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pmid:26793233

Milk Bottom-Up Proteomics: Method Optimization.

Delphine Vincent · Vilnis Ezernieks · Aaron Elkins · Nga Nguyen · Peter J Moate · Benjamin G Cocks · Simone Rochfort

Frontiers in genetics · 2015 doi:10.3389/fgene.2015.00360

Paper

complete

Experiment

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Data

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Analysis

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Record details sci_version · id · kind · revision · content_hash · schema · created_at · updated_at · generator
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created_at
2026-11-01T15:40:15Z
updated_at
2026-11-01T21:20:23Z
generator object · 2 fields
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paper object · 10 fields
state
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title
Milk Bottom-Up Proteomics: Method Optimization.
doi
10.3389/fgene.2015.00360
pmid
26793233
authors array · 7 items
[0]
Delphine Vincent
[1]
Vilnis Ezernieks
[2]
Aaron Elkins
[3]
Nga Nguyen
[4]
Peter J Moate
[5]
Benjamin G Cocks
[6]
Simone Rochfort
journal
Frontiers in genetics
year
2015
abstract
Milk is a complex fluid whose proteome displays a diverse set of proteins of high abundance such as caseins and medium to low abundance whey proteins such as ß-lactoglobulin, lactoferrin, immunoglobulins, glycoproteins, peptide hormones, and enzymes. A sample preparation method that enables high reproducibility and throughput is key in reliably identifying proteins present or proteins responding to conditions such as a diet, health or genetics. Using skim milk samples from Jersey and Holstein-Friesian cows, we compared three extraction procedures which have not previously been applied to samples of cows' milk. Method A (urea) involved a simple dilution of the milk in a urea-based buffer, method B (TCA/acetone) involved a trichloroacetic acid (TCA)/acetone precipitation, and method C (methanol/chloroform) involved a tri-phasic partition method in chloroform/methanol solution. Protein assays, SDS-PAGE profiling, and trypsin digestion followed by nanoHPLC-electrospray ionization-tandem mass spectrometry (nLC-ESI-MS/MS) analyses were performed to assess their efficiency. Replicates were used at each analytical step (extraction, digestion, injection) to assess reproducibility. Mass spectrometry (MS) data are available via ProteomeXchange with identifier PXD002529. Overall 186 unique accessions, major and minor proteins, were identified with a combination of methods. Method C (methanol/chloroform) yielded the best resolved SDS-patterns and highest protein recovery rates, method A (urea) yielded the greatest number of accessions, and, of the three procedures, method B (TCA/acetone) was the least compatible of all with a wide range of downstream analytical procedures. Our results also highlighted breed differences between the proteins in milk of Jersey and Holstein-Friesian cows.
claims array · 3 items
[0] object · 6 fields
id
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Partial Least Squares analyses (PLS) were performed on row means using the cow breed as a response, three latent factors, and 50% valid values.
kind
methodological
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null
evidence array · 1 item
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source:pmid:26793233
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sections[14] "Statistical analyses" paragraph 3
quote
Partial Least Squares analyses (PLS) were performed on row means using the cow breed as a response, three latent factors, and 50% valid values.
state
complete
[1] object · 6 fields
id
claim-data-access
statement
The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.
kind
methodological
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null
evidence array · 1 item
[0] object · 3 fields
asset
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sections[13] "Database search for protein identification" paragraph 4
quote
The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.
state
complete
[2] object · 6 fields
id
claim-target-result
statement
Using statistical analyses of nLC-ESI-MS/MS data deposited in ProteomeXchange under PXD002529, the study identified 186 unique protein accessions across the combined methods, with urea providing the greatest coverage, methanol/chloroform the best recovery and SDS-PAGE resolution, and TCA/acetone the least suitable downstream performance.
kind
qualitative
target
null
evidence array · 4 items
[0] object · 3 fields
asset
source:pmid:26793233
locator
sections[0] "Abstract" paragraph 1
quote
Overall 186 unique accessions, major and minor proteins, were identified with a combination of methods.
[1] object · 3 fields
asset
source:pmid:26793233
locator
sections[0] "Abstract" paragraph 1
quote
Mass spectrometry (MS) data are available via ProteomeXchange with identifier PXD002529.
[2] object · 3 fields
asset
source:pmid:26793233
locator
sections[0] "Abstract" paragraph 1
quote
Method C (methanol/chloroform) yielded the best resolved SDS-patterns and highest protein recovery rates, method A (urea) yielded the greatest number of accessions, and, of the three procedures, method B (TCA/acetone) was the least compatible of all with a wide range of downstream analytical procedures.
[3] object · 3 fields
asset
source:pmid:26793233
locator
sections[1] "Introduction" paragraph 5
quote
Statistical analyses and gene ontology (GO) classification were employed to further highlight commonalities and differences between the three extraction methods.
state
complete
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experiment object · 8 fields
state
complete
objective
Using statistical analyses of nLC-ESI-MS/MS data deposited in ProteomeXchange under PXD002529, the study identified 186 unique protein accessions across the combined methods, with urea providing the greatest coverage, methanol/chloroform the best recovery and SDS-PAGE resolution, and TCA/acetone the least suitable downstream performance.
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[0] object · 13 fields
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read_published_estimate
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Read the published estimate from the source
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other
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complete
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The claim, method and evidence span published with the source article.
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the published estimate and its evidence
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Obtain the source data from the named repository
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Apply the paper's statistical method to the resolved series and compare the result with the published target.
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the replicated result and its comparison
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https://doi.org/10.3389/fgene.2015.00360
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10.3389/fgene.2015.00360
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structure object · 4 fields
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PMC4707256
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europe_pmc_fulltext
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The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.
structure object · 15 fields
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GEO accession URL
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The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.
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title
Milk bottom-up proteomics: method optimisation.
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2026-10-31T18:35:55Z
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List of protein accessions identified in the different milk extracts, along with their description, their coverage (percentage of the database protein sequence covered by matching peptides) across samples, the number of unique peptides (distinct peptide that match to a single protein entry within the search database), the occurrence (%) in the three methods and the two breeds.
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PMC4707256
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13
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Database search for protein identification
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187
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11
table object · 8 fields
label
Table 1
caption
List of protein accessions identified in the different milk extracts, along with their description, their coverage (percentage of the database protein sequence covered by matching peptides) across samples, the number of unique peptides (distinct peptide that match to a single protein entry within the search database), the occurrence (%) in the three methods and the two breeds.
