113	datasets
313	experiments
35,801	MS runs
108,946,902	PSMs
263,150	distinct peptides
4,608	canonical proteins

About

The Human Plasma PeptideAtlas provides a compendium of results from uniformly reprocessed mass spectrometry proteomics datasets.

Available Human Plasma datasets were reprocessed from the raw files using the Trans-Proteomic Pipeline suite of tools.

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All canonical Human Plasma proteins

Chromosome Summary

Chromosome	neXtProt entries	Canonical		Uncertain		Redundant		Not Observed
1	2,065	505	24.5%	183	8.9%	217	10.5%	1,160	56.2%
2	1,295	326	25.2%	96	7.4%	137	10.6%	736	56.8%
3	1,076	269	25.0%	85	7.9%	101	9.4%	621	57.7%
4	766	178	23.2%	69	9.0%	96	12.5%	423	55.2%
5	887	205	23.1%	72	8.1%	114	12.9%	496	55.9%
6	1,029	222	21.6%	91	8.8%	136	13.2%	580	56.4%
7	1,029	206	20.0%	83	8.1%	101	9.8%	639	62.1%
8	706	153	21.7%	56	7.9%	70	9.9%	427	60.5%
9	806	179	22.2%	54	6.7%	79	9.8%	494	61.3%
10	748	179	23.9%	69	9.2%	71	9.5%	429	57.4%
11	1,333	293	22.0%	104	7.8%	136	10.2%	800	60.0%
12	1,035	239	23.1%	99	9.6%	99	9.6%	598	57.8%
13	333	61	18.3%	31	9.3%	49	14.7%	192	57.7%
14	736	199	27.0%	44	6.0%	73	9.9%	420	57.1%
15	609	120	19.7%	48	7.9%	66	10.8%	375	61.6%
16	843	172	20.4%	89	10.6%	99	11.7%	483	57.3%
17	1,170	293	25.0%	104	8.9%	123	10.5%	650	55.6%
18	270	61	22.6%	19	7.0%	44	16.3%	146	54.1%
19	1,437	312	21.7%	113	7.9%	146	10.2%	866	60.3%
20	550	119	21.6%	56	10.2%	61	11.1%	314	57.1%
21	247	46	18.6%	23	9.3%	26	10.5%	152	61.5%
22	506	143	28.3%	40	7.9%	60	11.9%	263	52.0%
X	850	132	15.5%	76	8.9%	93	10.9%	549	64.6%
Y	48	0	0.0%	2	4.2%	8	16.7%	38	79.2%
MT	15	1	6.7%	0	0.0%	4	26.7%	10	66.7%
?	6	0	0.0%	0	0.0%	0	0.0%	6	100.0%

PE	neXtProt entries	Canonical		Uncertain		Redundant		Not Observed
1	18,397	4,603	25.0%	1,672	9.1%	2,028	11.0%	10,094	54.9%
2	1,151	3	0.3%	23	2.0%	106	9.2%	1,019	88.5%
3	215	0	0.0%	1	0.5%	16	7.4%	198	92.1%
4	15	0	0.0%	0	0.0%	0	0.0%	15	100.0%
5	611	2	0.3%	10	1.6%	59	9.7%	540	88.4%
1-4	19,778	4,606	23.3%	1,696	8.6%	2,150	10.9%	11,326	57.3%
2023-04 Total	20,389	4,608	22.6%	1,706	8.4%	2,209	10.8%	11,866	58.2%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,065	1,864	117	35	2	47	2,018
2	1,295	1,229	45	3	0	18	1,277
3	1,076	1,006	45	6	0	19	1,057
4	766	707	27	12	0	20	746
5	887	838	34	2	0	13	874
6	1,029	938	52	4	1	34	995
7	1,029	878	90	7	3	51	978
8	706	627	32	10	1	36	670
9	806	703	51	8	2	42	764
10	748	690	38	1	1	18	730
11	1,333	1,072	151	69	0	41	1,292
12	1,035	962	40	8	0	25	1,010
13	333	310	10	2	0	11	322
14	736	648	58	15	2	13	723
15	609	534	41	3	0	31	578
16	843	775	40	2	1	25	818
17	1,170	1,080	60	4	0	26	1,144
18	270	255	5	0	0	10	260
19	1,437	1,318	77	12	1	29	1,408
20	550	509	24	1	0	16	534
21	247	198	22	4	0	23	224
22	506	454	24	4	1	23	483
X	850	758	57	2	0	33	817
Y	48	33	7	1	0	7	41
MT	15	15	0	0	0	0	15
?	6	2	4	0	0	0	6

