APOE, CPTAC-1087 - CPTAC Assay Portal
- ️ABCC's Scientific Web Programming Group, Frederick National Laboratory for Cancer Research (FNLCR)
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.
Protein Sequence hover to view complete sequence
| 10 | 20 | 30 | 40 | 50 |
| MKVLWAALLV | TFLAGCQAKV | EQAVETEPEP | ELRQQTEWQS | GQRWELALGR |
| 60 | 70 | 80 | 90 | 100 |
| FWDYLRWVQT | LSEQVQEELL | SSQVTQELRA | LMDETMKELK | AYKSELEEQL |
| 110 | 120 | 130 | 140 | 150 |
| TPVAEETRAR | LSKELQAAQA | RLGADMEDVC | GRLVQYRGEV | QAMLGQSTEE |
| 160 | 170 | 180 | 190 | 200 |
| LRVRLASHLR | KLRKRLLRDA | DDLQKRLAVY | QAGAREGAER | GLSAIRERLG |
| 210 | 220 | 230 | 240 | 250 |
| PLVEQGRVRA | ATVGSLAGQP | LQERAQAWGE | RLRARMEEMG | SRTRDRLDEV |
| 260 | 270 | 280 | 290 | 300 |
| KEQVAEVRAK | LEEQAQQIRL | QAEAFQARLK | SWFEPLVEDM | QRQWAGLVEK |
| 310 | 317 | |||
| VQAAVGTSAA | PVPSDNH |
Data source: UniProt
Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs
Uniprot Database Entry PhosphoSitePlus ®
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Assay Details for non-CPTAC-1087 Collapse assay details
Data source: Panorama
-
Official Gene Symbol
- APOE Peptide Sequence
- LGPLVEQGR Modification Type
- unmodified Protein - Site of Modification
- N/A Peptide - Site of Modification
- N/A Peptide Start
- 191 Peptide End
- 199
-
CPTAC ID
- non-CPTAC-1087 Peptide Molecular Mass
- 967.5451 Species
- Homo sapiens (Human) 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
- 6490 Triple Quad (Agilent) Internal Standard
- synthetic peptide Peptide Standard Purity
- >95% Peptide Standard Label Type
- 13C and 15N at C-terminus R
-
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
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| Average intra-assay CV (within day CV) |
Average inter-assay CV (between day CV) |
Total CV |
n= | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High |
| y7 (2+) | 8.9 | 3.9 | 4.2 | 10.7 | 7.8 | 4.9 | 13.9 | 8.7 | 6.5 | 15 | 15 | 15 |
| y8 (2+) | 12.7 | 4.9 | 3.4 | 12.2 | 7.8 | 4.9 | 17.6 | 9.2 | 6 | 15 | 15 | 15 |
| y4 (1+) | 6.1 | 3.6 | 2.8 | 9.9 | 6.4 | 4.6 | 11.6 | 7.3 | 5.4 | 15 | 15 | 15 |
| y5 (1+) | 7.1 | 3.9 | 6.1 | 11.5 | 5.5 | 5.7 | 13.5 | 6.7 | 8.3 | 15 | 15 | 15 |
| y6 (1+) | 9.2 | 5.9 | 4.1 | 14.1 | 5.9 | 4.5 | 16.8 | 8.3 | 6.1 | 15 | 15 | 15 |
| sum | 5.6 | 2.4 | 2.5 | 8.8 | 6.2 | 3.3 | 10.4 | 6.6 | 4.1 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-3396 Collapse assay details
Data source: Panorama
-
Official Gene Symbol
- Apoe Peptide Sequence
- LGPLVEQGR Modification Type
- unmodified Protein - Site of Modification
- N/A Peptide - Site of Modification
- N/A Peptide Start
- 191 Peptide End
- 199
-
CPTAC ID
- non-CPTAC-3396 Peptide Molecular Mass
- 967.5451 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 R
-
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
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| Average intra-assay CV (within day CV) |
Average inter-assay CV (between day CV) |
Total CV |
n= | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High |
| y6 (1+) | 4.1 | 5.1 | 13.3 | 20.6 | 12.4 | 12.6 | 21 | 13.4 | 18.3 | 15 | 15 | 15 |
| y5 (1+) | 8 | 8 | 4.9 | 15.3 | 7.7 | 10.9 | 17.3 | 11.1 | 12 | 15 | 15 | 15 |
| y4 (1+) | 4.2 | 8.3 | 7.8 | 11.5 | 9.2 | 9.3 | 12.2 | 12.4 | 12.1 | 15 | 15 | 15 |
| y8 (2+) | 6 | 6.1 | 7.9 | 11.9 | 5.3 | 9.5 | 13.3 | 8.1 | 12.4 | 15 | 15 | 15 |
| y7 (2+) | 7 | 5.9 | 5.2 | 12.5 | 5.8 | 4.9 | 14.3 | 8.3 | 7.1 | 15 | 15 | 15 |
| sum | 2.9 | 3.2 | 2.9 | 12.3 | 3.9 | 3.4 | 12.6 | 5 | 4.5 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-5578 Collapse assay details
Data source: Panorama
-
Official Gene Symbol
- Apoe Peptide Sequence
- TANLGAGAAQPLR Modification Type
- unmodified Protein - Site of Modification
- N/A Peptide - Site of Modification
- N/A Peptide Start
- 202 Peptide End
- 214
-
CPTAC ID
- non-CPTAC-5578 Peptide Molecular Mass
- 1,238.6731 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 R
-
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
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| Average intra-assay CV (within day CV) |
Average inter-assay CV (between day CV) |
Total CV |
n= | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High |
| b3 (1+) | 12.5 | 4.6 | 4.6 | 13.7 | 8.5 | 5.4 | 18.5 | 9.7 | 7.1 | 15 | 15 | 15 |
| y11 (2+) | 21.2 | 6.4 | 4.6 | 23.5 | 8.6 | 6.5 | 31.6 | 10.7 | 8 | 15 | 15 | 15 |
| y7 (1+) | 8.7 | 8 | 4.6 | 10.2 | 6.7 | 5.6 | 13.4 | 10.4 | 7.2 | 15 | 15 | 15 |
| y8 (1+) | 14 | 5.1 | 4.9 | 13.9 | 7.3 | 4.6 | 19.7 | 8.9 | 6.7 | 15 | 15 | 15 |
| y9 (1+) | 4.7 | 5.6 | 4.9 | 11.7 | 9 | 4.9 | 12.6 | 10.6 | 6.9 | 15 | 15 | 15 |
| sum | 6.1 | 3.2 | 2.3 | 9.1 | 6.6 | 2.8 | 11 | 7.3 | 3.6 | 15 | 15 | 15 |