rows array · 187 items
[0] array · 11 items
[0]
No
[1]
Description
[2]
gi Accession
[3]
IPI accession
[4]
Σcoverage (%)
[5]
Σ# Unique Peptides
[6]
Occurrencea in method A (%)
[7]
Occurrencea in method B (%)
[8]
Occurrencea in method C (%)
[9]
Occurrencea in breed H (%)
[10]
Occurrencea in breed J (%)
[1] array · 11 items
[0]
1
[1]
11 kDa protein
[2]
[3]
IPI00843089.3
[4]
52.3
[5]
22
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[2] array · 11 items
[0]
2
[1]
Actin 1
[2]
4501885
[3]
IPI00698900.1
[4]
16.5
[5]
520
[6]
72
[7]
67
[8]
40
[9]
47
[10]
73
[3] array · 11 items
[0]
3
[1]
Alpha-1-acid glycoprotein
[2]
94966811
[3]
IPI00691212.1
[4]
33.7
[5]
10
[6]
97
[7]
100
[8]
27
[9]
77
[10]
75
[4] array · 11 items
[0]
4
[1]
Alpha-1-antiproteinase
[2]
27806941
[3]
IPI00695489.1
[4]
24.5
[5]
10
[6]
97
[7]
94
[8]
85
[9]
98
[10]
87
[5] array · 11 items
[0]
5
[1]
Alpha-1B-glycoprotein
[2]
114053019
[3]
IPI00692686.1
[4]
13.3
[5]
6
[6]
9
[7]
39
[8]
35
[9]
41
[10]
13
[6] array · 11 items
[0]
6
[1]
Alpha-2-HS-glycoprotein
[2]
27806751
[3]
IPI00707101.1
[4]
19.2
[5]
8
[6]
86
[7]
74
[8]
65
[9]
90
[10]
62
[7] array · 11 items
[0]
7
[1]
Alpha-lactabumin
[2]
119393699
[3]
[4]
30.8
[5]
3
[6]
95
[7]
0
[8]
55
[9]
50
[10]
51
[8] array · 11 items
[0]
8
[1]
Alpha-lactalbumin
[2]
505782142
[3]
[4]
9.9
[5]
1
[6]
7
[7]
0
[8]
0
[9]
5
[10]
0
[9] array · 11 items
[0]
9
[1]
Alpha-lactalbumin
[2]
11036986
[3]
[4]
18.1
[5]
2
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[10] array · 11 items
[0]
10
[1]
Alpha-lactalbumin
[2]
27805979
[3]
IPI00717424.1
[4]
31.0
[5]
53
[6]
55
[7]
0
[8]
0
[9]
18
[10]
21
[11] array · 11 items
[0]
11
[1]
Alpha-lactalbumin-like isoform X3
[2]
585153938
[3]
[4]
12.3
[5]
3
[6]
100
[7]
0
[8]
0
[9]
36
[10]
34
[12] array · 11 items
[0]
12
[1]
Alpha-S1-casein
[2]
159793227
[3]
[4]
15.8
[5]
1
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[13] array · 11 items
[0]
13
[1]
Alpha-S1-casein
[2]
299676
[3]
[4]
64.7
[5]
1
[6]
0
[7]
1
[8]
0
[9]
0
[10]
1
[14] array · 11 items
[0]
14
[1]
Alpha-S1-casein
[2]
162650
[3]
[4]
14.0
[5]
1
[6]
22
[7]
12
[8]
17
[9]
22
[10]
11
[15] array · 11 items
[0]
15
[1]
Alpha-S1-casein isoform X2
[2]
528953236
[3]
[4]
41.3
[5]
47
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[16] array · 11 items
[0]
16
[1]
Alpha-S1-casein isoform X3
[2]
528953238
[3]
[4]
42.2
[5]
47
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[17] array · 11 items
[0]
17
[1]
Alpha-S1-casein isoform X6
[2]
528953244
[3]
[4]
30.2
[5]
5
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[18] array · 11 items
[0]
18
[1]
Alpha-S1-casein isoform X7
[2]
528953246
[3]
[4]
49.2
[5]
47
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[19] array · 11 items
[0]
19
[1]
Alpha-S2-casein
[2]
27806963
[3]
IPI00698843.1
[4]
59.5
[5]
29
[6]
0
[7]
4
[8]
10
[9]
5
[10]
4
[20] array · 11 items
[0]
20
[1]
Alpha-S2-casein
[2]
147744646
[3]
[4]
24.1
[5]
1
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[21] array · 11 items
[0]
21
[1]
Angiogenin-1
[2]
118151356
[3]
IPI00726982.1
[4]
31.8
[5]
5
[6]
76
[7]
39
[8]
74
[9]
69
[10]
57
[22] array · 11 items
[0]
22
[1]
Antibody Blv5b8
[2]
513137425
[3]
[4]
9.5
[5]
5
[6]
51
[7]
6
[8]
35
[9]
41
[10]
21
[23] array · 11 items
[0]
23
[1]
Anti-hiv llama vhh antibody a12
[2]
380258837
[3]
[4]
6.3
[5]
1
[6]
0
[7]
0
[8]
1
[9]
0
[10]
1
[24] array · 11 items
[0]
24
[1]
Apolipoprotein A-I preproprotein
[2]
75832056
[3]
IPI00715548.1
[4]
38.1
[5]
56
[6]
99
[7]
0
[8]
99
[9]
67
[10]
63
[25] array · 11 items
[0]
25
[1]
Apolipoprotein A-II
[2]
114052298
[3]
IPI00688815.2
[4]
16.0
[5]
5
[6]
25
[7]
0
[8]
0
[9]
14
[10]
3
[26] array · 11 items
[0]
26
[1]
Apolipoprotein A-IV
[2]
82697389
[3]
IPI00695965.1
[4]
18.7
[5]
19
[6]
36
[7]
0
[8]
4
[9]
12
[10]
16
[27] array · 11 items
[0]
27
[1]
Apolipoprotein E
[2]
27806739
[3]
IPI00712693.1
[4]
7.3
[5]
12
[6]
75
[7]
0
[8]
15
[9]
30
[10]
32
[28] array · 11 items
[0]
28
[1]
ATP-binding cassette sub-family G member 2
[2]
112817615
[3]
IPI00690408.5
[4]
7.9
[5]
80
[6]
100
[7]
0
[8]
81
[9]
62
[10]
59
[29] array · 11 items
[0]
29
[1]
Beta-1,4-galactosyltransferase 1
[2]
[3]
IPI00760476.26
[4]
5.1
[5]
2
[6]
90
[7]
29
[8]
0
[9]
54
[10]
29
[30] array · 11 items
[0]
30
[1]
Beta-1,4-galactosyltransferase 1
[2]
116241263
[3]
IPI00685910.2
[4]
10.0
[5]
29
[6]
0
[7]
0
[8]
5
[9]
3
[10]
0
[31] array · 11 items
[0]
31
[1]
Beta-2-microglobulin
[2]
41386683
[3]
IPI00686769.1
[4]
23.7
[5]
22
[6]
100
[7]
82
[8]
97
[9]
96
[10]
90
[32] array · 11 items
[0]
32
[1]
Beta-casein
[2]
555980347
[3]
IPI00697085.1
[4]
23.7
[5]
8
[6]
0
[7]
0
[8]
81
[9]
27
[10]
23
[33] array · 11 items
[0]
33
[1]
Beta-casein
[2]
83406093
[3]
[4]
23.7
[5]
45
[6]
0
[7]
100
[8]
0
[9]
32
[10]
36
[34] array · 11 items
[0]
34
[1]
Beta-casein variant I
[2]
38231527
[3]
[4]
35.9
[5]
2
[6]
35
[7]
0
[8]
0
[9]
12
[10]
13
[35] array · 11 items
[0]
35
[1]
Beta-lactoglobulin
[2]
54037712
[3]
[4]
37.0
[5]
22
[6]
1
[7]
0
[8]
0
[9]
0
[10]
1
[36] array · 11 items
[0]
36
[1]
Beta-lactoglobulin
[2]
562890035
[3]
[4]
30.0
[5]
1
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[37] array · 11 items
[0]
37
[1]
Beta-lactoglobulin
[2]
87196497
[3]
IPI00699698.1
[4]
41.0
[5]
18
[6]
5
[7]
0
[8]
19
[9]
6
[10]
10
[38] array · 11 items
[0]
38
[1]
Beta-lactoglobulin
[2]
223165
[3]
[4]
47.5
[5]
19
[6]
100
[7]
0
[8]
100
[9]
68
[10]
64
[39] array · 11 items
[0]
39
[1]
Beta-lactoglobulin
[2]
49259423
[3]
[4]
47.5
[5]
15
[6]
100
[7]
0
[8]
0
[9]
36
[10]
34
[40] array · 11 items
[0]
40
[1]
Beta-lactoglobulin
[2]
378947940
[3]
[4]
25.8
[5]
1
[6]
100
[7]
100
[8]
0
[9]
68
[10]
70
[41] array · 11 items
[0]
41
[1]
Beta-lactoglobulin A
[2]
2194088
[3]
[4]
47.5
[5]
22
[6]
100
[7]
0
[8]
0
[9]
36
[10]
34
[42] array · 11 items
[0]
42
[1]
Beta-lactoglobulin-like
[2]
593730995
[3]
[4]
9.4
[5]
1
[6]
22
[7]
0
[8]
0
[9]
2
[10]
13
[43] array · 11 items
[0]
43
[1]
Butyrophilin subfamily 1 member A1
[2]
3183510
[3]
IPI00708535.1
[4]
28.1
[5]
335
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[44] array · 11 items
[0]
44
[1]
Cathelicidin-1
[2]
27807341
[3]
IPI00718108.1
[4]
10.3
[5]
10
[6]
6
[7]
0
[8]
1
[9]
5
[10]
0
[45] array · 11 items
[0]
45
[1]
Cathelicidin-4
[2]
27807337
[3]
IPI00686754.1
[4]
11.1
[5]
1
[6]
5
[7]
13
[8]
1
[9]
12
[10]
1
[46] array · 11 items
[0]
46
[1]
CD5L protein
[2]
[3]
IPI00867131.2
[4]
14.1
[5]
23
[6]
25
[7]
0
[8]
81
[9]
22
[10]
45
[47] array · 11 items
[0]
47
[1]
CD81 antigen
[2]
78042548
[3]
IPI00685617.1
[4]
6.8
[5]
9
[6]
89
[7]
8
[8]
0
[9]
37
[10]
31
[48] array · 11 items
[0]
48
[1]
Cell division control protein 42 homolog isoform 1
[2]
4757952
[3]
IPI00704257.2
[4]
5.2
[5]
76
[6]
19
[7]
0
[8]
33
[9]
19
[10]
15
[49] array · 11 items
[0]
49
[1]
Chemokine (C-X-C motif) ligand 3
[2]
114050915
[3]
IPI00721750.2
[4]
14.4
[5]
9
[6]
95
[7]
0
[8]
0
[9]
34
[10]
33
[50] array · 11 items
[0]
50
[1]
Clusterin preproprotein
[2]
27806907
[3]
IPI00694304.1
[4]
18.0
[5]
53
[6]
97
[7]
95
[8]
99
[9]
95
[10]
98
[51] array · 11 items
[0]
51
[1]
Complement C3
[2]
602697202
[3]
[4]
7.9
[5]
86
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[52] array · 11 items
[0]
52
[1]
Complement C3
[2]
124056491
[3]
IPI00713505.2
[4]
34.0
[5]
152
[6]
100
[7]
0
[8]
0
[9]
36
[10]
34
[53] array · 11 items
[0]
53
[1]
Cysteine-rich secretory protein 3
[2]
118601862
[3]
IPI00715999.1
[4]
23.4
[5]
7
[6]
99
[7]
78
[8]
90
[9]
91
[10]
87
[54] array · 11 items
[0]
54
[1]
dnaJ homolog subfamily B member 9
[2]
300795871
[3]
IPI01000889.1
[4]
17.9
[5]
89
[6]
0
[7]
20
[8]
13
[9]
8
[10]
13
[55] array · 11 items
[0]
55
[1]
dnaJ homolog subfamily C member 3
[2]
27807457
[3]
IPI00693007.1
[4]
3.4
[5]
14
[6]
0
[7]
0
[8]
1
[9]
1
[10]
0
[56] array · 11 items
[0]
56
[1]
Dystroglycan
[2]
27806449
[3]
IPI00707359.1
[4]
1.8
[5]
21
[6]
0
[7]
91
[8]
1
[9]
32
[10]
30
[57] array · 11 items
[0]
57
[1]
Endopin 2B
[2]
38683423
[3]
IPI01017613.1
[4]
16.6
[5]
7
[6]
92
[7]
0
[8]
0
[9]
35
[10]
29
[58] array · 11 items
[0]
58
[1]
Epididymal secretory protein E1
[2]
27806881
[3]
IPI00711862.1
[4]
32.9
[5]
8
[6]
59
[7]
80
[8]
8
[9]
62
[10]
38
[59] array · 11 items
[0]
59
[1]
Fab Pgt123 Hiv-1 Neutralizing Antibody
[2]
491668737
[3]
[4]
5.2
[5]
1
[6]
56
[7]
13
[8]
0
[9]
34
[10]
13
[60] array · 11 items
[0]
60
[1]
Factor XIIa inhibitor
[2]
27807349
[3]
IPI00710025.1
[4]
15.4
[5]
7
[6]
100
[7]
68
[8]
71
[9]
82
[10]
78
[61] array · 11 items
[0]
61
[1]
Fatty acid synthase
[2]
426239165
[3]
[4]
1.2
[5]
11
[6]
8
[7]
0
[8]
0
[9]
1
[10]
5
[62] array · 11 items
[0]
62
[1]
Fatty acid-binding protein
[2]
507563106
[3]
[4]
14.3
[5]
40
[6]
99
[7]
40
[8]
100
[9]
94
[10]
64
[63] array · 11 items
[0]
63
[1]
Fatty acid-binding protein
[2]
27805809
[3]
IPI00691946.2
[4]
47.4
[5]
109
[6]
80
[7]
0
[8]
9
[9]
34
[10]
28
[64] array · 11 items
[0]
64
[1]
Fibrinogen alpha chain
[2]
75812954
[3]
IPI00691819.1
[4]
8.9
[5]
7
[6]
95
[7]
28
[8]
63
[9]
77
[10]
48
[65] array · 11 items
[0]
65
[1]
Fibrinogen beta chain
[2]
218931172
[3]
IPI00709763.5
[4]
11.7
[5]
24
[6]
27
[7]
53
[8]
49
[9]
49
[10]
37
[66] array · 11 items
[0]
66
[1]