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,067	480	23.2%	173	8.4%	230	11.1%	1,184	57.3%
2	1,295	314	24.2%	97	7.5%	131	10.1%	753	58.1%
3	1,079	254	23.5%	74	6.9%	109	10.1%	642	59.5%
4	769	163	21.2%	62	8.1%	122	15.9%	422	54.9%
5	877	200	22.8%	65	7.4%	112	12.8%	500	57.0%
6	1,029	213	20.7%	66	6.4%	134	13.0%	616	59.9%
7	1,025	193	18.8%	60	5.9%	110	10.7%	662	64.6%
8	702	142	20.2%	46	6.6%	64	9.1%	450	64.1%
9	809	170	21.0%	48	5.9%	94	11.6%	497	61.4%
10	748	167	22.3%	68	9.1%	79	10.6%	434	58.0%
11	1,331	275	20.7%	100	7.5%	146	11.0%	810	60.9%
12	1,036	238	23.0%	72	6.9%	117	11.3%	609	58.8%
13	333	58	17.4%	24	7.2%	49	14.7%	202	60.7%
14	735	188	25.6%	39	5.3%	77	10.5%	431	58.6%
15	606	116	19.1%	39	6.4%	77	12.7%	374	61.7%
16	843	162	19.2%	76	9.0%	99	11.7%	506	60.0%
17	1,169	280	24.0%	102	8.7%	128	10.9%	659	56.4%
18	275	62	22.5%	20	7.3%	42	15.3%	151	54.9%
19	1,436	294	20.5%	93	6.5%	161	11.2%	888	61.8%
20	549	116	21.1%	49	8.9%	57	10.4%	327	59.6%
21	254	41	16.1%	26	10.2%	24	9.4%	163	64.2%
22	505	140	27.7%	30	5.9%	66	13.1%	269	53.3%
X	847	130	15.3%	59	7.0%	88	10.4%	570	67.3%
Y	47	1	2.1%	0	0.0%	8	17.0%	38	80.9%
MT	15	1	6.7%	1	6.7%	2	13.3%	11	73.3%
?	4	0	0.0%	0	0.0%	0	0.0%	4	100.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	18,357	4,390	23.9%	1,469	8.0%	2,099	11.4%	10,399	56.6%
2	1,265	3	0.2%	11	0.9%	152	12.0%	1,099	86.9%
3	147	0	0.0%	2	1.4%	17	11.6%	128	87.1%
4	9	0	0.0%	0	0.0%	0	0.0%	9	100.0%
5	601	1	0.2%	6	1.0%	58	9.7%	536	89.2%
1-4	19,778	4,393	22.2%	1,482	7.5%	2,268	11.5%	11,635	58.8%
2021-07 Total	20,379	4,394	21.6%	1,488	7.3%	2,326	11.4%	12,171	59.7%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,067	1,859	139	21	2	46	2,021
2	1,295	1,228	45	3	1	18	1,277
3	1,079	1,005	52	5	0	17	1,062
4	769	701	35	11	0	22	747
5	877	835	26	2	0	14	863
6	1,029	940	54	4	1	30	999
7	1,025	863	105	6	1	50	975
8	702	625	34	5	0	38	664
9	809	706	58	4	0	41	768
10	748	681	47	0	1	19	729
11	1,331	1,069	169	53	0	40	1,291
12	1,036	959	52	2	0	23	1,013
13	333	311	10	1	0	11	322
14	735	632	75	12	2	14	721
15	606	535	40	0	0	31	575
16	843	773	44	0	1	25	818
17	1,169	1,087	55	3	0	24	1,145
18	275	255	9	0	0	11	264
19	1,436	1,318	79	8	0	31	1,405
20	549	504	31	0	0	14	535
21	254	204	27	2	0	21	233
22	505	455	23	5	0	22	483
X	847	764	51	0	0	32	815
Y	47	37	3	0	0	7	40
MT	15	15	0	0	0	0	15
?	4	2	2	0	0	0	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	406	19.7%	147	7.1%	210	10.2%	1,293	62.9%
2	1,270	249	19.6%	83	6.5%	133	10.5%	805	63.4%
3	1,073	219	20.4%	67	6.2%	86	8.0%	701	65.3%
4	761	117	15.4%	62	8.1%	102	13.4%	480	63.1%
5	872	154	17.7%	58	6.7%	80	9.2%	580	66.5%
6	1,108	170	15.3%	99	8.9%	161	14.5%	678	61.2%
7	935	154	16.5%	71	7.6%	94	10.1%	616	65.9%
8	701	114	16.3%	37	5.3%	64	9.1%	486	69.3%
9	808	139	17.2%	40	5.0%	67	8.3%	562	69.6%
10	751	125	16.6%	51	6.8%	68	9.1%	507	67.5%
