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Please include the following statement when referencing the CPTAC Assay Portal
We would like to acknowledge the National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC) Assay Portal (assays.cancer.gov) for developing assays and establishing criteria for the assays described in this publication.

Apcs

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
Apcs Ptx2, Sap
Sequence Length (AA) Molecular Weight (Da)
224 26247
Protein Name
Serum amyloid P-component
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MDKLLLWMFV FTSLLSEAFC QTDLKRKVFV FPRESETDHV KLIPHLEKPL
60 70 80 90 100
QNFTLCFRTY SDLSRSQSLF SYSVKGRDNE LLIYKEKVGE YSLYIGQSKV
110 120 130 140 150
TVRGMEEYLS PVHLCTTWES SSGIVEFWVN GKPWVKKSLQ REYTVKAPPS
160 170 180 190 200
IVLGQEQDNY GGGFQRSQSF VGEFSDLYMW DYVLTPQDIL FVYRDSPVNP
210 220 224
NILNWQALNY EINGYVVIRP RVWD

Data source: UniProt

Protein Map Collapse protein map

Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

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Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for non-CPTAC-5618 Collapse assay details

Data source: Panorama

Official Gene Symbol
Apcs
Peptide Sequence
SQSLFSYSVK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
66
Peptide End
75
CPTAC ID
non-CPTAC-5618
Peptide Molecular Mass
1,144.5764
Species
Mus musculus (Mouse)
Assay Type
Direct MRM
Matrix
Plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers

Publication

View Details (opens in a new window)

Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays. Michaud SA, Sinclair NJ, Petrošová H, Palmer AL, Pistawka AJ, Zhang S, Hardie DB, Mohammed Y Eshghi A1, Richard VR, Sickmann A, Borchers CH. Commun Biol. 2018 Jun 27;1:78. doi: 10.1038/s42003-018-0087-6. eCollection 2018.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Agilent 6490/6495 QQQ
Internal Standard
synthetic peptide
Peptide Standard Purity
>80%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
1290 LC (Agilent)
Column Packing
Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions
2.1 x 150 mm
Flow Rate
400 µL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b3 (1+) 13.4 3.2 3.3 19.4 9.3 4.2 23.6 9.8 5.3 15 15 15
b2 (1+) 7.5 3.2 2.4 8.6 7.3 5 11.4 8 5.5 15 15 15
y6 (1+) 8.6 2 2.6 11.7 7.3 4 14.5 7.6 4.8 15 15 15
y7 (1+) 18.6 4.5 3.6 27.2 8.5 3.9 33 9.6 5.3 15 15 15
y8 (1+) 6.5 2.8 1.6 11 7.2 3.5 12.8 7.7 3.8 15 15 15
sum 5.7 1.8 0.9 9 6.8 3.5 10.7 7 3.6 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments

Assay Details for non-CPTAC-3671 Collapse assay details

Data source: Panorama

Official Gene Symbol
Apcs
Peptide Sequence
VGEYSLYIGQSK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
88
Peptide End
99
CPTAC ID
non-CPTAC-3671
Peptide Molecular Mass
1,342.6769
Species
Mus musculus (Mouse)
Assay Type
Direct MRM
Matrix
Plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Agilent 6490/6495 QQQ
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
1290 LC (Agilent)
Column Packing
Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions
2.1 x 150 mm
Flow Rate
400 µL/min

Chromatograms

Data source: Panorama

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view larger image
view larger image

Response Curves

Data source: Panorama

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view larger image

Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y6 (1+) 9.3 4.3 5.1 9.4 6.5 6 13.2 7.8 7.9 15 15 15
y8 (1+) 10.1 5.9 4.5 16.3 5.9 3.8 19.2 8.3 5.9 15 15 15
b3 (1+) 47.2 6.7 3.2 45.3 9.6 4.1 65.4 11.7 5.2 15 15 15
y4 (1+) 40.2 3.8 7.3 36 6.6 7.7 54 7.6 10.6 15 15 15
y5 (1+) 46.2 5.7 3.3 48.4 7.1 4.3 66.9 9.1 5.4 15 15 15
sum 39 2.6 2.1 37.4 3.6 2.4 54 4.4 3.2 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments
').insertAfter(source); //disqus_identifier = identifier+cptac_id; //set the identifier argument //disqus_url = url; //set the url argument //disqus_title = 'Gene: Apcs, Peptide Sequence: '+identifier+"_"+cptac_id+'- CPTAC Assay Portal'; var disqus_config = function () { this.page.url = url; this.page.identifier = identifier; this.page.title = 'Gene: Apcs, Peptide Sequence: ' + identifier + '- CPTAC Assay Portal'; }; // Append the Disqus embed script to HTML var dsq = document.createElement('script'); dsq.type = 'text/javascript'; dsq.async = true; dsq.src = '//' + disqus_shortname + '.disqus.com/embed.js'; (document.getElementsByTagName('head')[0] || document.getElementsByTagName('body')[0]).appendChild(dsq); // jQuery('head').append(dsq); // If Disqus exists, call it's reset method with new parameters //DISQUS.reset({ // reload: true, // config: function () { // this.page.identifier = identifier+cptac_id; // this.page.url = url; // this.page.title = 'Gene: Apcs, Peptide Sequence: '+identifier+"_"+cptac_id+'- CPTAC Assay Portal'; // } //}); } else { // Append the HTML after the target 'source' jQuery('
').insertAfter(source); var comment_array = ["CPTAC-720", "CPTAC-1031", "CPTAC-968", "CPTAC-935", "CPTAC-687", "CPTAC-550", "CPTAC-978", "CPTAC-1724", "CPTAC-1725", "CPTAC-333", "CPTAC-241", "CPTAC-968", "CPTAC-540", "CPTAC-606"]; console.log($.inArray(cptac_id, comment_array)); if ($.inArray(cptac_id, comment_array) != -1) { disqus_identifier = identifier; } else { disqus_identifier = identifier + cptac_id; //set the identifier argument } disqus_url = url; //set the url argument disqus_title = 'Gene: Apcs, Peptide Sequence: ' + identifier + "_" + cptac_id + '- CPTAC Assay Portal'; // Append the Disqus embed script to HTML var dsq = document.createElement('script'); dsq.type = 'text/javascript'; dsq.async = true; dsq.src = '//' + disqus_shortname + '.disqus.com/embed.js'; (document.getElementsByTagName('head')[0] || document.getElementsByTagName('body')[0]).appendChild(dsq); // jQuery('head').append(dsq); } };