Fibroblast growth factor-binding protein 1
[2]
27805911
[3]
IPI00704023.1
[4]
11.5
[5]
5
[6]
94
[7]
40
[8]
92
[9]
87
[10]
63
[67] array · 11 items
[0]
67
[1]
Fibronectin isoform X10
[2]
528940100
[3]
IPI01028178.1
[4]
0.6
[5]
484
[6]
0
[7]
0
[8]
3
[9]
0
[10]
2
[68] array · 11 items
[0]
68
[1]
Folate receptor alpha
[2]
330688394
[3]
IPI01017673.1
[4]
9.1
[5]
4
[6]
76
[7]
74
[8]
0
[9]
59
[10]
44
[69] array · 11 items
[0]
69
[1]
Gelsolin isoform b
[2]
296484315
[3]
IPI01017675.1
[4]
1.8
[5]
190
[6]
0
[7]
11
[8]
0
[9]
2
[10]
5
[70] array · 11 items
[0]
70
[1]
Glutamyltranspeptidase 1 gamma
[2]
329664306
[3]
IPI00705565.2
[4]
6.7
[5]
4
[6]
10
[7]
2
[8]
0
[9]
2
[10]
7
[71] array · 11 items
[0]
71
[1]
Glycosylation-dependent cell adhesion molecule 1
[2]
27807339
[3]
IPI00716366.1
[4]
50.3
[5]
39
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[72] array · 11 items
[0]
72
[1]
GTP binding protein Rab1a
[2]
15281851
[3]
IPI00883580.1
[4]
17.0
[5]
118
[6]
0
[7]
1
[8]
37
[9]
16
[10]
8
[73] array · 11 items
[0]
73
[1]
hCG1791766 isoform CRA_a
[2]
119626014
[3]
[4]
13.7
[5]
2
[6]
0
[7]
18
[8]
47
[9]
22
[10]
20
[74] array · 11 items
[0]
74
[1]
Heat shock cognate 71 kDa protein
[2]
548494982
[3]
IPI00708526.2
[4]
5.9
[5]
656
[6]
14
[7]
0
[8]
0
[9]
4
[10]
6
[75] array · 11 items
[0]
75
[1]
Heat shock-related 70 kDa protein 2
[2]
148887197
[3]
IPI00710052.1
[4]
1.7
[5]
1
[6]
0
[7]
1
[8]
19
[9]
8
[10]
5
[76] array · 11 items
[0]
76
[1]
Hedgehog interacting protein-like 2-like
[2]
76669880
[3]
IPI00700055.2
[4]
11.5
[5]
10
[6]
0
[7]
80
[8]
96
[9]
60
[10]
54
[77] array · 11 items
[0]
77
[1]
Hemopexin
[2]
77736171
[3]
IPI00690198.4
[4]
3.5
[5]
6
[6]
2
[7]
0
[8]
0
[9]
2
[10]
0
[78] array · 11 items
[0]
78
[1]
Heparin cofactor 2
[2]
157280001
[3]
IPI00688367.1
[4]
2.6
[5]
6
[6]
0
[7]
5
[8]
0
[9]
1
[10]
2
[79] array · 11 items
[0]
79
[1]
Histatherin
[2]
242347807
[3]
IPI00944405.1
[4]
39.7
[5]
2
[6]
13
[7]
12
[8]
88
[9]
44
[10]
28
[80] array · 11 items
[0]
80
[1]
Hornerin
[2]
28557150
[3]
[4]
4.1
[5]
6
[6]
0
[7]
0
[8]
1
[9]
0
[10]
1
[81] array · 11 items
[0]
81
[1]
Ig anti-HIV-1
[2]
612405504
[3]
[4]
12.6
[5]
1
[6]
1
[7]
0
[8]
59
[9]
13
[10]
25
[82] array · 11 items
[0]
82
[1]
Ig J chain
[2]
32401410
[3]
IPI00701295.1
[4]
29.9
[5]
20
[6]
99
[7]
100
[8]
99
[9]
98
[10]
100
[83] array · 11 items
[0]
83
[1]
Ig lambda light chain
[2]
15088675
[3]
[4]
21.3
[5]
10
[6]
100
[7]
0
[8]
100
[9]
68
[10]
64
[84] array · 11 items
[0]
84
[1]
Ig lambda light chain constant region 2 allotypic variant IGLC2b
[2]
343197004
[3]
[4]
30.2
[5]
1
[6]
98
[7]
100
[8]
0
[9]
67
[10]
69
[85] array · 11 items
[0]
85
[1]
Ig lambda light chain constant region 3 allotypic variant IGLC3c
[2]
343197026
[3]
[4]
52.8
[5]
3
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[86] array · 11 items
[0]
86
[1]
Ig lambda-1 variable region
[2]
42759882
[3]
[4]
13.9
[5]
2
[6]
0
[7]
0
[8]
19
[9]
1
[10]
11
[87] array · 11 items
[0]
87
[1]
Ig lambda-like polypeptide 1-like
[2]
[3]
IPI01002118.1
[4]
23.3
[5]
8
[6]
100
[7]
0
[8]
100
[9]
68
[10]
64
[88] array · 11 items
[0]
88
[1]
Ig light chain
[2]
310893433
[3]
[4]
16.7
[5]
3
[6]
91
[7]
62
[8]
77
[9]
80
[10]
74
[89] array · 11 items
[0]
89
[1]
Ig light chain
[2]
310893435
[3]
[4]
61.4
[5]
16
[6]
100
[7]
0
[8]
100
[9]
68
[10]
64
[90] array · 11 items
[0]
90
[1]
Ig light chain variable region
[2]
5802436
[3]
[4]
11.5
[5]
1
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[91] array · 11 items
[0]
91
[1]
Ig light chain variable region
[2]
2323400
[3]
[4]
41.8
[5]
12
[6]
0
[7]
4
[8]
3
[9]
4
[10]
0
[92] array · 11 items
[0]
92
[1]
Ig light chain variable region
[2]
482673169
[3]
[4]
9.4
[5]
15
[6]
16
[7]
6
[8]
0
[9]
10
[10]
6
[93] array · 11 items
[0]
93
[1]
Ig light chain, lambda gene cluster
[2]
92096965
[3]
IPI00867205.1
[4]
20.1
[5]
1
[6]
0
[7]
100
[8]
0
[9]
32
[10]
36
[94] array · 11 items
[0]
94
[1]
IgG1 heavy chain constant region
[2]
7547266
[3]
[4]
16.4
[5]
9
[6]
98
[7]
95
[8]
99
[9]
98
[10]
97
[95] array · 11 items
[0]
95
[1]
IgG2a heavy chain constant region
[2]
1699167
[3]
[4]
12.9
[5]
2
[6]
48
[7]
5
[8]
45
[9]
42
[10]
23
[96] array · 11 items
[0]
96
[1]
IGK protein
[2]
115545495
[3]
IPI00724838.2
[4]
10.0
[5]
10
[6]
0
[7]
2
[8]
99
[9]
34
[10]
29
[97] array · 11 items
[0]
97
[1]
IgM heavy chain constant region
[2]
2232299
[3]
[4]
22.7
[5]
53
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[98] array · 11 items
[0]
98
[1]
Inhibitor of carbonic anhydrase-like
[2]
470655576
[3]
[4]
5.2
[5]
7
[6]
0
[7]
6
[8]
0
[9]
3
[10]
1
[99] array · 11 items
[0]
99
[1]
Isocitrate dehydrogenase cytoplasmic
[2]
75056526
[3]
IPI00702781.2
[4]
12.1
[5]
5
[6]
0
[7]
0
[8]
14
[9]
6
[10]
2
[100] array · 11 items
[0]
100
[1]
Isocitrate dehydrogenase cytoplasmic
[2]
75832090
[3]
IPI01028293.1
[4]
25.9
[5]
148
[6]
77
[7]
0
[8]
0
[9]
28
[10]
26
[101] array · 11 items
[0]
101
[1]
Kappa-casein
[2]
8099324
[3]
[4]
40.6
[5]
33
[6]
1
[7]
6
[8]
13
[9]
5
[10]
8
[102] array · 11 items
[0]
102
[1]
Kappa-casein
[2]
162807
[3]
[4]
42.4
[5]
42
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[103] array · 11 items
[0]
103
[1]
Kappa-casein
[2]
1705608
[3]
[4]
24.0
[5]
135
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[104] array · 11 items
[0]
104
[1]
Kappa-casein
[2]
284027124
[3]
[4]
17.3
[5]
133
[6]
100
[7]
54
[8]
100
[9]
88
[10]
81
[105] array · 11 items
[0]
105
[1]
Kappa-casein
[2]
315143016
[3]
[4]
36.8
[5]
67
[6]
58
[7]
26
[8]
24
[9]
32
[10]
41
[106] array · 11 items
[0]
106
[1]
Kappa-casein
[2]
428755215
[3]
[4]
13.6
[5]
2
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[107] array · 11 items
[0]
107
[1]
Kappa-casein
[2]
428755219
[3]
[4]
33.3
[5]
66
[6]
99
[7]
100
[8]
100
[9]
99
[10]
100
[108] array · 11 items
[0]
108
[1]
Kappa-casein
[2]
284626
[3]
[4]
58.5
[5]
1
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[109] array · 11 items
[0]
109
[1]
Kappa-casein
[2]
2493514
[3]
[4]
20.5
[5]
10
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[110] array · 11 items
[0]
110
[1]
Kappa-casein
[2]
251198
[3]
[4]
100.0
[5]
1
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[111] array · 11 items
[0]
111
[1]
Kappa-casein
[2]
1594249
[3]
[4]
9.0
[5]
2
[6]
100
[7]
100
[8]
0
[9]
68
[10]
70
[112] array · 11 items
[0]
112
[1]
Kappa-casein A
[2]
229416
[3]
[4]
57.1
[5]
33
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[113] array · 11 items
[0]
113
[1]
Kininogen-1
[2]
125505
[3]
IPI00701166.1
[4]
11.6
[5]
13
[6]
99
[7]
0
[8]
26
[9]
50
[10]
36
[114] array · 11 items
[0]
114
[1]
Kininogen-2
[2]
490
[3]
IPI00718535.1
[4]
10.4
[5]
4
[6]
0
[7]
53
[8]
0
[9]
29
[10]
7
[115] array · 11 items
[0]
115
[1]
Kininogen-2 isoform X1
[2]
528936694
[3]
[4]
14.7
[5]
17
[6]
99
[7]
0
[8]
0
[9]
35
[10]
34
[116] array · 11 items
[0]
116
[1]
Lactadherin
[2]
2494285
[3]
IPI00689035.1
[4]
33.3
[5]
55
[6]
100
[7]
62
[8]
100
[9]
100
[10]
75
[117] array · 11 items
[0]
117
[1]
Lactoperoxidase
[2]
27806851
[3]
IPI00716157.1
[4]
26.1
[5]
144
[6]
36
[7]
0
[8]
36
[9]
23
[10]
25
[118] array · 11 items
[0]
118
[1]
Lactoperoxidase
[2]
16740670
[3]
[4]
5.1
[5]
12
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[119] array · 11 items
[0]
119
[1]
Lactotransferrin
[2]
589925430
[3]
[4]
4.0
[5]
24
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[120] array · 11 items
[0]
120
[1]
Lactotransferrin
[2]
30794292
[3]
IPI00710664.1
[4]
53.1
[5]
134
[6]
98
[7]
0
[8]
0
[9]
35
[10]
33
[121] array · 11 items
[0]
121
[1]
Lethal(3)malignant brain tumor-like protein 4
[2]
505792423
[3]
[4]
2.5
[5]
1
[6]
1
[7]
0
[8]
1
[9]
2
[10]
0
[122] array · 11 items
[0]
122
[1]
Leucine proline-enriched proteoglycan (leprecan) 1
[2]
507937306
[3]
[4]
1.9
[5]
1
[6]
1
[7]
0
[8]
1
[9]
1
[10]
1
[123] array · 11 items
[0]
123
[1]
Lipopolysaccharide-binding protein
[2]
84579853
[3]
IPI00730056.1
[4]
2.3
[5]
5
[6]
2
[7]
0
[8]
0
[9]
1
[10]
1
[124] array · 11 items
[0]
124
[1]
Lipoprotein lipase
[2]
115497164
[3]
IPI00692291.3
[4]
22.0
[5]
152
[6]
100
[7]
99
[8]
100
[9]
100
[10]
99
[125] array · 11 items
[0]
125
[1]
Lymphocyte antigen 96
[2]
114051704
[3]
IPI00689371.2
[4]
6.3
[5]
9
[6]
3
[7]
0
[8]
0
[9]
1
[10]
2
[126] array · 11 items
[0]
126
[1]
Lymphocyte-specific protein 1 isoform X6
[2]
587003867
[3]
[4]
5.8
[5]
4
[6]
3
[7]
0
[8]
0
[9]
1
[10]
2
[127] array · 11 items
[0]
127
[1]
Mammaglobin-A
[2]
155372309
[3]
IPI00711254.1
[4]
14.1
[5]
1
[6]
10
[7]
0
[8]
0
[9]
7
[10]
0
[128] array · 11 items
[0]
128
[1]
Mammary serum amyloid A3.2
[2]
347300329
[3]
IPI01017597.1
[4]
9.2
[5]
11
[6]
17
[7]
1
[8]
0
[9]
0
[10]
13
[129] array · 11 items
[0]
129
[1]
Monocyte differentiation antigen CD14 isoform X1
[2]
528956860
[3]
IPI00686931.2
[4]
22.7
[5]
25
[6]
82
[7]
0
[8]
68
[9]
47
[10]
52
[130] array · 11 items
[0]
130
[1]
Mucin-1
[2]
41386778
[3]
IPI00706283.1
[4]
3.1
[5]
13
[6]
100
[7]
7
[8]
8
[9]
43
[10]
37
[131] array · 11 items
[0]
131
[1]
Mucin-15
[2]
41386723
[3]
IPI00716220.1
[4]
7.3
[5]
10
[6]
99
[7]
100
[8]
94
[9]
97
[10]
98
[132] array · 11 items
[0]
132
[1]
Myristoylated alanine-rich C-kinase substrate
[2]
148872484
[3]
IPI00760436.1
[4]
6.0
[5]
6
[6]
0
[7]
9
[8]
0
[9]