11	1,322	224	16.9%	74	5.6%	110	8.3%	914	69.1%
12	1,030	187	18.2%	79	7.7%	94	9.1%	670	65.0%
13	328	50	15.2%	15	4.6%	40	12.2%	223	68.0%
14	673	159	23.6%	30	4.5%	60	8.9%	424	63.0%
15	600	96	16.0%	30	5.0%	62	10.3%	412	68.7%
16	836	125	15.0%	60	7.2%	90	10.8%	561	67.1%
17	1,166	209	17.9%	96	8.2%	125	10.7%	736	63.1%
18	276	52	18.8%	20	7.2%	24	8.7%	180	65.2%
19	1,428	227	15.9%	97	6.8%	135	9.5%	969	67.9%
20	549	91	16.6%	48	8.7%	46	8.4%	364	66.3%
21	252	38	15.1%	19	7.5%	19	7.5%	176	69.8%
22	495	118	23.8%	30	6.1%	53	10.7%	294	59.4%
X	830	103	12.4%	43	5.2%	52	6.3%	632	76.1%
Y	48	0	0.0%	3	6.2%	3	6.2%	42	87.5%
MT	15	1	6.7%	1	6.7%	0	0.0%	13	86.7%
?	5	0	0.0%	0	0.0%	0	0.0%	5	100.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	3,509	20.6%	1,325	7.8%	1,692	9.9%	10,519	61.7%
2	1,912	1	0.1%	14	0.7%	170	8.9%	1,727	90.3%
3	555	10	1.8%	11	2.0%	63	11.4%	471	84.9%
4	96	0	0.0%	0	0.0%	2	2.1%	94	97.9%
5	571	1	0.2%	8	1.4%	51	8.9%	511	89.5%
1-4	19,608	3,520	18.0%	1,350	6.9%	1,927	9.8%	12,811	65.3%
2017-04 Total	20,179	3,521	17.4%	1,358	6.7%	1,978	9.8%	13,322	66.0%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	344	16.7%	146	7.1%	108	5.3%	1,458	70.9%
2	1,270	203	16.0%	85	6.7%	79	6.2%	903	71.1%
3	1,073	171	15.9%	55	5.1%	48	4.5%	799	74.5%
4	761	98	12.9%	49	6.4%	58	7.6%	556	73.1%
5	872	134	15.4%	47	5.4%	46	5.3%	645	74.0%
6	1,108	148	13.4%	84	7.6%	122	11.0%	754	68.1%
7	935	126	13.5%	60	6.4%	37	4.0%	712	76.1%
8	701	94	13.4%	35	5.0%	27	3.9%	545	77.7%
9	808	118	14.6%	40	5.0%	28	3.5%	622	77.0%
10	751	107	14.2%	47	6.3%	29	3.9%	568	75.6%
11	1,322	190	14.4%	67	5.1%	58	4.4%	1,007	76.2%
12	1,030	154	15.0%	64	6.2%	46	4.5%	766	74.4%
13	328	45	13.7%	13	4.0%	15	4.6%	255	77.7%
14	673	130	19.3%	32	4.8%	40	5.9%	471	70.0%
15	600	82	13.7%	30	5.0%	28	4.7%	460	76.7%
16	836	106	12.7%	51	6.1%	45	5.4%	634	75.8%
17	1,166	171	14.7%	96	8.2%	59	5.1%	840	72.0%
18	276	46	16.7%	17	6.2%	15	5.4%	198	71.7%
19	1,428	197	13.8%	80	5.6%	66	4.6%	1,085	76.0%
20	549	82	14.9%	39	7.1%	18	3.3%	410	74.7%
21	252	34	13.5%	16	6.3%	12	4.8%	190	75.4%
22	495	92	18.6%	33	6.7%	29	5.9%	341	68.9%
X	830	80	9.6%	37	4.5%	37	4.5%	676	81.4%
Y	48	0	0.0%	4	8.3%	2	4.2%	42	87.5%
MT	15	0	0.0%	1	6.7%	0	0.0%	14	93.3%
?	5	0	0.0%	0	0.0%	0	0.0%	5	100.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	2,942	17.3%	1,199	7.0%	878	5.2%	12,026	70.6%
2	1,912	1	0.1%	9	0.5%	85	4.4%	1,817	95.0%
3	555	5	0.9%	11	2.0%	43	7.7%	496	89.4%
4	96	0	0.0%	0	0.0%	1	1.0%	95	99.0%
5	571	0	0.0%	5	0.9%	45	7.9%	521	91.2%
1-4	19,608	2,948	15.0%	1,219	6.2%	1,007	5.1%	14,434	73.6%
2015-09 Total	20,179	2,948	14.6%	1,224	6.1%	1,052	5.2%	14,955	74.1%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	249	12.1%	149	7.2%	65	3.2%	1,593	77.5%
2	1,270	143	11.3%	82	6.5%	44	3.5%	1,001	78.8%
3	1,073	114	10.6%	58	5.4%	26	2.4%	875	81.5%
4	761	68	8.9%	46	6.0%	22	2.9%	625	82.1%
5	872	99	11.4%	48	5.5%	18	2.1%	707	81.1%
