The plasma peptides of breast versus ovarian cancer

Dufresne, Jaimie; Bowden, Pete; Thavarajah, Thanusi; Florentinus-Mefailoski, Angelique; Chen, Zhuo Zhen; Tucholska, Monika; Norzin, Tenzin; Ho, Margaret Truc; Phan, Morla; Mohamed, Nargiz; Ravandi, Amir; Stanton, Eric; Slutsky, Arthur S.; dos Santos, Claudia C.; Romaschin, Alexander; Marshall, John C.; Addison, Christina; Malone, Shawn; Heyland, Daren; Scheltens, Philip; Killestein, Joep; Teunissen, Charlotte; Diamandis, Eleftherios P.; Siu, K. W. M.; Marshall, John G.

doi:10.1186/s12014-019-9262-0

Clinical Proteomics

Table 4 STRING analysis of cellular component of Gene Symbol distribution from the TRYP and TRYP STYP where delta and χ² were both greater than 9 after correction

From: The plasma peptides of breast versus ovarian cancer

#Term ID	Term description	Observed gene count	Background gene count	False discovery rate
GO:0005622	Intracellular	1302	14286	1.22E−14
GO:0044424	Intracellular part	1282	13,996	1.22E−14
GO:0005856	Cytoskeleton	281	2068	4.49E−14
GO:0043232	Intracellular non-membrane-bounded organelle	467	4005	4.49E−14
GO:0044464	Cell part	1417	16,244	4.88E−11
GO:0043226	Organelle	1143	12,432	7.73E−11
GO:0043229	Intracellular organelle	1124	12,193	9.50E−11
GO:0044430	Cytoskeletal part	207	1547	1.04E−09
GO:0032991	Protein-containing complex	501	4792	2.68E−08
GO:0042995	Cell projection	242	1969	2.68E−08
GO:0044422	Organelle part	862	9111	4.13E−08
GO:0120025	Plasma membrane bounded cell projection	234	1900	4.13E−08
GO:0005737	Cytoplasm	1030	11,238	5.39E−08
GO:0005634	Nucleus	676	6892	9.10E−08
GO:0044428	Nuclear part	455	4359	2.36E−07
GO:0031981	Nuclear lumen	425	4030	2.95E−07
GO:0015630	Microtubule cytoskeleton	150	1118	4.50E−07
GO:0044446	Intracellular organelle part	834	8882	4.50E−07
GO:0044451	Nucleoplasm part	145	1073	4.89E−07
GO:0043005	Neuron projection	149	1142	2.14E−06
GO:0099081	Supramolecular polymer	122	880	2.14E−06
GO:0070013	Intracellular organelle lumen	516	5162	2.48E−06
GO:0120038	Plasma membrane bounded cell projection part	165	1316	3.34E−06
GO:0099568	Cytoplasmic region	68	402	3.64E−06
GO:0099512	Supramolecular fiber	118	873	8.36E−06
GO:0030054	Cell junction	131	1006	1.11E−05
GO:0043227	Membrane-bounded organelle	1007	11,244	1.79E−05
GO:0005930	Axoneme	28	107	1.90E−05
GO:0005654	Nucleoplasm	357	3446	2.24E−05
GO:0043231	Intracellular membrane-bounded organelle	936	10,365	2.24E−05
GO:0044420	Extracellular matrix component	20	59	2.55E−05
GO:0097458	Neuron part	171	1449	4.59E−05
GO:0005829	Cytosol	485	4958	5.91E−05
GO:0032838	Plasma membrane bounded cell projection cytoplasm	36	179	9.90E−05
GO:0098644	Complex of collagen trimmers	11	19	0.00014
GO:0015629	Actin cytoskeleton	65	432	0.00016
GO:0030424	Axon	75	530	0.00023
GO:0030016	Myofibril	39	216	0.00034
GO:0005911	Cell–cell junction	60	402	0.00042
GO:0043292	Contractile fiber	40	228	0.00045
GO:0062023	Collagen-containing extracellular matrix	29	144	0.00069