6
[10]
0
[133] array · 11 items
[0]
133
[1]
Neutrophil gelatinase-associated lipocalin isoform X3
[2]
528912092
[3]
IPI00685784.3
[4]
30.5
[5]
11
[6]
28
[7]
95
[8]
74
[9]
65
[10]
66
[134] array · 11 items
[0]
134
[1]
Nucleobindin-1
[2]
115497814
[3]
IPI00722271.2
[4]
28.1
[5]
117
[6]
100
[7]
0
[8]
38
[9]
48
[10]
46
[135] array · 11 items
[0]
135
[1]
Nucleobindin-2
[2]
115496067
[3]
IPI00696729.2
[4]
15.2
[5]
73
[6]
0
[7]
100
[8]
0
[9]
32
[10]
36
[136] array · 11 items
[0]
136
[1]
Olfactory receptor 2S2-like
[2]
724801196
[3]
[4]
2.2
[5]
1
[6]
0
[7]
4
[8]
1
[9]
2
[10]
1
[137] array · 11 items
[0]
137
[1]
Osteopontin isoform X1
[2]
528952550
[3]
IPI00691887.2
[4]
31.7
[5]
71
[6]
99
[7]
100
[8]
100
[9]
99
[10]
100
[138] array · 11 items
[0]
138
[1]
Pancreatic elastase inhibitor
[2]
861514
[3]
[4]
66.7
[5]
1
[6]
10
[7]
0
[8]
0
[9]
1
[10]
6
[139] array · 11 items
[0]
139
[1]
Pancreatic secretory granule membrane major glycoprotein GP2
[2]
341572597
[3]
[4]
23.0
[5]
84
[6]
100
[7]
96
[8]
100
[9]
100
[10]
98
[140] array · 11 items
[0]
140
[1]
Peptidoglycan recognition protein 1
[2]
27808640
[3]
IPI00701640.1
[4]
13.7
[5]
5
[6]
0
[7]
15
[8]
63
[9]
37
[10]
13
[141] array · 11 items
[0]
141
[1]
Peptidyl-prolyl cis-trans isomerase A
[2]
47523764
[3]
IPI00697285.3
[4]
16.5
[5]
101
[6]
6
[7]
2
[8]
8
[9]
4
[10]
6
[142] array · 11 items
[0]
142
[1]
Peptidyl-prolyl cis-trans isomerase B
[2]
555965067
[3]
IPI00702098.4
[4]
6.0
[5]
85
[6]
31
[7]
0
[8]
0
[9]
14
[10]
8
[143] array · 11 items
[0]
143
[1]
Peptidyl-prolyl cis-trans isomerase FKBP1A
[2]
78365305
[3]
IPI00698916.2
[4]
25.0
[5]
98
[6]
7
[7]
0
[8]
0
[9]
2
[10]
2
[144] array · 11 items
[0]
144
[1]
Perilipin-2 isoform X2
[2]
528958213
[3]
IPI01017444.1
[4]
38.0
[5]
96
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[145] array · 11 items
[0]
145
[1]
Platelet glycoprotein 4
[2]
521258696
[3]
IPI00710204.3
[4]
15.5
[5]
106
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[146] array · 11 items
[0]
146
[1]
Polymeric immunoglobulin receptor
[2]
3914346
[3]
IPI00696714.1
[4]
30.0
[5]
28
[6]
100
[7]
0
[8]
100
[9]
68
[10]
64
[147] array · 11 items
[0]
147
[1]
Polymeric immunoglobulin receptor
[2]
296479365
[3]
[4]
23.9
[5]
21
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[148] array · 11 items
[0]
148
[1]
Polyubiquitin
[2]
2627129
[3]
[4]
21.0
[5]
380
[6]
0
[7]
79
[8]
0
[9]
24
[10]
29
[149] array · 11 items
[0]
149
[1]
Prosaposin
[2]
27806447
[3]
IPI00718311.3
[4]
5.0
[5]
54
[6]
25
[7]
0
[8]
0
[9]
11
[10]
6
[150] array · 11 items
[0]
150
[1]
Prostaglandin-H2 D-isomerase
[2]
27807521
[3]
IPI00709683.1
[4]
7.3
[5]
6
[6]
65
[7]
94
[8]
100
[9]
85
[10]
87
[151] array · 11 items
[0]
151
[1]
Protein CREG1
[2]
115495283
[3]
IPI00702458.2
[4]
20.4
[5]
11
[6]
78
[7]
0
[8]
13
[9]
30
[10]
33
[152] array · 11 items
[0]
152
[1]
Protein HP-25 homolog 1
[2]
114050753
[3]
IPI00724799.2
[4]
7.1
[5]
3
[6]
1
[7]
0
[8]
0
[9]
1
[10]
0
[153] array · 11 items
[0]
153
[1]
Protein HP-25 homolog 2
[2]
114052108
[3]
IPI00700655.3
[4]
14.9
[5]
3
[6]
7
[7]
2
[8]
40
[9]
27
[10]
4
[154] array · 11 items
[0]
154
[1]
Protein inturned
[2]
617602241
[3]
[4]
1.3
[5]
1
[6]
1
[7]
0
[8]
0
[9]
1
[10]
0
[155] array · 11 items
[0]
155
[1]
Protein OS-9
[2]
77735409
[3]
IPI00706896.1
[4]
4.5
[5]
2
[6]
5
[7]
0
[8]
1
[9]
2
[10]
2
[156] array · 11 items
[0]
156
[1]
Prothrombin
[2]
135806
[3]
IPI00710799.1
[4]
2.2
[5]
7
[6]
6
[7]
1
[8]
0
[9]
2
[10]
3
[157] array · 11 items
[0]
157
[1]
Ras-related protein Rab-11A
[2]
84000297
[3]
IPI00695221.3
[4]
11.1
[5]
82
[6]
1
[7]
0
[8]
0
[9]
1
[10]
0
[158] array · 11 items
[0]
158
[1]
Ras-related protein Rab-18
[2]
115495023
[3]
IPI00691826.3
[4]
7.3
[5]
123
[6]
3
[7]
0
[8]
0
[9]
1
[10]
2
[159] array · 11 items
[0]
159
[1]
Rhophilin-2-like protein RHPN2P1
[2]
190360225
[3]
[4]
2.4
[5]
2
[6]
0
[7]
1
[8]
0
[9]
1
[10]
0
[160] array · 11 items
[0]
160
[1]
Ribonuclease 4
[2]
32363484
[3]
IPI00697112.1
[4]
9.2
[5]
1
[6]
0
[7]
81
[8]
0
[9]
30
[10]
25
[161] array · 11 items
[0]
161
[1]
Ribonuclease 4
[2]
95006989
[3]
IPI00760446.1
[4]
28.6
[5]
4
[6]
31
[7]
0
[8]
3
[9]
12
[10]
11
[162] array · 11 items
[0]
162
[1]
Ribonuclease pancreatic
[2]
133210
[3]
[4]
10.5
[5]
100
[6]
0
[7]
19
[8]
0
[9]
3
[10]
10
[163] array · 11 items
[0]
163
[1]
Secretoglobin family 1D member
[2]
118150406
[3]
IPI00824879.1
[4]
21.6
[5]
4
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[164] array · 11 items
[0]
164
[1]
Selenium-binding protein 1
[2]
[3]
IPI00718529.1
[4]
1.7
[5]
1
[6]
8
[7]
0
[8]
3
[9]
3
[10]
4
[165] array · 11 items
[0]
165
[1]
Selenoprotein
[2]
148680082
[3]
[4]
13.0
[5]
69
[6]
45
[7]
0
[8]
9
[9]
23
[10]
14
[166] array · 11 items
[0]
166
[1]
Serotransferrin
[2]
2501351
[3]
IPI00690534.1
[4]
45.5
[5]
61
[6]
100
[7]
95
[8]
100
[9]
100
[10]
97
[167] array · 11 items
[0]
167
[1]
Serpin A3-1
[2]
160332365
[3]
IPI00700622.4
[4]
12.9
[5]
32
[6]
100
[7]
0
[8]
77
[9]
67
[10]
51
[168] array · 11 items
[0]
168
[1]
Serum albumin
[2]
1351907
[3]
IPI01028455.1
[4]
65.1
[5]
40
[6]
100
[7]
61
[8]
100
[9]
83
[10]
90
[169] array · 11 items
[0]
169
[1]
Sodium-dependent phosphate transport protein 2B
[2]
27807195
[3]
IPI00703813.1
[4]
5.9
[5]
7
[6]
92
[7]
0
[8]
0
[9]
35
[10]
29
[170] array · 11 items
[0]
170
[1]
Sulfhydryl oxidase 1
[2]
156120795
[3]
IPI00867237.1
[4]
19.1
[5]
11
[6]
98
[7]
27
[8]
97
[9]
75
[10]
72
[171] array · 11 items
[0]
171
[1]
Superoxide dismutase
[2]
134289051
[3]
IPI00847121.1
[4]
11.8
[5]
73
[6]
0
[7]
1
[8]
0
[9]
0
[10]
1
[172] array · 11 items
[0]
172
[1]
Sushi repeat-containing protein SRPX
[2]
507969850
[3]
[4]
3.9
[5]
3
[6]
0
[7]
2
[8]
6
[9]
2
[10]
4
[173] array · 11 items
[0]
173
[1]
Tetranectin
[2]
114051137
[3]
IPI00717369.1
[4]
6.9
[5]
5
[6]
89
[7]
0
[8]
1
[9]
34
[10]
29
[174] array · 11 items
[0]
174
[1]
Transforming protein RhoA
[2]
10835049
[3]
IPI00688998.3
[4]
6.2
[5]
49
[6]
0
[7]
0
[8]
1
[9]
1
[10]
0
[175] array · 11 items
[0]
175
[1]
Transthyretin
[2]
27806789
[3]
IPI00689362.1
[4]
34.7
[5]
24
[6]
0
[7]
91
[8]
77
[9]
59
[10]
50
[176] array · 11 items
[0]
176
[1]
Uncharacterized proteinb (P02666 Beta-casein 71% ident.)
[2]
[3]
IPI00712994.3
[4]
33.5
[5]
5
[6]
18
[7]
0
[8]
0
[9]
7
[10]
6
[177] array · 11 items
[0]
177
[1]
Uncharacterized proteinb (F1MGU7 Fibrinogen gamma-B chain 100% ident.)
[2]
[3]
IPI00843209.1
[4]
17.2
[5]
16
[6]
99
[7]
0
[8]
0
[9]
35
[10]
34
[178] array · 10 items
[0]
178
[1]
Uncharacterized proteinb (A5PK72 Uncharacterized protein 92% ident.)
[2]
IPI01017618.1
[3]
20.6
[4]
10
[5]
42
[6]
0
[7]
0
[8]
10
[9]
20
[179] array · 11 items
[0]
179
[1]
Uncharacterized proteinb (A0A0A0MP92 Serpin A3-7 98% ident.)
[2]
[3]
IPI00971595.1
[4]
21.1
[5]
4
[6]
1
[7]
0
[8]
6
[9]
5
[10]
0
[180] array · 11 items
[0]
180
[1]
Uncharacterized proteinb (Q2HJI6 Granulin 99% ident.)
[2]
[3]
IPI00904166.1
[4]
6.3
[5]
99
[6]
98
[7]
0
[8]
41
[9]
57
[10]
37
[181] array · 11 items
[0]
181
[1]
Uncharacterized proteinb (F1MLW7 Uncharacterized protein 97% ident.)
[2]
[3]
IPI00838162.2
[4]
20.9
[5]
1
[6]
0
[7]
100
[8]
0
[9]
32
[10]
36
[182] array · 11 items
[0]
182
[1]
Uncharacterized protein LOC524810b (A5D7Q2 Uncharacterized protein 100% ident.)
[2]
326937675
[3]
IPI00852509.1
[4]
10.9
[5]
6
[6]
100
[7]
100
[8]
100
[9]
100
[10]
100
[183] array · 11 items
[0]
183
[1]
Vitamin D-binding protein
[2]
78369364
[3]
IPI00823795.1
[4]
8.0
[5]
20
[6]
38
[7]
0
[8]
0
[9]
21
[10]
6
[184] array · 11 items
[0]
184
[1]
Xanthine dehydrogenase/oxidase
[2]
296482686
[3]
[4]
15.6
[5]
16
[6]
0
[7]
100
[8]
0
[9]
32
[10]
36
[185] array · 11 items
[0]
185
[1]
Xanthine dehydrogenase/oxidase
[2]
109940048
[3]
IPI00695367.3
[4]
14.1
[5]
16
[6]
100
[7]
0
[8]
100
[9]
68
[10]
64
[186] array · 11 items
[0]
186
[1]
Zinc-alpha-2-glycoprotein
[2]
77735615
[3]
IPI00698993.1
[4]
11.4
[5]
2
[6]
1
[7]
100
[8]
100
[9]
64
[10]
67
row_count
187
column_count
11
numeric_cells
1852
header_rows
1
locator
section[13]/table-wrap[1]#T1
[3] object · 16 fields
id
asset:table:pmid:26793233:2
role
table
format
jats-table
media_type
application/vnd.jats.table+json
uri
null
sha256
sha256:3b6ddd77b345ef91757e644ed03ee61deb5dc5d9939bb120086bfb69eac7ce55
bytes
5847
access
open
state
verified
reader
read_table
reader_status
available
identifier
section[21]/table-wrap[1]#T2
version
null
note
List of protein accessions identified in the combined protein standards, along with their description, their score, coverage, the number of peptides identified per protein, the number of peptide spectrum matches (PSM), the size of the protein (AA and MW) and their theoretical isoelectric point (calc. pI).
structure object · 5 fields
pmcid
PMC4707256
section_index
21
section_title
Protein validation
row_count
52
column_count
10
table object · 8 fields
label
Table 2
caption
List of protein accessions identified in the combined protein standards, along with their description, their score, coverage, the number of peptides identified per protein, the number of peptide spectrum matches (PSM), the size of the protein (AA and MW) and their theoretical isoelectric point (calc. pI).
rows array · 52 items
[0] array · 10 items
[0]
No.