6	1,108	108	9.7%	79	7.1%	116	10.5%	805	72.7%
7	935	94	10.1%	55	5.9%	26	2.8%	760	81.3%
8	701	70	10.0%	33	4.7%	10	1.4%	588	83.9%
9	808	89	11.0%	37	4.6%	15	1.9%	667	82.5%
10	751	73	9.7%	41	5.5%	18	2.4%	619	82.4%
11	1,322	146	11.0%	65	4.9%	36	2.7%	1,075	81.3%
12	1,030	115	11.2%	64	6.2%	34	3.3%	817	79.3%
13	328	29	8.8%	14	4.3%	5	1.5%	280	85.4%
14	673	89	13.2%	33	4.9%	16	2.4%	535	79.5%
15	600	57	9.5%	34	5.7%	12	2.0%	497	82.8%
16	836	76	9.1%	58	6.9%	29	3.5%	673	80.5%
17	1,166	132	11.3%	97	8.3%	42	3.6%	895	76.8%
18	276	35	12.7%	15	5.4%	11	4.0%	215	77.9%
19	1,428	150	10.5%	87	6.1%	42	2.9%	1,149	80.5%
20	549	65	11.8%	34	6.2%	12	2.2%	438	79.8%
21	252	30	11.9%	17	6.7%	6	2.4%	199	79.0%
22	495	56	11.3%	35	7.1%	16	3.2%	388	78.4%
X	830	59	7.1%	36	4.3%	22	2.7%	713	85.9%
Y	48	0	0.0%	3	6.2%	1	2.1%	44	91.7%
MT	15	0	0.0%	1	6.7%	0	0.0%	14	93.3%
?	5	0	0.0%	0	0.0%	0	0.0%	5	100.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	2,142	12.6%	1,203	7.1%	549	3.2%	13,151	77.2%
2	1,912	0	0.0%	6	0.3%	43	2.2%	1,863	97.4%
3	555	0	0.0%	4	0.7%	10	1.8%	541	97.5%
4	96	0	0.0%	0	0.0%	1	1.0%	95	99.0%
5	571	0	0.0%	4	0.7%	41	7.2%	526	92.1%
1-4	19,608	2,142	10.9%	1,213	6.2%	603	3.1%	15,650	79.8%
2014-08 Total	20,179	2,142	10.6%	1,217	6.0%	644	3.2%	16,176	80.2%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	256	12.5%	142	6.9%	49	2.4%	1,609	78.3%
2	1,270	151	11.9%	76	6.0%	41	3.2%	1,002	78.9%
3	1,073	116	10.8%	61	5.7%	20	1.9%	876	81.6%
4	761	69	9.1%	43	5.7%	13	1.7%	636	83.6%
5	872	99	11.4%	44	5.0%	14	1.6%	715	82.0%
6	1,108	107	9.7%	79	7.1%	113	10.2%	809	73.0%
7	935	95	10.2%	55	5.9%	17	1.8%	768	82.1%
8	701	75	10.7%	31	4.4%	9	1.3%	586	83.6%
9	808	91	11.3%	29	3.6%	13	1.6%	675	83.5%
10	751	72	9.6%	47	6.3%	18	2.4%	614	81.8%
11	1,322	147	11.1%	70	5.3%	21	1.6%	1,084	82.0%
12	1,030	116	11.3%	69	6.7%	26	2.5%	819	79.5%
13	328	26	7.9%	15	4.6%	5	1.5%	282	86.0%
14	673	86	12.8%	35	5.2%	13	1.9%	539	80.1%
15	600	56	9.3%	41	6.8%	7	1.2%	496	82.7%
16	836	77	9.2%	51	6.1%	19	2.3%	689	82.4%
17	1,166	138	11.8%	88	7.5%	38	3.3%	902	77.4%
18	276	38	13.8%	15	5.4%	6	2.2%	217	78.6%
19	1,428	153	10.7%	90	6.3%	22	1.5%	1,163	81.4%
20	549	65	11.8%	38	6.9%	9	1.6%	437	79.6%
21	252	28	11.1%	18	7.1%	5	2.0%	201	79.8%
22	495	60	12.1%	34	6.9%	13	2.6%	388	78.4%
X	830	62	7.5%	42	5.1%	16	1.9%	710	85.5%
Y	48	0	0.0%	4	8.3%	1	2.1%	43	89.6%
MT	15	0	0.0%	1	6.7%	0	0.0%	14	93.3%
?	5	0	0.0%	0	0.0%	0	0.0%	5	100.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	2,177	12.8%	1,201	7.0%	432	2.5%	13,235	77.6%
2	1,912	0	0.0%	8	0.4%	31	1.6%	1,873	98.0%
3	555	0	0.0%	4	0.7%	7	1.3%	544	98.0%
4	96	0	0.0%	0	0.0%	1	1.0%	95	99.0%
5	571	0	0.0%	4	0.7%	36	6.3%	531	93.0%
1-4	19,608	2,177	11.1%	1,213	6.2%	471	2.4%	15,747	80.3%
2012-08 Total	20,179	2,177	10.8%	1,217	6.0%	507	2.5%	16,278	80.7%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	122	5.9%	78	3.8%	33	1.6%	1,823	88.7%
