ctr; PI3Ki-A/D/Ctr	Proteomics. 2016 Jul; 16(14):1992-7.	R-X-X-p[S\|T]; p-[S\|T]-Q; [K\|R]-X-Ps-X-[K\|R]	LTQ-Orbitrap Elite
27307780	CAL-27	SILAC	Curcumin/Ctr	Clin Proteomics. 2016 Jun 15; 13:13.	PY1000	Orbitrap Fusion Tribrid (Thermo Electron, Bremen, Germany)
27383761	SW620; SW480	label-free	SW620/SW480	PLoS One. 2016 Jul 6; 11(7):e0158844.	TiO2	LTQ-Orbitrap (Thermo Scientific)
27422710	A-427; A-549	SILAC	Selumetinib/Ctr	Mol Cancer Res. 2016 Oct; 14(10):1019-1029.	IMAC	Q-Exactive plus (Thermo, San Jose, CA)
27461979	hSAEC	iTRAQ	TGFB+TNFA/Ctr; TGFB/Ctr; TNFA/Ctr	J Proteome Res. 2017 Apr 7; 16(4):1632-1645.	IMAC	Q-Exactive (Thermo Scientific, San Jose, CA)
27486199	Macrophage	label-free	Influenza A virus/Ctr	Mol Cell Proteomics. 2016 Oct; 15(10):3203-3219.	IMAC	Q-Exactive (Thermo Fisher Scientific)
27535140	blood	iTRAQ	Scott+(thrombin/convulxin)/Healthy; Scott+ionomycin/Healthy; Scott+thrombin/Healthy; Scott/Healthy	J Physiol. 2016 Oct; 15(10):3154-3169.	TiO2	Orbitrap Velos (Thermo-Fisher Scientific)
27542207	NCI-H358	SILAC	H358-smoke/parental	Sci Transl Med. 2016 Sep 20; 7(38):61229-61245.	TiO2	LTQ-Orbitrap Velos (Thermo Scientific, San Jose, CA)
27642862	Jurkat	label-free	Pervanadate/Ctr	Nat Chem Biol. 2016 Nov; 12(11):959-966.	4G10; PY100; PY99; Ti4+-IMAC	LTQ-Orbitrap Velos (Thermo)
27696853	HT-29	SILAC	3D/2D culture	J Proteome Res. 2016 Dec 2; 15(12):4265-4276.	IMAC	Q-Exactive (Thermo Fisher Scientific, Bremen, Germany)
27703031	U-251MG	label-free	JEV P3/Ctr	Sci Signal. 2016 Oct 4; 9(448):ra98.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
27732954	NB-1; NB-1643; SH-SY5Y	SILAC	Crizotinib/Ctr	Oncotarget. 2016 Nov 15; 7(46):75968-75980.	IMAC	Orbitrap Elite (Thermo Fisher Scientific, Waltham, MA)
27794612	A-431	TMT	Gefitinib+FGF2/Ctr; Gefitinib/Ctr	J Proteome Res. 2016 Dec 2; 15(12):4490-4504.	Fe-IMAC	Q-Exactive Plus
27834733	NHA	SILAC	GDC0973+GDC0941/Ctr; GDC0973/Ctr; IDH1mut-NHA/Ctr; RAS-NHA/Ctr	Mol Cell Proteomics. 2017 Jan; 16(1):39-56.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
27956182	myometrial	TMT	OXT-CON/SP-REL; OXT-REL/SP-REL; SP-CON/OXT-REL	Biochem Biophys Res Commun. 2017 Jan 22; 482(4):1393-1399.	TiO2	Orbitrap Fusion Tribrid (Thermo Scientific)
28060719	blood	iTRAQ	ADP 10s/Ctr; ADP 30s+Iloprost 30s/Ctr; ADP 30s+Iloprost 60s/Ctr; ADP 30s/Ctr; ADP 60s/Ctr	Blood. 2017 Jan 12; 129(2):e1-e12.	TiO2	Q-Exactive (Thermo Scientific)
28102081	breast cancer	TMT	HER2+/HER2-	J Proteome Res. 2017 Mar 3; 16(3):1121-1132.	PY99; TiO2	Q-Exactive HF; Orbitrap Fusion (Thermo Fisher Scientific)
28103766	K-562	label-free	K562-STI-R/K562	Nat Commun. 2017 May 1; 26(9):656-677.	TiO2	Q-Exactive Plus (Thermo Fisher Scientific)
28122231	Jurkat	SILAC	HIV-1 0min/Ctr; HIV-1 20min/Ctr; HIV-1 40min/Ctr; HIV-1 5min/Ctr	Cell Rep. 2017 Jan 24; 18(4):1062-1074.	Ti-IMAC	LTQ-Orbitrap Velos Pro (Thermo Scientific)