[1]
Accession
[2]
Description
[3]
Score
[4]
Coverage (%)
[5]
# Peptides
[6]
# PSM
[7]
# AAs
[8]
MW [kDa]
[9]
calc. pI
[1] array · 10 items
[0]
1
[1]
IPI00843089.3
[2]
11 kDa protein
[3]
124.2
[4]
29.0
[5]
2
[6]
2
[7]
107
[8]
11.1
[9]
7.99
[2] array · 10 items
[0]
2
[1]
306440544
[2]
Actin
[3]
746.4
[4]
28.6
[5]
9
[6]
21
[7]
371
[8]
41.3
[9]
5.22
[3] array · 10 items
[0]
3
[1]
74267962
[2]
Albumin ALB protein [Bos taurus]
[3]
1905.6
[4]
51.7
[5]
29
[6]
60
[7]
607
[8]
69.2
[9]
6.25
[4] array · 10 items
[0]
4
[1]
IPI00691212.1
[2]
Alpha-1-acid glycoprotein
[3]
84.3
[4]
15.4
[5]
3
[6]
3
[7]
202
[8]
23.2
[9]
5.87
[5] array · 10 items
[0]
5
[1]
11036998
[2]
Alpha-lactalbumin [Physeter catodon]
[3]
94.0
[4]
12.0
[5]
1
[6]
2
[7]
92
[8]
10.4
[9]
4.59
[6] array · 10 items
[0]
6
[1]
27805979; IPI00717424.1
[2]
Alpha-lactalbumin precursor [Bos taurus]
[3]
858.8
[4]
31.0
[5]
18
[6]
51
[7]
142
[8]
16.2
[9]
5.14
[7] array · 10 items
[0]
7
[1]
528953238
[2]
Alpha-S1-casein isoform X3 [Bos taurus]
[3]
1009.1
[4]
40.8
[5]
8
[6]
37
[7]
206
[8]
23.6
[9]
5.19
[8] array · 10 items
[0]
8
[1]
528953244
[2]
Alpha-S1-casein isoform X6 [Bos taurus]
[3]
639.0
[4]
30.2
[5]
5
[6]
22
[7]
199
[8]
22.6
[9]
4.79
[9] array · 10 items
[0]
9
[1]
528953246
[2]
Alpha-S1-casein isoform X7 [Bos taurus]
[3]
1011.8
[4]
47.5
[5]
8
[6]
37
[7]
177
[8]
20.2
[9]
5.41
[10] array · 10 items
[0]
10
[1]
159793227
[2]
Alpha-S1-casein, partial [Bos taurus]
[3]
154.4
[4]
15.8
[5]
2
[6]
3
[7]
95
[8]
10.9
[9]
4.56
[11] array · 10 items
[0]
11
[1]
27806963; IPI00698843.1
[2]
Alpha-S2-casein precursor [Bos taurus]
[3]
650.6
[4]
38.7
[5]
19
[6]
64
[7]
222
[8]
26.0
[9]
8.43
[12] array · 10 items
[0]
12
[1]
513137422
[2]
Antibody Blv1h12
[3]
221.5
[4]
23.2
[5]
3
[6]
5
[7]
216
[8]
22.5
[9]
6.11
[13] array · 10 items
[0]
13
[1]
114052298; IPI00688815.2
[2]
Apolipoprotein A-II precursor [Bos taurus]
[3]
73.4
[4]
16.0
[5]
2
[6]
2
[7]
100
[8]
11.2
[9]
8.10
[14] array · 10 items
[0]
14
[1]
47564119; IPI00689034.1
[2]
APOLIPOPROTEIN C-III precursor [Bos taurus]
[3]
108.3
[4]
16.7
[5]
2
[6]
4
[7]
96
[8]
10.7
[9]
5.11
[15] array · 10 items
[0]
15
[1]
41386683; IPI00686769.1
[2]
Beta-2-microglobulin precursor [Bos taurus]
[3]
148.9
[4]
18.6
[5]
6
[6]
9
[7]
118
[8]
13.7
[9]
8.00
[16] array · 10 items
[0]
16
[1]
223165
[2]
Beta-lactoglobulin
[3]
736.4
[4]
48.2
[5]
9
[6]
26
[7]
162
[8]
18.3
[9]
4.92
[17] array · 10 items
[0]
17
[1]
87196497; IPI00699698.1
[2]
Beta-lactoglobulin precursor [Bos taurus]
[3]
1112.4
[4]
38.8
[5]
17
[6]
79
[7]
178
[8]
19.9
[9]
5.02
[18] array · 10 items
[0]
18
[1]
593730995
[2]
Beta-lactoglobulin-like [Physeter catodon]
[3]
65.6
[4]
9.4
[5]
2
[6]
2
[7]
180
[8]
20.3
[9]
5.94
[19] array · 10 items
[0]
19
[1]
1351907; IPI01028455.1
[2]
Bovine serum albumin
[3]
3415.0
[4]
69.4
[5]
78
[6]
207
[7]
607
[8]
69.2
[9]
6.18
[20] array · 10 items
[0]
20
[1]
124056491; IPI00713505.2
[2]
Complement C3
[3]
179.6
[4]
4.5
[5]
10
[6]
10
[7]
1661
[8]
187.1
[9]
6.84
[21] array · 10 items
[0]
21
[1]
6980814
[2]
Fibrinogen
[3]
908.6
[4]
32.6
[5]
11
[6]
21
[7]
390
[8]
42.7
[9]
7.97
[22] array · 10 items
[0]
22
[1]
75812954; IPI00691819.1
[2]
Fibrinogen alpha chain precursor [Bos taurus]
[3]
1601.7
[4]
41.1
[5]
40
[6]
80
[7]
615
[8]
67.0
[9]
7.17
[23] array · 10 items
[0]
23
[1]
1346006
[2]
Fibrinogen beta chain
[3]
741.2
[4]
37.6
[5]
13
[6]
20
[7]
468
[8]
53.3
[9]
8.19
[24] array · 10 items
[0]
24
[1]
488508027
[2]
Fibrinogen beta chain isoform 2 [Dasypus novemcinctus]
[3]
126.4
[4]
8.8
[5]
3
[6]
3
[7]
433
[8]
50.0
[9]
7.39
[25] array · 10 items
[0]
25
[1]
229156
[2]
Fibrinopeptide B
[3]
152.4
[4]
71.4
[5]
1
[6]
4
[7]
21
[8]
2.4
[9]
4.44
[26] array · 10 items
[0]
26
[1]
528940100; IPI01028178.1
[2]
Fibronectin isoform X10 [Bos taurus]
[3]
292.9
[4]
5.0
[5]
14
[6]
14
[7]
2268
[8]
249.0
[9]
5.63
[27] array · 10 items
[0]
27
[1]
113912055; IPI00695142.3
[2]
Glycoprotein 2 (zymogen granule membrane) [Bos taurus]
[3]
81.7
[4]
2.8
[5]
2
[6]
2
[7]
534
[8]
59.2
[9]
4.82
[28] array · 10 items
[0]
28
[1]
343197008
[2]
Immunoglobulin lambda light chain IGLC2c [Bos taurus]
[3]
160.6
[4]
42.5
[5]
3
[6]
4
[7]
106
[8]
11.4
[9]
8.59
[29] array · 10 items
[0]
29
[1]
310893435
[2]
Immunoglobulin light chain [Bos taurus]
[3]
118.9
[4]
30.7
[5]
2
[6]
2
[7]
101
[8]
10.4
[9]
6.48
[30] array · 10 items
[0]
30
[1]
1705608
[2]
Kappa-casein
[3]
472.7
[4]
22.4
[5]
4
[6]
25
[7]
192
[8]
21.5
[9]
5.81
[31] array · 10 items
[0]
31
[1]
284626
[2]
Kappa-casein–bovine
[3]
171.6
[4]
24.5
[5]
2
[6]
13
[7]
53
[8]
6.0
[9]
5.11
[32] array · 10 items
[0]
32
[1]
315143016
[2]
Kappa-casein [Bos indicus]
[3]
2183.5
[4]
36.8
[5]
5
[6]
90
[7]
144
[8]
15.9
[9]
6.77
[33] array · 10 items
[0]
33
[1]
284027124
[2]
Kappa-casein [Ovis vignei]
[3]
464.0
[4]
15.4
[5]
4
[6]
32
[7]
162
[8]
18.0
[9]
6.15
[34] array · 10 items
[0]
34
[1]
229416
[2]
Kappa-casein para kappaA
[3]
2020.9
[4]
46.7
[5]
4
[6]
79
[7]
105
[8]
12.3
[9]
8.78
[35] array · 10 items
[0]
35
[1]
162807
[2]
Kappa-casein precursor, partial [Bos taurus]
[3]
589.3
[4]
42.4
[5]
4
[6]
28
[7]
99
[8]
10.6
[9]
5.24
[36] array · 10 items
[0]
36
[1]
146386372
[2]
Kininogen [Oryctolagus cuniculus]
[3]
104.6
[4]
3.6
[5]
1
[6]
3
[7]
302
[8]
33.3
[9]
6.52
[37] array · 10 items
[0]
37
[1]
27806851; IPI00716157.1
[2]
Lactoperoxidase precursor [Bos taurus]
[3]
58.8
[4]
1.5
[5]
2
[6]
2
[7]
712
[8]
80.6
[9]
8.54
[38] array · 10 items
[0]
38
[1]
586476652
[2]
Lactotransferrin [Chrysochloris asiatica]
[3]
233.3
[4]
4.1
[5]
2
[6]
6
[7]
708
[8]
78.0
[9]
8.51
[39] array · 10 items
[0]
39
[1]
30794292; IPI00710664.1
[2]
Lactotransferrin precursor [Bos taurus]
[3]
2949.1
[4]
57.2
[5]
88
[6]
179
[7]
708
[8]
78.0
[9]
8.32
[40] array · 10 items
[0]
40
[1]
528912092; IPI00685784.3
[2]
Neutrophil gelatinase-associated lipocalin isoform X3 [Bos taurus]
[3]
168.8
[4]
16.0
[5]
4
[6]
6
[7]
200
[8]
23.0
[9]
9.17
[41] array · 10 items
[0]
41
[1]
528961411; IPI00866916.1
[2]
Plasminogen isoform X3 [Bos taurus]
[3]
103.2
[4]
4.6
[5]
3
[6]
4
[7]
724
[8]
81.5
[9]
7.96
[42] array · 10 items
[0]
42
[1]
3914346; IPI00696714.1
[2]
Polymeric immunoglobulin receptor
[3]
130.9
[4]
5.9
[5]
5
[6]
5
[7]
757
[8]
82.4
[9]
7.27
[43] array · 10 items
[0]
43
[1]
95006989; IPI00760446.1
[2]
Ribonuclease 4 precursor [Bos taurus]
[3]
122.2
[4]
28.6
[5]
6
[6]
6
[7]
147
[8]
16.9
[9]
8.85
[44] array · 10 items
[0]
44
[1]
118150406; IPI00824879.1
[2]
Secretoglobin family 1D member precursor [Bos taurus]
[3]
83.1
[4]
21.6
[5]
4
[6]
4
[7]
102
[8]
11.3
[9]
8.73
[45] array · 10 items
[0]
45
[1]
2501351; IPI00690534.1
[2]
Serotransferrin
[3]
117.9
[4]
7.7
[5]
6
[6]
6
[7]
704
[8]
77.7
[9]
7.08
[46] array · 10 items
[0]
46
[1]
554537890
[2]
Serotransferrin [Myotis brandtii]
[3]
70.8
[4]
4.1
[5]
2
[6]
2
[7]
713
[8]
77.9
[9]
7.05
[47] array · 10 items
[0]
47
[1]
24119203; IPI00714405.3
[2]
Tropomyosin alpha-3 chain isoform 2 [Homo sapiens]
[3]
51.4
[4]
4.0
[5]
2
[6]
2
[7]
248
[8]
29.0
[9]
4.78
[48] array · 10 items
[0]
48
[1]
999627
[2]
Trypsin
[3]
77.5
[4]
22.0
[5]
2
[6]
3
[7]
82
[8]
8.8
[9]
7.30
[49] array · 10 items
[0]
49
[1]
IPI00843209.1
[2]
Uncharacterized protein
[3]
228.2
[4]
18.7
[5]
7
[6]
7
[7]
443
[8]
50.2
[9]
5.72
[50] array · 10 items
[0]
50
[1]
IPI00712994.3
[2]
Uncharacterized protein
[3]
532.4
[4]
29.2
[5]
6
[6]
23
[7]
161
[8]
18.3
[9]
5.19
[51] array · 10 items
[0]
51
[1]
556760750
[2]
Uncharacterized protein LOC102338350 [Pantholops hodgsonii]
[3]
60.0
[4]
4.1
[5]
1
[6]
4
[7]
245
[8]
28.1
[9]
9.70
row_count
52
column_count
10
numeric_cells
470
header_rows
1
locator
section[21]/table-wrap[1]#T2
gaps array · 2 items
[0]
asset:data:geo:PXD002529 not downloaded
[1]
asset:data:geo:PXD002529 licence not read
analysis object · 4 fields
state
partial
methods array · 1 item
[0] object · 10 fields
id
method-1
family
null
specific
null
label
Partial Least Squares (PLS) analysis
dsl_operations array · 0 items
missing_operations array · 0 items
expressible
null
parameters object · 0 fields
data_shapes array · 0 items
evidence object · 3 fields
score
1
band
verbatim
quote
Partial Least Squares analyses (PLS) were performed on row means using the cow breed as a response, three latent factors, and 50% valid values.