2	1,270	65	5.1%	64	5.0%	24	1.9%	1,117	88.0%
3	1,073	61	5.7%	36	3.4%	11	1.0%	965	89.9%
4	761	41	5.4%	22	2.9%	8	1.1%	690	90.7%
5	872	53	6.1%	38	4.4%	8	0.9%	773	88.6%
6	1,108	54	4.9%	44	4.0%	103	9.3%	907	81.9%
7	935	54	5.8%	30	3.2%	8	0.9%	843	90.2%
8	701	36	5.1%	26	3.7%	5	0.7%	634	90.4%
9	808	55	6.8%	22	2.7%	7	0.9%	724	89.6%
10	751	30	4.0%	27	3.6%	12	1.6%	682	90.8%
11	1,322	77	5.8%	45	3.4%	16	1.2%	1,184	89.6%
12	1,030	64	6.2%	47	4.6%	26	2.5%	893	86.7%
13	328	14	4.3%	10	3.0%	4	1.2%	300	91.5%
14	673	51	7.6%	20	3.0%	11	1.6%	591	87.8%
15	600	20	3.3%	30	5.0%	3	0.5%	547	91.2%
16	836	32	3.8%	26	3.1%	14	1.7%	764	91.4%
17	1,166	63	5.4%	44	3.8%	34	2.9%	1,025	87.9%
18	276	21	7.6%	13	4.7%	5	1.8%	237	85.9%
19	1,428	72	5.0%	48	3.4%	8	0.6%	1,300	91.0%
20	549	33	6.0%	22	4.0%	7	1.3%	487	88.7%
21	252	13	5.2%	7	2.8%	5	2.0%	227	90.1%
22	495	30	6.1%	27	5.5%	8	1.6%	430	86.9%
X	830	30	3.6%	18	2.2%	6	0.7%	776	93.5%
Y	48	0	0.0%	1	2.1%	2	4.2%	45	93.8%
MT	15	0	0.0%	0	0.0%	0	0.0%	15	100.0%
?	5	0	0.0%	0	0.0%	0	0.0%	5	100.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	1,087	6.4%	742	4.4%	321	1.9%	14,895	87.4%
2	1,912	0	0.0%	1	0.1%	16	0.8%	1,895	99.1%
3	555	0	0.0%	1	0.2%	3	0.5%	551	99.3%
4	96	0	0.0%	0	0.0%	1	1.0%	95	99.0%
5	571	0	0.0%	0	0.0%	26	4.6%	545	95.4%
1-4	19,608	1,087	5.5%	744	3.8%	341	1.7%	17,436	88.9%
2010-05 Total	20,179	1,087	5.4%	744	3.7%	367	1.8%	17,981	89.1%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	122	5.9%	83	4.0%	34	1.7%	1,817	88.4%
2	1,270	65	5.1%	71	5.6%	24	1.9%	1,110	87.4%
3	1,073	61	5.7%	38	3.5%	11	1.0%	963	89.7%
4	761	41	5.4%	23	3.0%	8	1.1%	689	90.5%
5	872	53	6.1%	41	4.7%	8	0.9%	770	88.3%
6	1,108	54	4.9%	44	4.0%	103	9.3%	907	81.9%
7	935	54	5.8%	31	3.3%	9	1.0%	841	89.9%
8	701	36	5.1%	29	4.1%	5	0.7%	631	90.0%
9	808	54	6.7%	24	3.0%	7	0.9%	723	89.5%
10	751	30	4.0%	30	4.0%	12	1.6%	679	90.4%
11	1,322	77	5.8%	52	3.9%	16	1.2%	1,177	89.0%
12	1,030	64	6.2%	51	5.0%	28	2.7%	887	86.1%
13	328	14	4.3%	11	3.4%	4	1.2%	299	91.2%
14	673	51	7.6%	25	3.7%	11	1.6%	586	87.1%
15	600	20	3.3%	33	5.5%	4	0.7%	543	90.5%
16	836	32	3.8%	27	3.2%	14	1.7%	763	91.3%
17	1,166	63	5.4%	47	4.0%	34	2.9%	1,022	87.7%
18	276	21	7.6%	13	4.7%	5	1.8%	237	85.9%
19	1,428	71	5.0%	55	3.9%	8	0.6%	1,294	90.6%
20	549	33	6.0%	25	4.6%	8	1.5%	483	88.0%
21	252	13	5.2%	9	3.6%	5	2.0%	225	89.3%
22	495	30	6.1%	29	5.9%	8	1.6%	428	86.5%
X	830	30	3.6%	22	2.7%	7	0.8%	771	92.9%
Y	48	0	0.0%	2	4.2%	2	4.2%	44	91.7%
MT	15	0	0.0%	0	0.0%	0	0.0%	15	100.0%
?	5	0	0.0%	0	0.0%	0	0.0%	5	100.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	1,085	6.4%	812	4.8%	327	1.9%	14,821	87.0%
2	1,912	0	0.0%	1	0.1%	16	0.8%	1,895	99.1%
3	555	0	0.0%	1	0.2%	3	0.5%	551	99.3%
4	96	0	0.0%	0	0.0%	1	1.0%	95	99.0%
5	571	0	0.0%	0	0.0%	27	4.7%	544	95.3%
1-4	19,608	1,085	5.5%	814	4.2%	347	1.8%	17,362	88.5%