GO:0016604	Nuclear body	94	742	0.00088
GO:0044449	Contractile fiber part	37	212	0.00093
GO:0031012	Extracellular matrix	45	283	0.0011
GO:0016459	Myosin complex	18	69	0.0012
GO:0031965	Nuclear membrane	46	300	0.0019
GO:0005874	Microtubule	55	385	0.0022
GO:0005581	Collagen trimer	20	88	0.0024
GO:0098862	Cluster of actin-based cell projections	27	143	0.0028
GO:0005815	Microtubule organizing center	85	683	0.0029
GO:0044444	Cytoplasmic part	832	9377	0.0029
GO:0044441	Ciliary part	58	421	0.0032
GO:0005583	Fibrillar collagen trimer	7	11	0.0033
GO:0016460	Myosin II complex	11	32	0.0039
GO:0033267	Axon part	49	341	0.0039
GO:0014704	Intercalated disc	14	51	0.0041
GO:0005859	Muscle myosin complex	10	27	0.0044
GO:0008023	Transcription elongation factor complex	14	52	0.0047
GO:0032982	Myosin filament	9	22	0.0047
GO:0034399	Nuclear periphery	25	134	0.0047
GO:0044291	Cell–cell contact zone	16	67	0.0055
GO:0005915	Zonula adherens	6	9	0.0069
GO:0005694	Chromosome	108	950	0.0076
GO:0005929	Cilium	71	570	0.0076
GO:0030496	Midbody	28	165	0.0076
GO:0043034	Costamere	8	19	0.008
GO:0044447	Axoneme part	10	31	0.0093
GO:0005913	Cell–cell adherens junction	16	72	0.0098
GO:0032420	Stereocilium	12	44	0.0098
GO:0005875	Microtubule associated complex	25	144	0.01
GO:0016607	Nuclear speck	51	381	0.01
GO:0031252	Cell leading edge	50	371	0.01
GO:0032421	Stereocilium bundle	13	51	0.01
GO:0033268	Node of Ranvier	7	15	0.01
GO:0097060	Synaptic membrane	43	308	0.0114
GO:0034708	Methyltransferase complex	18	90	0.0124
GO:0042383	Sarcolemma	22	122	0.0124
GO:0030056	Hemidesmosome	5	7	0.0137
GO:0098590	Plasma membrane region	116	1061	0.0141
GO:0044450	Microtubule organizing center part	27	167	0.0147
GO:0090543	Flemming body	9	28	0.0147
GO:0005814	Centriole	22	125	0.0152
GO:0030017	Sarcomere	30	195	0.0159
GO:0042405	Nuclear inclusion body	6	12	0.016
GO:0070161	Anchoring junction	38	270	0.0172
GO:0005635	Nuclear envelope	56	446	0.0183
GO:0036396	RNA N6-methyladenosine methyltransferase complex	5	8	0.019
GO:0005813	Centrosome	58	468	0.0194
GO:0005730	Nucleolus	102	926	0.0196
GO:0030427	Site of polarized growth	26	164	0.0203
GO:0045211	Postsynaptic membrane	34	237	0.0207
GO:0030018	Z disc	21	122	0.0217
GO:0098858	Actin-based cell projection	29	192	0.0217
GO:0016363	Nuclear matrix	19	106	0.0228
GO:0005938	Cell cortex	33	230	0.0229
GO:0030027	Lamellipodium	28	185	0.024
GO:0044304	Main axon	14	67	0.0242
GO:0070449	Elongin complex	5	9	0.0246
GO:0005604	Basement membrane	17	91	0.0248
GO:0043194	Axon initial segment	6	14	0.0248
GO:0005912	Adherens junction	35	252	0.0263
GO:0099513	Polymeric cytoskeletal fiber	73	645	0.0402
GO:0005587	Collagen type IV trimer	4	6	0.0406
GO:1990752	Microtubule end	7	22	0.0413
GO:0030426	Growth cone	24	159	0.0442
GO:0044427	Chromosomal part	89	819	0.0442
GO:0005858	Axonemal dynein complex	6	17	0.0499
GO:0035371	Microtubule plus-end	6	17	0.0499

Additional details see Table 2

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