targets array · 0 items
gaps array · 1 item
[0]
method.reader_named_unmapped
capability object · 3 fields
state
complete
requirements array · 1 item
[0] object · 6 fields
capability_id
capability:computational_analysis
label
Computational analysis platform
assay_families array · 9 items
[0]
meta_analysis
[1]
machine_learning
[2]
survival_analysis
[3]
statistical_regression
[4]
pca
[5]
molecular_docking
[6]
network_analysis
[7]
differential_expression
[8]
gwas
availability_state
owned
tier_unlocked
R1
candidate
Automated Assays Laravel application and simulated adapters
gaps array · 0 items
readiness object · 8 fields
state
blocked
tier
R4
blocking_axis
method
blocked_on
method:not_determinable
axes object · 3 fields
method object · 5 fields
tier
R4
expressible
false
required_operations array · 0 items
missing_operations array · 0 items
basis
The reader quoted the method the paper names (Partial Least Squares (PLS) analysis), but the corpus's method extractor could not map it onto a DSL operation, so the method is published but not expressible.
capability object · 4 fields
tier
R1
capability_id
capability:computational_analysis
availability_state
owned
basis
The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here.
data object · 6 fields
tier
R1
reachable
true
accessions array · 1 item
[0]
PXD002529
resolved_accessions array · 1 item
[0]
PXD002529
statements array · 1 item
[0]
The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.
basis
The paper names PXD002529 in ProteomeXchange Consortium via the PRIDE partner repository and the accession resolves in the repository. No dataset was downloaded and no licence was read.
can_run object · 3 fields
dsl_operations array · 0 items
assets array · 4 items
[0]
source:pmid:26793233
[1]
data:geo:PXD002529
[2]
asset:table:pmid:26793233:1
[3]
asset:table:pmid:26793233:2
steps array · 1 item
[0]
run_analysis
must_build object · 5 fields
dsl_operations array · 0 items
converters array · 0 items
readers array · 0 items
capabilities array · 0 items
data_gaps array · 1 item
[0]
data:geo:PXD002529
gaps array · 1 item
[0]
method:not_determinable
review object · 5 fields
state
partial
machine_critique object · 5 fields
kind
extraction_review
reader object · 5 fields
model
MiniMax-M3.1-Flash
provider
minimax
provider_family
minimax
read_at
2026-10-31T18:27:08Z
independence
same_provider
evidence_check object · 2 fields
method
verbatim
availability
verbatim
calls
8
usage object · 3 fields
prompt_tokens
120880
completion_tokens
4032
cached_tokens
1824
human_critique
null
stages array · 1 item
[0] object · 4 fields
id
extraction
state
complete
reader
MiniMax-M3.1-Flash
provider
minimax
gaps array · 3 items
[0]
review.independent_reader
[1]
review.machine_critique
[2]
review.human_critique
execution object · 5 fields
state
absent
status
not_run
mode
null
runs array · 0 items
gaps array · 1 item
[0]
execution.not_run
provenance object · 7 fields
entities array · 3 items
[0] object · 3 fields
id
pmid:26793233
type
paper
label
pmid:26793233
[1] object · 3 fields
id
source:pmid:26793233
type
manuscript
label
PMID 26793233 full text
[2] object · 3 fields
id
data:geo:PXD002529
type
dataset
label
GEO PXD002529
activities array · 3 items
[0] object · 4 fields
id
activity-reading-sci-2026-11-01
type
classification
used array · 3 items
[0] object · 3 fields
id
pmid:26793233
type
paper
label
pmid:26793233
[1] object · 3 fields
id
source:pmid:26793233
type
manuscript
label
PMID 26793233 full text
[2] object · 3 fields
id
data:geo:PXD002529
type
dataset
label
GEO PXD002529
agent
agent:corpus-assay-engine
[1] object · 4 fields
id
activity-read-26793233
type
extraction
used array · 1 item
[0]
source:pmid:26793233
agent
agent:minimax-reader
[2] object · 4 fields
id
activity-resolve-PXD002529
type
accession_resolution
used array · 1 item
[0]
data:geo:PXD002529
agent
agent:corpus-assay-engine
agents array · 2 items
[0] object · 3 fields
id
agent:corpus-assay-engine
type
software
label
Corpus assay engine
[1] object · 3 fields
id
agent:minimax-reader
type
software
label
MiniMax literature reader
source_run_id
reading-sci-2026-11-01
dsl_catalogue_fingerprint
343fb30756ba6ec3
capability_table_fingerprint
2cb3e42f047d2ecf
snapshot_id
ba34b49490d9bfaf
lineage object · 4 fields
parent_id
pmid:26793233
parent_hash
sha256:65ee7b02cc5d0f5d246d7aa72803aaf17d6a18886bc9183e3d265db2464fd236
fork_of
null
generation
3
gaps array · 7 items
[0]
asset:data:geo:PXD002529 licence not read
[1]
asset:data:geo:PXD002529 not downloaded
[2]
execution.not_run
[3]
method.reader_named_unmapped
[4]
review.human_critique
[5]
review.independent_reader
[6]
review.machine_critique
assays array · 1 item
[0] object · 11 fields
role
data_generation
definition_id
mass_spectrometry
definition_version
99e1195c7d6f
definition_digest
null
required_operations array · 0 items
support_state
partial
source_hashes object · 1 field
assay_lexicon
99e1195c7d6f
confidence
0.99
evidence array · 4 items
[0]
Milk Bottom-Up Proteomics: Method Optimization.
[1]
d by nanoHPLC-electrospray ionization-tandem mass spectrometry (nLC-ESI-MS/MS) analyses were performed to a
[2]
stion, injection) to assess reproducibility. Mass spectrometry (MS) data are available via ProteomeXchange
[3]
ray ionization-tandem mass spectrometry (nLC-ESI-MS/MS) analyses were performed to assess their
order_basis
paper_text_order:0
id
assay:1
Complete file 
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:26793233", "kind": "science-record", "revision": 4, "content_hash": "sha256:7e6d5bd77bdfd82e6b9bde77a60a047412f2c1090a629253b648a00f2257e0d2", "created_at": "2026-11-01T15:40:15Z", "updated_at": "2026-11-01T21:20:23Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Milk Bottom-Up Proteomics: Method Optimization.", "doi": "10.3389/fgene.2015.00360", "pmid": "26793233", "authors": ["Delphine Vincent", "Vilnis Ezernieks", "Aaron Elkins", "Nga Nguyen", "Peter J Moate", "Benjamin G Cocks", "Simone Rochfort"], "journal": "Frontiers in genetics", "year": 2015, "abstract": "Milk is a complex fluid whose proteome displays a diverse set of proteins of high abundance such as caseins and medium to low abundance whey proteins such as ß-lactoglobulin, lactoferrin, immunoglobulins, glycoproteins, peptide hormones, and enzymes. A sample preparation method that enables high reproducibility and throughput is key in reliably identifying proteins present or proteins responding to conditions such as a diet, health or genetics. Using skim milk samples from Jersey and Holstein-Friesian cows, we compared three extraction procedures which have not previously been applied to samples of cows' milk. Method A (urea) involved a simple dilution of the milk in a urea-based buffer, method B (TCA/acetone) involved a trichloroacetic acid (TCA)/acetone precipitation, and method C (methanol/chloroform) involved a tri-phasic partition method in chloroform/methanol solution. Protein assays, SDS-PAGE profiling, and trypsin digestion followed by nanoHPLC-electrospray ionization-tandem mass spectrometry (nLC-ESI-MS/MS) analyses were performed to assess their efficiency. Replicates were used at each analytical step (extraction, digestion, injection) to assess reproducibility. Mass spectrometry (MS) data are available via ProteomeXchange with identifier PXD002529. Overall 186 unique accessions, major and minor proteins, were identified with a combination of methods. Method C (methanol/chloroform) yielded the best resolved SDS-patterns and highest protein recovery rates, method A (urea) yielded the greatest number of accessions, and, of the three procedures, method B (TCA/acetone) was the least compatible of all with a wide range of downstream analytical procedures. Our results also highlighted breed differences between the proteins in milk of Jersey and Holstein-Friesian cows.", "claims": [{"id": "claim-method", "statement": "Partial Least Squares analyses (PLS) were performed on row means using the cow breed as a response, three latent factors, and 50% valid values.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26793233", "locator": "sections[14] \"Statistical analyses\" paragraph 3", "quote": "Partial Least Squares analyses (PLS) were performed on row means using the cow breed as a response, three latent factors, and 50% valid values."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26793233", "locator": "sections[13] \"Database search for protein identification\" paragraph 4", "quote": "The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Using statistical analyses of nLC-ESI-MS/MS data deposited in ProteomeXchange under PXD002529, the study identified 186 unique protein accessions across the combined methods, with urea providing the greatest coverage, methanol/chloroform the best recovery and SDS-PAGE resolution, and TCA/acetone the least suitable downstream performance.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:26793233", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Overall 186 unique accessions, major and minor proteins, were identified with a combination of methods."}, {"asset": "source:pmid:26793233", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Mass spectrometry (MS) data are available via ProteomeXchange with identifier PXD002529."}, {"asset": "source:pmid:26793233", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Method C (methanol/chloroform) yielded the best resolved SDS-patterns and highest protein recovery rates, method A (urea) yielded the greatest number of accessions, and, of the three procedures, method B (TCA/acetone) was the least compatible of all with a wide range of downstream analytical procedures."}, {"asset": "source:pmid:26793233", "locator": "sections[1] \"Introduction\" paragraph 5", "quote": "Statistical analyses and gene ontology (GO) classification were employed to further highlight commonalities and differences between the three extraction methods."