2009-11 Total	20,179	1,085	5.4%	814	4.0%	374	1.9%	17,906	88.7%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	181	8.8%	363	17.7%	85	4.1%	1,427	69.4%
2	1,270	122	9.6%	246	19.4%	64	5.0%	838	66.0%
3	1,073	88	8.2%	227	21.2%	28	2.6%	730	68.0%
4	761	64	8.4%	157	20.6%	29	3.8%	511	67.1%
5	872	74	8.5%	155	17.8%	38	4.4%	605	69.4%
6	1,108	72	6.5%	220	19.9%	100	9.0%	716	64.6%
7	935	74	7.9%	171	18.3%	36	3.9%	654	69.9%
8	701	71	10.1%	118	16.8%	15	2.1%	497	70.9%
9	808	70	8.7%	152	18.8%	20	2.5%	566	70.0%
10	751	60	8.0%	162	21.6%	28	3.7%	501	66.7%
11	1,322	99	7.5%	197	14.9%	35	2.6%	991	75.0%
12	1,030	85	8.3%	189	18.3%	48	4.7%	708	68.7%
13	328	31	9.5%	64	19.5%	11	3.4%	222	67.7%
14	673	73	10.8%	125	18.6%	29	4.3%	446	66.3%
15	600	47	7.8%	116	19.3%	14	2.3%	423	70.5%
16	836	58	6.9%	152	18.2%	27	3.2%	599	71.7%
17	1,166	90	7.7%	217	18.6%	52	4.5%	807	69.2%
18	276	33	12.0%	60	21.7%	9	3.3%	174	63.0%
19	1,428	93	6.5%	232	16.2%	58	4.1%	1,045	73.2%
20	549	60	10.9%	100	18.2%	24	4.4%	365	66.5%
21	252	18	7.1%	42	16.7%	4	1.6%	188	74.6%
22	495	37	7.5%	94	19.0%	30	6.1%	334	67.5%
X	830	47	5.7%	139	16.7%	20	2.4%	624	75.2%
Y	48	0	0.0%	8	16.7%	8	16.7%	32	66.7%
MT	15	0	0.0%	2	13.3%	0	0.0%	13	86.7%
?	5	1	20.0%	0	0.0%	0	0.0%	4	80.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	1,616	9.5%	3,505	20.6%	659	3.9%	11,265	66.1%
2	1,912	22	1.2%	168	8.8%	86	4.5%	1,636	85.6%
3	555	4	0.7%	25	4.5%	32	5.8%	494	89.0%
4	96	1	1.0%	2	2.1%	1	1.0%	92	95.8%
5	571	1	0.2%	8	1.4%	32	5.6%	530	92.8%
1-4	19,608	1,643	8.4%	3,700	18.9%	778	4.0%	13,487	68.8%
2007-04 Total	20,179	1,644	8.1%	3,708	18.4%	810	4.0%	14,017	69.5%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Chromosome	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	2,056	168	8.2%	344	16.7%	85	4.1%	1,459	71.0%
2	1,270	110	8.7%	234	18.4%	59	4.6%	867	68.3%
3	1,073	72	6.7%	213	19.9%	28	2.6%	760	70.8%
4	761	56	7.4%	143	18.8%	28	3.7%	534	70.2%
5	872	65	7.5%	147	16.9%	40	4.6%	620	71.1%
6	1,108	62	5.6%	207	18.7%	101	9.1%	738	66.6%
7	935	66	7.1%	171	18.3%	42	4.5%	656	70.2%
8	701	64	9.1%	107	15.3%	16	2.3%	514	73.3%
9	808	64	7.9%	148	18.3%	22	2.7%	574	71.0%
10	751	53	7.1%	153	20.4%	32	4.3%	513	68.3%
11	1,322	93	7.0%	191	14.4%	37	2.8%	1,001	75.7%
12	1,030	75	7.3%	184	17.9%	46	4.5%	725	70.4%
13	328	27	8.2%	67	20.4%	10	3.0%	224	68.3%
14	673	64	9.5%	134	19.9%	28	4.2%	447	66.4%
15	600	41	6.8%	106	17.7%	18	3.0%	435	72.5%
16	836	53	6.3%	140	16.7%	23	2.8%	620	74.2%
17	1,166	84	7.2%	214	18.4%	42	3.6%	826	70.8%
18	276	26	9.4%	54	19.6%	10	3.6%	186	67.4%
19	1,428	83	5.8%	224	15.7%	55	3.9%	1,066	74.6%
20	549	51	9.3%	102	18.6%	20	3.6%	376	68.5%
21	252	16	6.3%	39	15.5%	4	1.6%	193	76.6%
22	495	34	6.9%	93	18.8%	33	6.7%	335	67.7%
X	830	39	4.7%	124	14.9%	22	2.7%	645	77.7%
Y	48	0	0.0%	9	18.8%	8	16.7%	31	64.6%
MT	15	0	0.0%	2	13.3%	0	0.0%	13	86.7%
?	5	1	20.0%	0	0.0%	0	0.0%	4	80.0%