28165663	HEK293	TMT	Insulin/Ctr; Rapamycin/Ctr; Torin1/Ctr	Proteomics. 2017 Mar; 17(6).	IMAC	Q-Exactive HF (ThermoFisher Scientific)
28176443	A-431	TMT	K8-S431A/WT; K8-S431D/WT; K8-S73A/WT; K8-S73D/WT	Proteomics. 2017 Apr; 17(7).	TiO2	Orbitrap Fusion Tribrid (Thermo Electron, Bremen, Germany)
28179408	HFF	label-free	HSV-1 12h/Ctr; HSV-1 15h/Ctr; HSV-1 3h/Ctr; HSV-1 6h/Ctr; HSV-1 9h/Ctr	Mol Cell Proteomics. 2017 Apr; 16(4 suppl 1):S92-s107.	TiO2	Orbitrap Fusion Tribrid (Thermo Scientific)
28188228	COLO 205; HCT 116	SILAC	PLX4032 0min/Ctr; PLX4032 10min/Ctr; PLX4032 15min/Ctr; PLX4032 20min/Ctr; PLX4032 25min/Ctr; PLX4032 30min/Ctr; PLX4032 35min/Ctr; PLX4032 40min/Ctr; PLX4032 45min/Ctr; PLX4032 50min/Ctr; PLX4032 55min/Ctr; PLX4032 5min/Ctr; PLX4032 60min/Ctr	Mol Cell Proteomics. 2017 Apr; 16(4):663-679.	TiO2	Q-Exactive plus
28192239	liver	SILAC	HCC/Normal	J Proteomics. 2017 Mar 22; 157:40-51.	TiO2	LTQ-Orbitra XL (Thermo-Fisher Scientific Inc.)
28209619	BT-474	SIDL	BT-474, Lapatinib/Ctr; BT-474-J4+Lapatinib/BT-474	NPJ Syst Biol Appl. 2017 Apr 15; 77(8):1842-1853.	IMAC	Orbitrap Q-Exactive Plus (Thermo Scientific, Bremen, Germany)
28210003	Ba/F3	SILAC	BirA-p190/BirA-p210	Leukemia. 2017 Jul; 31(7):1513-1524.	PY1000	Orbitrap Fusion Lumos (Thermo Scientific)
28270605	breast cancer	label-free	HCC/Normal	PLoS Comput Biol. 2017 Mar 21; 114(12):3175-3180.	IMAC	LTQ-Orbitrap Velos Pro (Thermo Fisher Scientific)
28287266	HeLa	label-free	Forskolin/Ctr; H89/Ctr	J Proteome Res. 2017 Apr 7; 16(4):1825-1830.	IMAC	TripleTOF 5600(AB Sciex, Foster City, CA); Q-Exactive (Thermo Fisher Scientific)
28331001	II-18; NCI-H1975; NCI-H3255; PC-9	SILAC	EGF+TKI/Ctr; EGF, TKI/Ctr; EGF/Ctr	Mol Cell Proteomics. 2017 May; 16(5):891-910.	PY100; PY1000	LTQ-Orbitrap XL ETD (Thermo Scientific); LTQ-Orbitrap Elite (Thermo Scientific, San Jose, CA)
28418008	HT22	SILAC	Dexmedetomidine/Ctr; Dexmedetomidine/Propofol; Propofol/Ctr	Sci Rep. 2017 Apr 18; 7:46455.	IMAC	Q-Exactive Plus (Thermo Fisher Scientific)
28464451	Jurkat	SILAC	Cisplatin/Ctr	J Proteome Res. 2018 Jan 5; 17(1):46-54.	TiO2	Q-Exactive (ThermoElectron, Bremen, Germany)
28539327	NCI-H1299	TMT	TNFA 10min+SM 15min/Ctr; TNFA 10min/Ctr	Mol Cell Proteomics. 2017 Jul; 16(7):1200-1216.	TiO2	Orbitrap Fusion (Thermo Scientific)
28606917	Jurkat(HIV expressing)	TMT	Doxycycline 0h, Vpr-deleted/WT; Doxycycline 12h, Vpr-deleted/WT; Doxycycline 24h, Vpr-deleted/WT; Doxycycline 3h, Vpr-deleted/WT; Doxycycline 6h, Vpr-deleted/WT	Mol Cell Proteomics. 2017 Aug; 16(8):1447-1461.	TiO2	Orbitrap Fusion
28634120	Jurkat E6.1	label-free	CD3+CD4/Ctr	J Proteomics. 2017 Aug 8; 165:69-74.	TiO2	Q-Exactive (Thermo Fisher Scientific, Waltham, MA)
28644030	J.gamma1	label-free	IgG 0min, Jgamma1/WT; IgG 10min, Jgamma1/WT ; IgG 1min, Jgamma1/WT; IgG 2min, Jgamma1/WT; IgG 3min, Jgamma1/WT; IgG 5min, Jgamma1/WT	J Proteome Res. 2017 Aug 4; 16(8):2729-2742.	PY100	Q-Exactive (Thermo Fisher Scientific, Waltham, MA)