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Using statistical analyses of nLC-ESI-MS/MS data deposited in ProteomeXchange under PXD002529, the study identified 186 unique protein accessions across the combined methods, with urea providing the greatest coverage, methanol/chloroform the best recovery and SDS-PAGE resolution, and TCA/acetone the least suitable downstream performance.", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:26793233"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:PXD002529"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:PXD002529"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:26793233", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fgene.2015.00360", "sha256": "sha256:68cbc25f6513028c626a9ae3b1873c5247960bc6ecfa3beea30adb25749957de", "bytes": 62299, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fgene.2015.00360", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC4707256", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:PXD002529", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=PXD002529", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "PXD002529", "version": null, "note": "The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (Vizcaíno et al., 2014) via the PRIDE partner repository with the dataset identifier PXD002529.", "access_statement_kind": "data_availability_statement", "sample_accessions": [], "sample_count": null, "group_sizes": null, "group_sizes_basis": null, "platform": null, "taxon": null, "title": "Milk bottom-up proteomics: method optimisation.", "resolution_checked_at": "2026-10-31T18:35:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "asset:table:pmid:26793233:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:b91d760b04635338da2fb86d81003d595a78e13e744d46db38d6ccfad788706a", "bytes": 17969, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[1]#T1", "version": null, "note": "List of protein accessions identified in the different milk extracts, along with their description, their coverage (percentage of the database protein sequence covered by matching peptides) across samples, the number of unique peptides (distinct peptide that match to a single protein entry within the search database), the occurrence (%) in the three methods and the two breeds.", "structure": {"pmcid": "PMC4707256", "section_index": 13, "section_title": "Database search for protein identification", "row_count": 187, "column_count": 11}, "table": {"label": "Table 1", "caption": "List of protein accessions identified in the different milk extracts, along with their description, their coverage (percentage of the database protein sequence covered by matching peptides) across samples, the number of unique peptides (distinct peptide that match to a single protein entry within the search database), the occurrence (%) in the three methods and the two breeds.", "rows": [["No", "Description", "gi Accession", "IPI accession", "Σcoverage (%)", "Σ# Unique Peptides", "Occurrencea in method A (%)", "Occurrencea in method B (%)", "Occurrencea in method C (%)", "Occurrencea in breed H (%)", "Occurrencea in breed J (%)"], ["1", "11 kDa protein", "", "IPI00843089.3", "52.3", "22", "100", "100", "100", "100", "100"], ["2", "Actin 1", "4501885", "IPI00698900.1", "16.5", "520", "72", "67", "40", "47", "73"], ["3", "Alpha-1-acid glycoprotein", "94966811", "IPI00691212.1", "33.7", "10", "97", "100", "27", "77", "75"], ["4", "Alpha-1-antiproteinase", "27806941", "IPI00695489.1", "24.5", "10", "97", "94", "85", "98", "87"], ["5", "Alpha-1B-glycoprotein", "114053019", "IPI00692686.1", "13.3", "6", "9", "39", "35", "41", "13"], ["6", "Alpha-2-HS-glycoprotein", "27806751", "IPI00707101.1", "19.2", "8", "86", "74", "65", "90", "62"], ["7", "Alpha-lactabumin", "119393699", "", "30.8", "3", "95", "0", "55", "50", "51"], ["8", "Alpha-lactalbumin", "505782142", "", "9.9", "1", "7", "0", "0", "5", "0"], ["9", "Alpha-lactalbumin", "11036986", "", "18.1", "2", "100", "100", "100", "100", "100"], ["10", "Alpha-lactalbumin", "27805979", "IPI00717424.1", "31.0", "53", "55", "0", "0", "18", "21"], ["11", "Alpha-lactalbumin-like isoform X3", "585153938", "", "12.3", "3", "100", "0", "0", "36", "34"], ["12", "Alpha-S1-casein", "159793227", "", "15.8", "1", "100", "100", "100", "100", "100"], ["13", "Alpha-S1-casein", "299676", "", "64.7", "1", "0", "1", "0", "0", "1"], ["14", "Alpha-S1-casein", "162650", "", "14.0", "1", "22", "12", "17", "22", "11"], ["15", "Alpha-S1-casein isoform X2", "528953236", "", "41.3", "47", "100", "100", "100", "100", "100"], ["16", "Alpha-S1-casein isoform X3", "528953238", "", "42.2", "47", "100", "100", "100", "100", "100"], ["17", "Alpha-S1-casein isoform X6", "528953244", "", "30.2", "5", "100", "100", "100", "100", "100"], ["18", "Alpha-S1-casein isoform X7", "528953246", "", "49.2", "47", "100", "100", "100", "100", "100"], ["19", "Alpha-S2-casein", "27806963", "IPI00698843.1", "59.5", "29", "0", "4", "10", "5", "4"], ["20", "Alpha-S2-casein", "147744646", "", "24.1", "1", "100", "100", "100", "100", "100"], ["21", "Angiogenin-1", "118151356", "IPI00726982.1", "31.8", "5", "76", "39", "74", "69", "57"], ["22", "Antibody Blv5b8", "513137425", "", "9.5", "5", "51", "6", "35", "41", "21"], ["23", "Anti-hiv llama vhh antibody a12", "380258837", "", "6.3", "1", "0", "0", "1", "0", "1"], ["24", "Apolipoprotein A-I preproprotein", "75832056", "IPI00715548.1", "38.1", "56", "99", "0", "99", "67", "63"], ["25", "Apolipoprotein A-II", "114052298", "IPI00688815.2", "16.0", "5", "25", "0", "0", "14", "3"], ["26", "Apolipoprotein A-IV", "82697389", "IPI00695965.1", "18.7", "19", "36", 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["85", "Ig lambda light chain constant region 3 allotypic variant IGLC3c", "343197026", "", "52.8", "3", "100", "100", "100", "100", "100"], ["86", "Ig lambda-1 variable region", "42759882", "", "13.9", "2", "0", "0", "19", "1", "11"], ["87", "Ig lambda-like polypeptide 1-like", "", "IPI01002118.1", "23.3", "8", "100", "0", "100", "68", "64"], ["88", "Ig light chain", "310893433", "", "16.7", "3", "91", "62", "77", "80", "74"], ["89", "Ig light chain", "310893435", "", "61.4", "16", "100", "0", "100", "68", "64"], ["90", "Ig light chain variable region", "5802436", "", "11.5", "1", "100", "100", "100", "100", "100"], ["91", "Ig light chain variable region", "2323400", "", "41.8", "12", "0", "4", "3", "4", "0"], ["92", "Ig light chain variable region", "482673169", "", "9.4", "15", "16", "6", "0", "10", "6"], ["93", "Ig light chain, lambda gene cluster", "92096965", "IPI00867205.1", "20.1", "1", "0", "100", "0", "32", "36"], ["94", "IgG1 heavy chain constant region", "7547266", "", "16.4", "9", "98", "95", "99", "98", "97"], ["95", "IgG2a heavy chain constant region", "1699167", "", "12.9", "2", "48", "5", "45", "42", "23"], ["96", "IGK protein", "115545495", "IPI00724838.2", "10.0", "10", "0", "2", "99", "34", "29"], ["97", "IgM heavy chain constant region", "2232299", "", "22.7", "53", "100", "100", "100", "100", "100"], ["98", "Inhibitor of carbonic anhydrase-like", "470655576", "", "5.2", "7", "0", "6", "0", "3", "1"], ["99", "Isocitrate dehydrogenase cytoplasmic", "75056526", "IPI00702781.2", "12.1", "5", "0", "0", "14", "6", "2"], ["100", "Isocitrate dehydrogenase cytoplasmic", "75832090", "IPI01028293.1", "25.9", "148", "77", "0", "0", "28", "26"], ["101", "Kappa-casein", "8099324", "", "40.6", "33", "1", "6", "13", "5", "8"], ["102", "Kappa-casein", "162807", "", "42.4", "42", "100", "100", "100", "100", "100"], ["103", "Kappa-casein", "1705608", "", "24.0", "135", "100", "100", "100", "100", "100"], ["104", "Kappa-casein", "284027124", "", "17.3", "133", "100", "54", "100", "88", "81"], ["105", "Kappa-casein", "315143016", "", "36.8", "67", "58", "26", "24", "32", "41"], ["106", "Kappa-casein", "428755215", "", "13.6", "2", "100", "100", "100", "100", "100"], ["107", "Kappa-casein", "428755219", "", "33.3", "66", "99", "100", "100", "99", "100"], ["108", "Kappa-casein", "284626", "", "58.5", "1", "100", "100", "100", "100", "100"], ["109", "Kappa-casein", "2493514", "", "20.5", "10", "100", "100", "100", "100", "100"], ["110", "Kappa-casein", "251198", "", "100.0", "1", "100", "100", "100", "100", "100"], ["111", "Kappa-casein", "1594249", "", "9.0", "2", "100", "100", "0", "68", "70"], ["112", "Kappa-casein A", "229416", "", "57.1", "33", "100", "100", "100", "100", "100"], ["113", "Kininogen-1", "125505", "IPI00701166.1", "11.6", "13", "99", "0", "26", "50", "36"], ["114", "Kininogen-2", "490", "IPI00718535.1", "10.4", "4", "0", "53", "0", "29", "7"], ["115", "Kininogen-2 isoform X1", "528936694", "", "14.7", "17", "99", "0", "0", "35", "34"], ["116", "Lactadherin", "2494285", "IPI00689035.1", "33.3", "55", "100", "62", "100", "100", "75"], ["117", "Lactoperoxidase", "27806851", "IPI00716157.1", "26.1", "144", "36", "0", "36", "23", "25"], ["118", "Lactoperoxidase", "16740670", "", "5.1", "12", "100", "100", "100", "100", "100"], ["119", "Lactotransferrin", "589925430", "", "4.0", "24", "100", "100", "100", "100", "100"], ["120", "Lactotransferrin", "30794292", "IPI00710664.1", "53.1", "134", "98", "0", "0", "35", "33"], ["121", "Lethal(3)malignant brain tumor-like protein 4", "505792423", "", "2.5", "1", "1", "0", "1", "2", "0"], ["122", "Leucine proline-enriched proteoglycan (leprecan) 1", "507937306", "", "1.9", "1", "1", "0", "1", "1", "1"], ["123", "Lipopolysaccharide-binding protein", "84579853", "IPI00730056.1", "2.3", "5", "2", "0", "0", "1", "1"], ["124", "Lipoprotein lipase", "115497164", "IPI00692291.3", "22.0", "152", "100", "99", "100", "100", "99"], ["125", "Lymphocyte antigen 96", "114051704", "IPI00689371.2", "6.3", "9", "3", "0", "0", "1", "2"], ["126", "Lymphocyte-specific protein 1 isoform X6", "587003867", "", "5.8", "4", "3", "0", "0", "1", "2"], ["127", "Mammaglobin-A", "155372309", "IPI00711254.1", "14.1", "1", "10", "0", "0", "7", "0"], ["128", "Mammary serum amyloid A3.2", "347300329", "IPI01017597.1", "9.2", "11", "17", "1", "0", "0", "13"], ["129", "Monocyte differentiation antigen CD14 isoform X1", "528956860", "IPI00686931.2", "22.7", "25", "82", "0", "68", "47", "52"], ["130", "Mucin-1", "41386778", "IPI00706283.1", "3.1", "13", "100", "7", "8", "43", "37"], ["131", "Mucin-15", "41386723", "IPI00716220.1", "7.3", "10", "99", "100", "94", "97", "98"], ["132", "Myristoylated alanine-rich C-kinase substrate", "148872484", "IPI00760436.1", "6.0", "6", "0", "9", "0", "6", "0"], ["133", "Neutrophil gelatinase-associated lipocalin isoform X3", "528912092", "IPI00685784.3", "30.5", "11", "28", "95", "74", "65", "66"], ["134", "Nucleobindin-1", "115497814", "IPI00722271.2", "28.1", "117", "100", "0", "38", "48", "46"], ["135", "Nucleobindin-2", "115496067", "IPI00696729.2", "15.2", "73", "0", "100", "0", "32", "36"], ["136", "Olfactory receptor 2S2-like", "724801196", "", "2.2", "1", "0", "4", "1", "2", "1"], ["137", "Osteopontin isoform X1", "528952550", "IPI00691887.2", "31.7", "71", "99", "100", "100", "99", "100"], ["138", "Pancreatic elastase inhibitor", "861514", "", "66.7", "1", "10", "0", "0", "1", "6"], ["139", "Pancreatic secretory granule membrane major glycoprotein GP2", "341572597", "", "23.0", "84", "100", "96", "100", "100", "98"], ["140", "Peptidoglycan recognition protein 1", "27808640", "IPI00701640.1", "13.7", "5", "0", "15", "63", "37", "13"], ["141", "Peptidyl-prolyl cis-trans isomerase A", "47523764", "IPI00697285.3", "16.5", "101", "6", "2", "8", "4", "6"], ["142", "Peptidyl-prolyl cis-trans isomerase B", "555965067", "IPI00702098.4", "6.0", "85", "31", "0", "0", "14", "8"], ["143", "Peptidyl-prolyl cis-trans isomerase FKBP1A", "78365305", "IPI00698916.2", "25.0", "98", "7", "0", "0", "2", "2"], ["144", "Perilipin-2 isoform X2", "528958213", "IPI01017444.1", "38.0", "96", "100", "100", "100", "100", "100"], ["145", "Platelet glycoprotein 4", "521258696", "IPI00710204.3", "15.5", "106", "100", "100", "100", "100", "100"], ["146", "Polymeric immunoglobulin receptor", "3914346", "IPI00696714.1", "30.0", "28", "100", "0", "100", "68", "64"], ["147", "Polymeric immunoglobulin receptor", "296479365", "", "23.9", "21", "100", "100", "100", "100", "100"], ["148", "Polyubiquitin", "2627129", "", "21.0", "380", "0", "79", "0", "24", "29"], ["149", "Prosaposin", "27806447", "IPI00718311.3", "5.0", "54", "25", "0", "0", "11", "6"], ["150", "Prostaglandin-H2 