PE	neXtProt entries	Canonical	Uncertain	Redundant	Not Observed
1	17,045	1,439	8.4%	3,366	19.7%	669	3.9%	11,571	67.9%
2	1,912	18	0.9%	152	7.9%	81	4.2%	1,661	86.9%
3	555	5	0.9%	23	4.1%	27	4.9%	500	90.1%
4	96	0	0.0%	4	4.2%	1	1.0%	91	94.8%
5	571	1	0.2%	5	0.9%	29	5.1%	536	93.9%
1-4	19,608	1,462	7.5%	3,545	18.1%	778	4.0%	13,823	70.5%
2006-11 Total	20,179	1,463	7.3%	3,550	17.6%	807	4.0%	14,359	71.2%

Chromosome	All (PE 1-5)	PE1	PE2	PE3	PE4	PE5	PE1-4
1	2,056	1,754	170	77	6	49	2,007
2	1,270	1,123	100	28	3	16	1,254
3	1,073	942	92	20	4	15	1,058
4	761	659	57	23	2	20	741
5	872	762	82	14	4	10	862
6	1,108	960	92	20	8	28	1,080
7	935	769	103	12	6	45	890
8	701	585	56	20	3	37	664
9	808	659	79	22	13	35	773
10	751	645	72	16	1	17	734
11	1,322	993	188	97	5	39	1,283
12	1,030	910	79	18	1	22	1,008
13	328	288	24	2	2	12	316
14	673	567	51	34	6	15	658
15	600	498	52	17	2	31	569
16	836	729	62	20	2	23	813
17	1,166	1,019	103	16	5	23	1,143
18	276	246	16	2	2	10	266
19	1,428	1,159	204	28	5	32	1,396
20	549	472	49	10	5	13	536
21	252	182	27	19	1	23	229
22	495	408	51	13	2	21	474
X	830	681	92	22	8	27	803
Y	48	26	10	5	0	7	41
MT	15	15	0	0	0	0	15
?	5	2	2	0	0	1	4