28656000	MDA-MB-231	iTRAQ	PEKD3 siRNA/Ctr	Int J Biol Sci. 2017 May 16; 13(6):748-758.	TiO2	LCMS-IT-TOF (Shimadzu Biotech, Kyoto)
28674419	HeLa	TMT	Mitotic/Ctr; Pervanadate/Ctr	Sci Rep. 2017 Jul 3; 7(1):4513.	TiO2	Q-Exactive (Thermo Scientific)
28731282	HaCaT	SILAC	HaCaT-arsenic exposed/HaCaT	Proteomics Clin Appl. 2017 Dec; 11(11-12).	TiO2	LTQ-Orbitrap Velos
28803361	HFF	label-free	N. caninum/Ctr; T. gondii/Ctr	Parasitol Res. 2017 Oct; 116(10):2707-2719.	TiO2	LTQ-Orbitrap Velos
28816646	NCI-H292	SILAC	Smoke/Ctr	Omics. 2017 Aug; 21(8):474-487.	TiO2	LTQ-Orbitrap Velos (Thermo Electron, Bremen, Germany)
28842319	A-204	SILAC	DasR/A204; PazR/A204	J Proteomics. 2018 Jan 6; 170:130-140.	PY100; PY1000; IMAC; TIO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific)
28961369	A-549; NCI-H358	label-free	TRC-794/Ctr	Proteomics. 2017 Nov; 17(22).	TiO2	LTQ-Orbitrap Velos (Thermo Scientific, CA)
28978645	ARPE-19	SILAC	POS 120min/Ctr; POS 15min/Ctr; POS 30min/Ctr; POS 60min/Ctr; POS 90min/Ctr	J Biol Chem. 2017 Dec 1; 292(48):19826-19839.	Ti4+-IMAC	Q-Exactive (ThermoFisher Scientific)
29020638	U2OS	SILAC	HU, ATM+CHK1i/Ctr; HU, CHK1i/ATMi; HU, CHK1i/Ctr	Cell Rep. 2017 Oct 10; 21(2):546-558.	TiO2	Q-Exactive (Thermo Fisher Scientific, Bremen, Germany)
29052541	NB4	SILAC	G2/G1; M/G1; S/G1	Elife. 2017 Oct 20; 6. pii: e27574.	Ti:IMAC	Q-Exactive (Thermo Fisher Scientific)
29154753	hTERT-RPE1	SILAC	Cyclin A High/Low	EMBO Mol Med. 2018 Apr; 10(4). pii: emmm.201707918.	TiO2	Q-Exactive Plus (Thermo Fisher Scientific)
29214152	HeLa	SILAC	CX-4945/Ctr	Front Cell Dev Biol. 2017 Nov 22; 5:97.	TiO2	Q-Exactive Plus (Thermo Fisher Scientific, Bremen, Germany)
29255136	WM239A	SILAC	SCH/Ctr; SCH/TRA; TRA/Ctr	Mol Cell Proteomics. 2018 Apr; 17(4):550-564.	TiO2	Orbitrap Fusion (Thermo Scientific); LTQ-Orbitrap Velos
29382783	MCF-10A	SILAC	D.serum 10min/Ctr; D.serum 120min/Ctr; D.serum 20min/Ctr; D.serum 40min/Ctr; D.serum 5min/Ctr; D.serum 60min/Ctr; EGF 10min/Ctr; EGF 120min/Ctr; EGF 20min/Ctr; EGF 40min/Ctr; EGF 5min/Ctr; EGF 60min/Ctr	Nat Commun. 2018 Jan 30; 9(1):433.	TiO2	Orbitrap (Thermo Fisher Scientific)
29435015	MDA-MB-231	TMT	Ginsenoside Rg3 24h/Ctr; Ginsenoside Rg3 3h/Ctr	Oncol Lett. 2018 Mar; 15(3):2889-2898.	TiO2	LTQ-Orbitrap Velos (Thermo Fisher Scientific, Inc.)
29438985	HCT 116	label-free	Collagen+Nilotinib/Ctr; Collagen/Ctr	EMBO Mol Med. 2018 Apr; 10(4). pii: e7918.	PY1000; IMAC	LTQ-Orbitrap Elite (Thermo Scientific, Waltham, MA)
29460479	HCT 116	label-free	EKD/ESC; HKD/HSC	Proteomics. 2018 Apr; 18(8):e1700242.	TiO2	TripleTOF 6600(AB SCIEX)
29496907	HEK293	label-free	GFP-SRMS/Ctr	Mol Cell Proteomics. 2018 Mar 1. pii: RA118.000643.	PY1000	Q-Exactive HF (Thermo-Fisher, MSBioworks Inc., Ann Arbor, Michigan, USA)