D-isomerase", "27807521", "IPI00709683.1", "7.3", "6", "65", "94", "100", "85", "87"], ["151", "Protein CREG1", "115495283", "IPI00702458.2", "20.4", "11", "78", "0", "13", "30", "33"], ["152", "Protein HP-25 homolog 1", "114050753", "IPI00724799.2", "7.1", "3", "1", "0", "0", "1", "0"], ["153", "Protein HP-25 homolog 2", "114052108", "IPI00700655.3", "14.9", "3", "7", "2", "40", "27", "4"], ["154", "Protein inturned", "617602241", "", "1.3", "1", "1", "0", "0", "1", "0"], ["155", "Protein OS-9", "77735409", "IPI00706896.1", "4.5", "2", "5", "0", "1", "2", "2"], ["156", "Prothrombin", "135806", "IPI00710799.1", "2.2", "7", "6", "1", "0", "2", "3"], ["157", "Ras-related protein Rab-11A", "84000297", "IPI00695221.3", "11.1", "82", "1", "0", "0", "1", "0"], ["158", "Ras-related protein Rab-18", "115495023", "IPI00691826.3", "7.3", "123", "3", "0", "0", "1", "2"], ["159", "Rhophilin-2-like protein RHPN2P1", "190360225", "", "2.4", "2", "0", "1", "0", "1", "0"], ["160", "Ribonuclease 4", "32363484", "IPI00697112.1", "9.2", "1", "0", "81", "0", "30", "25"], ["161", "Ribonuclease 4", "95006989", "IPI00760446.1", "28.6", "4", "31", "0", "3", "12", "11"], ["162", "Ribonuclease pancreatic", "133210", "", "10.5", "100", "0", "19", "0", "3", "10"], ["163", "Secretoglobin family 1D member", "118150406", "IPI00824879.1", "21.6", "4", "100", "100", "100", "100", "100"], ["164", "Selenium-binding protein 1", "", "IPI00718529.1", "1.7", "1", "8", "0", "3", "3", "4"], ["165", "Selenoprotein", "148680082", "", "13.0", "69", "45", "0", "9", "23", "14"], ["166", "Serotransferrin", "2501351", "IPI00690534.1", "45.5", "61", "100", "95", "100", "100", "97"], ["167", "Serpin A3-1", "160332365", "IPI00700622.4", "12.9", "32", "100", "0", "77", "67", "51"], ["168", "Serum albumin", "1351907", "IPI01028455.1", "65.1", "40", "100", "61", "100", "83", "90"], ["169", "Sodium-dependent phosphate transport protein 2B", "27807195", "IPI00703813.1", "5.9", "7", "92", "0", "0", "35", "29"], ["170", "Sulfhydryl oxidase 1", "156120795", "IPI00867237.1", "19.1", "11", "98", "27", "97", "75", "72"], ["171", "Superoxide dismutase", "134289051", "IPI00847121.1", "11.8", "73", "0", "1", "0", "0", "1"], ["172", "Sushi repeat-containing protein SRPX", "507969850", "", "3.9", "3", "0", "2", "6", "2", "4"], ["173", "Tetranectin", "114051137", "IPI00717369.1", "6.9", "5", "89", "0", "1", "34", "29"], ["174", "Transforming protein RhoA", "10835049", "IPI00688998.3", "6.2", "49", "0", "0", "1", "1", "0"], ["175", "Transthyretin", "27806789", "IPI00689362.1", "34.7", "24", "0", "91", "77", "59", "50"], ["176", "Uncharacterized proteinb (P02666 Beta-casein 71% ident.)", "", "IPI00712994.3", "33.5", "5", "18", "0", "0", "7", "6"], ["177", "Uncharacterized proteinb (F1MGU7 Fibrinogen gamma-B chain 100% ident.)", "", "IPI00843209.1", "17.2", "16", "99", "0", "0", "35", "34"], ["178", "Uncharacterized proteinb (A5PK72 Uncharacterized protein 92% ident.)", "IPI01017618.1", "20.6", "10", "42", "0", "0", "10", "20"], ["179", "Uncharacterized proteinb (A0A0A0MP92 Serpin A3-7 98% ident.)", "", "IPI00971595.1", "21.1", "4", "1", "0", "6", "5", "0"], ["180", "Uncharacterized proteinb (Q2HJI6 Granulin 99% ident.)", "", "IPI00904166.1", "6.3", "99", "98", "0", "41", "57", "37"], ["181", "Uncharacterized proteinb (F1MLW7 Uncharacterized protein 97% ident.)", "", "IPI00838162.2", "20.9", "1", "0", "100", "0", "32", "36"], ["182", "Uncharacterized protein LOC524810b (A5D7Q2 Uncharacterized protein 100% ident.)", "326937675", "IPI00852509.1", "10.9", "6", "100", "100", "100", "100", "100"], ["183", "Vitamin D-binding protein", "78369364", "IPI00823795.1", "8.0", "20", "38", "0", "0", "21", "6"], ["184", "Xanthine dehydrogenase/oxidase", "296482686", "", "15.6", "16", "0", "100", "0", "32", "36"], ["185", "Xanthine dehydrogenase/oxidase", "109940048", "IPI00695367.3", "14.1", "16", "100", "0", "100", "68", "64"], ["186", "Zinc-alpha-2-glycoprotein", "77735615", "IPI00698993.1", "11.4", "2", "1", "100", "100", "64", "67"]], "row_count": 187, "column_count": 11, "numeric_cells": 1852, "header_rows": 1, "locator": "section[13]/table-wrap[1]#T1"}}, {"id": "asset:table:pmid:26793233:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:3b6ddd77b345ef91757e644ed03ee61deb5dc5d9939bb120086bfb69eac7ce55", "bytes": 5847, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[21]/table-wrap[1]#T2", "version": null, "note": "List of protein accessions identified in the combined protein standards, along with their description, their score, coverage, the number of peptides identified per protein, the number of peptide spectrum matches (PSM), the size of the protein (AA and MW) and their theoretical isoelectric point (calc. pI).", "structure": {"pmcid": "PMC4707256", "section_index": 21, "section_title": "Protein validation", "row_count": 52, "column_count": 10}, "table": {"label": "Table 2", "caption": "List of protein accessions identified in the combined protein standards, along with their description, their score, coverage, the number of peptides identified per protein, the number of peptide spectrum matches (PSM), the size of the protein (AA and MW) and their theoretical isoelectric point (calc. pI).", "rows": [["No.", "Accession", "Description", "Score", "Coverage (%)", "# Peptides", "# PSM", "# AAs", "MW [kDa]", "calc. pI"], ["1", "IPI00843089.3", "11 kDa protein", "124.2", "29.0", "2", "2", "107", "11.1", "7.99"], ["2", "306440544", "Actin", "746.4", "28.6", "9", "21", "371", "41.3", "5.22"], ["3", "74267962", "Albumin ALB protein [Bos taurus]", "1905.6", "51.7", "29", "60", "607", "69.2", "6.25"], ["4", "IPI00691212.1", "Alpha-1-acid glycoprotein", "84.3", "15.4", "3", "3", "202", "23.2", "5.87"], ["5", "11036998", "Alpha-lactalbumin [Physeter catodon]", "94.0", "12.0", "1", "2", "92", "10.4", "4.59"], ["6", "27805979; IPI00717424.1", "Alpha-lactalbumin precursor [Bos taurus]", "858.8", "31.0", "18", "51", "142", "16.2", "5.14"], ["7", "528953238", "Alpha-S1-casein isoform X3 [Bos taurus]", "1009.1", "40.8", "8", "37", "206", "23.6", "5.19"], ["8", "528953244", "Alpha-S1-casein isoform X6 [Bos taurus]", "639.0", "30.2", "5", "22", "199", "22.6", "4.79"], ["9", "528953246", "Alpha-S1-casein isoform X7 [Bos taurus]", "1011.8", "47.5", "8", "37", "177", "20.2", "5.41"], ["10", "159793227", "Alpha-S1-casein, partial [Bos taurus]", "154.4", "15.8", "2", "3", "95", "10.9", "4.56"], ["11", "27806963; IPI00698843.1", "Alpha-S2-casein precursor [Bos taurus]", "650.6", "38.7", "19", "64", "222", "26.0", "8.43"], ["12", "513137422", "Antibody Blv1h12", "221.5", "23.2", "3", "5", "216", "22.5", "6.11"], ["13", "114052298; IPI00688815.2", "Apolipoprotein A-II precursor [Bos taurus]", "73.4", "16.0", "2", "2", "100", "11.2", "8.10"], ["14", "47564119; IPI00689034.1", "APOLIPOPROTEIN C-III precursor [Bos taurus]", "108.3", "16.7", "2", "4", "96", "10.7", "5.11"], ["15", "41386683; IPI00686769.1", "Beta-2-microglobulin precursor [Bos taurus]", "148.9", "18.6", "6", "9", "118", "13.7", "8.00"], ["16", "223165", "Beta-lactoglobulin", "736.4", "48.2", "9", "26", "162", "18.3", "4.92"], ["17", "87196497; IPI00699698.1", "Beta-lactoglobulin precursor [Bos taurus]", "1112.4", "38.8", "17", "79", "178", "19.9", "5.02"], ["18", "593730995", "Beta-lactoglobulin-like [Physeter catodon]", "65.6", "9.4", "2", "2", "180", "20.3", "5.94"], ["19", "1351907; IPI01028455.1", "Bovine serum albumin", "3415.0", "69.4", "78", "207", "607", "69.2", "6.18"], ["20", "124056491; IPI00713505.2", "Complement C3", "179.6", "4.5", "10", "10", "1661", "187.1", "6.84"], ["21", "6980814", "Fibrinogen", "908.6", "32.6", "11", "21", "390", "42.7", "7.97"], ["22", "75812954; IPI00691819.1", "Fibrinogen alpha chain precursor [Bos taurus]", "1601.7", "41.1", "40", "80", "615", "67.0", "7.17"], ["23", "1346006", "Fibrinogen beta chain", "741.2", "37.6", "13", "20", "468", "53.3", "8.19"], ["24", "488508027", "Fibrinogen beta chain isoform 2 [Dasypus novemcinctus]", "126.4", "8.8", "3", "3", "433", "50.0", "7.39"], ["25", "229156", "Fibrinopeptide B", "152.4", "71.4", "1", "4", "21", "2.4", "4.44"], ["26", "528940100; IPI01028178.1", "Fibronectin isoform X10 [Bos taurus]", "292.9", "5.0", "14", "14", "2268", "249.0", "5.63"], ["27", "113912055; IPI00695142.3", "Glycoprotein 2 (zymogen granule membrane) [Bos taurus]", "81.7", "2.8", "2", "2", "534", "59.2", "4.82"], ["28", "343197008", "Immunoglobulin lambda light chain IGLC2c [Bos taurus]", "160.6", "42.5", "3", "4", "106", "11.4", "8.59"], ["29", "310893435", "Immunoglobulin light chain [Bos taurus]", "118.9", "30.7", "2", "2", "101", "10.4", "6.48"], ["30", "1705608", "Kappa-casein", "472.7", "22.4", "4", "25", "192", "21.5", "5.81"], ["31", "284626", "Kappa-casein–bovine", "171.6", "24.5", "2", "13", "53", "6.0", "5.11"], ["32", "315143016", "Kappa-casein [Bos indicus]", "2183.5", "36.8", "5", "90", "144", "15.9", "6.77"], ["33", "284027124", "Kappa-casein [Ovis vignei]", "464.0", "15.4", "4", "32", "162", "18.0", "6.15"], ["34", "229416", "Kappa-casein para kappaA", "2020.9", "46.7", "4", "79", "105", "12.3", "8.78"], ["35", "162807", "Kappa-casein precursor, partial [Bos taurus]", "589.3", "42.4", "4", "28", "99", "10.6", "5.24"], ["36", "146386372", "Kininogen [Oryctolagus cuniculus]", "104.6", "3.6", "1", "3", "302", "33.3", "6.52"], ["37", "27806851; IPI00716157.1", "Lactoperoxidase precursor [Bos taurus]", "58.8", "1.5", "2", "2", "712", "80.6", "8.54"], ["38", "586476652", "Lactotransferrin [Chrysochloris asiatica]", "233.3", "4.1", "2", "6", "708", "78.0", "8.51"], ["39", "30794292; IPI00710664.1", "Lactotransferrin precursor [Bos taurus]", "2949.1", "57.2", "88", "179", "708", "78.0", "8.32"], ["40", "528912092; IPI00685784.3", "Neutrophil gelatinase-associated lipocalin isoform X3 [Bos taurus]", "168.8", "16.0", "4", "6", "200", "23.0", "9.17"], ["41", "528961411; IPI00866916.1", "Plasminogen isoform X3 [Bos taurus]", "103.2", "4.6", "3", "4", "724", "81.5", "7.96"], ["42", "3914346; IPI00696714.1", "Polymeric immunoglobulin receptor", "130.9", "5.9", "5", "5", "757", "82.4", "7.27"], ["43", "95006989; IPI00760446.1", "Ribonuclease 4 precursor [Bos taurus]", "122.2", "28.6", "6", "6", "147", "16.9", "8.85"], ["44", "118150406; IPI00824879.1", "Secretoglobin family 1D member precursor [Bos taurus]", "83.1", "21.6", "4", "4", "102", "11.3", "8.73"], ["45", "2501351; IPI00690534.1", "Serotransferrin", "117.9", "7.7", "6", "6", "704", "77.7", "7.08"], ["46", "554537890", "Serotransferrin [Myotis brandtii]", "70.8", "4.1", "2", "2", "713", "77.9", "7.05"], ["47", "24119203; IPI00714405.3", "Tropomyosin alpha-3 chain isoform 2 [Homo sapiens]", "51.4", "4.0", "2", "2", "248", "29.0", "4.78"], ["48", "999627", "Trypsin", "77.5", "22.0", "2", "3", "82", "8.8", "7.30"], ["49", "IPI00843209.1", "Uncharacterized protein", "228.2", "18.7", "7", "7", "443", "50.2", "5.72"], ["50", "IPI00712994.3", "Uncharacterized protein", "532.4", "29.2", "6", "23", "161", "18.3", "5.19"], ["51", "556760750", "Uncharacterized protein LOC102338350 [Pantholops 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