Column descriptions ▲

Entries: Number of entries in each chromosome
Canonical: Proteins seen with 2 distinct, uniquely mapping peptides
Uncertain: Proteins with some evidence that is not sufficient for canonical status
Redundant: Proteins that have peptides that map to them, but not uniquely and thus not needed to explain the observed peptides
Not Observed: No detections at all in PeptideAtlas above our very stringent threshold

Publications

If you use the Human Plasma PeptideAtlas builds for your work, please cite:

Deutsch EW, Omenn GS, Sun Z, Maes M, Pernemalm M, Palaniappan KK, Letunica N, Vandenbrouck Y, Brun V, Tao SC, Yu X, Geyer PE, Ignjatovic V, Moritz RL, Schwenk JM, Advances and Utility of the Human Plasma Proteome, J Proteome Res. 2021 Dec 3;20(12):5241-5263

Older Publications

Schwenk et al., The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays, Journal of Proteome Research (2017)
Farrah et al., A High-Confidence Human Plasma Proteome Reference Set with Estimated Concentrations in PeptideAtlas, Molecular and Cellular Proteomics (2011)
Farrah T, Deutsch EW, Aebersold R, Using the Human Plasma PeptideAtlas to Study Human Plasma Proteins, Serum/Plasma Proteomics, Methods in Molecular Biology (2011)

Original HPPP Papers

Many articles in a special issue of Proteomics, 2005, volume 5, pages 3223-3519
States et al., Challenges in deriving high-confidence protein identifications from data gathered by a HUPO plasma proteome collaborative study, Nature Biotech. 24(3):333-338 (2006)
Fermin et al., Novel gene and gene model detection using a whole genome open reading frame analysis in proteomics, Genome Biology, 7, R35 (2006)
GS Omenn (ed), Exploring the Human Plasma Proteome, Wiley, Dec 2006

Download

Below are individual Human Plasma PeptideAtlas builds available for download in various flat file formats. Note that not all files contain all information from the build. A build subtitled "PSM FDR=0.002" denotes a PSM FDR threshold of 0.002 (0.2%) is applied to every sample in the build.

Human Plasma 2023-04 PSM FDR = 0.00008Latest Build

Biosequence Set in FASTA format [700MB]
Peptide CDS and chromosomal coordinates [484MB]
Peptide CDS coordinates [282MB]
Peptide sequences in FASTA format [8MB]

Human Plasma 2021-07 PSM FDR = 0.0002

Biosequence Set in FASTA format [511MB]
Database tables exported as mysql dump file [158MB]
Peptide CDS and chromosomal coordinates [305MB]
Peptide CDS coordinates [173MB]
Peptide sequences in FASTA format [6MB]

Human Plasma 2017-04 PSM FDR = 0.00025

Biosequence Set in FASTA format [2GB]
Peptide CDS and chromosomal coordinates [177MB]
Peptide CDS coordinates [97MB]
Peptide sequences in FASTA format [3MB]

Human Plasma 2015-09 PSM FDR = 0.0003

Biosequence Set in FASTA format [4GB]
Peptide CDS and chromosomal coordinates [132MB]
Peptide CDS coordinates [72MB]
Peptide sequences in FASTA format [2MB]

Human Plasma 2013-08 PSM FDR = 0.0003

Biosequence Set in FASTA format [278MB]
Database tables exported as an XML file [56MB]
Database tables exported as mysql dump file [30MB]
Peptide CDS and chromosomal coordinates [49MB]
Peptide CDS coordinates [23MB]
Peptide sequences in FASTA format [1MB]

Human Plasma 2012-08 PSM FDR = 0.00005

Biosequence Set in FASTA format [229MB]
Database tables exported as an XML file [286MB]
Database tables exported as mysql dump file [167MB]
Peptide CDS and chromosomal coordinates [43MB]
Peptide CDS coordinates [20MB]
Peptide sequences in FASTA format [1MB]

Human Plasma 2010-05 PSM FDR = 0.00004

Biosequence Set in FASTA format [157MB]
Database tables exported as an XML file [109MB]
Database tables exported as mysql dump file [65MB]
Peptide CDS and chromosomal coordinates [17MB]
Peptide CDS coordinates [8MB]
Peptide sequences in FASTA format [616KB]

Human Plasma 2009-11 Protein FDR = 0.01

Biosequence Set in FASTA format [131MB]
Database tables exported as an XML file [176MB]
Database tables exported as mysql dump file [76KB]
Peptide CDS and chromosomal coordinates [13MB]
Peptide CDS coordinates [6MB]
Peptide sequences in FASTA format [619KB]

Help

Complete description of each of the available download formats

Other Resources

Report to HUPO Council, 2007, including PPP Workshop at 6th HUPO Congress, Seoul, 7 Oct 2007 [ .doc ]
Raw human plasma data repository at PeptideAtlas

You may also be interested in the Human Plasma / Extracellular Vesicles PeptideAtlas

Acknowledgements

We gratefully acknowledge the support for the Human Plasma PeptideAtlas from NSF grant 1933311 “PTMexchange: Globally harmonized re-analysis and sharing of data on post-translational modifications”.