LYL1, CPTAC-1208 - CPTAC Assay Portal (original) (raw)
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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.
LYL1
Protein Sequence hover to view complete sequence
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MCPPQAQAEV | GPTMTEKAEM | VCAPSPAPAP | PPKPASPGPP | QVEEVGHRGG |
| 60 | 70 | 80 | 90 | 100 |
| SSPPRLPPGV | PVISLGHSRP | PGVAMPTTEL | GTLRPPLLQL | STLGTAPPTL |
| 110 | 120 | 130 | 140 | 150 |
| ALHYHPHPFL | NSVYIGPAGP | FSIFPSSRLK | RRPSHCELDL | AEGHQPQKVA |
| 160 | 170 | 180 | 190 | 200 |
| RRVFTNSRER | WRQQNVNGAF | AELRKLLPTH | PPDRKLSKNE | VLRLAMKYIG |
| 210 | 220 | 230 | 240 | 250 |
| FLVRLLRDQA | AALAAGPTPP | GPRKRPVHRV | PDDGARRGSG | RRAEAAARSQ |
| 260 | 270 | 280 | ||
| PAPPADPDGS | PGGAARPIKM | EQTALSPEVR |
Data source: UniProt
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 CPTAC-1208 Collapse assay details
Data source: Panorama
Official Gene Symbol
LYL1
Peptide Sequence
DQAAALAAGPTPPGPR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
208
Peptide End
223
CPTAC ID
CPTAC-1208
Peptide Molecular Mass
1,488.7685
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Ovarian cancer tumor tissue lysate
Submitting Laboratory
Pacific Northwest National Laboratory
Submitting Lab PI
Tao Liu
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
TSQ Vantage
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Waters nanoACQUITY (Part Number 176016000)
Column Packing
Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)
Column Dimensions
100 um x 100 mm
Flow Rate
0.5 uL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectMRM
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 |
| y8 (1+) | 11.9 | 4.8 | 3.3 | 13.3 | 9.5 | 4.2 | 17.8 | 10.6 | 5.3 | 15 | 15 | 15 |
| y9 (1+) | 14.4 | 4.7 | 6.1 | 15.1 | 8.6 | 7.1 | 20.9 | 9.8 | 9.4 | 15 | 15 | 15 |
| y10 (1+) | 16.8 | 5.3 | 4.8 | 18.5 | 8.1 | 6.5 | 25 | 9.7 | 8.1 | 15 | 15 | 15 |
| sum | 8.6 | 3.2 | 3.1 | 9.7 | 8.3 | 4.5 | 13 | 8.9 | 5.5 | 15 | 15 | 15 |
Selectivity
Data source: Panorama
| Slope of Curve Fit for cell line | ||||||
|---|---|---|---|---|---|---|
| fragment_ion | 1 | 2 | 3 | 4 | 5 | 6 |
| y9 (1+) | 0.82 | 1 | 1.28 | 0.94 | 0.93 | 1.19 |
| y10 (1+) | 0.89 | 0.88 | 1.3 | 0.93 | 0.84 | 1.18 |
| y8 (1+) | 0.9 | 0.89 | 1.28 | 0.86 | 0.93 | 1.16 |
| sum | 0.87 | 0.92 | 1.29 | 0.9 | 0.91 | 1.17 |
Stability
Data source: Panorama
| Fragment ion / Transition | control_intra_CV | actual_temp_intra_CV | frozen_intra_CV | FTx1_intra_CV | FTx2_intra_CV |
|---|---|---|---|---|---|
| y9 (1+) | 2.9 | 3 | 0.5 | 9.2 | 2.5 |
| y10 (1+) | 9.1 | 8 | 6.2 | 2.8 | 6.3 |
| y8 (1+) | 5.5 | 6.7 | 1 | 7.1 | 7.3 |
| sum | 3.5 | 4 | 1.9 | 1.2 | 4 |
| Fragment ion / Transition | all_intra_CV | all_inter_CV |
|---|---|---|
| y9 (1+) | 3.5 | 5.1 |
| y10 (1+) | 6.7 | 6.3 |
| y8 (1+) | 5.7 | 6.7 |
| sum | 3.1 | 3.1 |
Endogenous
Data source: Panorama
| Fragment ion / Transition | intra_CV | inter_CV | total_CV |
|---|---|---|---|
| y10 (1+) | 74.5 | 69.4 | 101.8 |
| y9 (1+) | 62.9 | 67.8 | 92.5 |
| y8 (1+) | 71.3 | 74 | 102.8 |
| sum | 47.5 | 44.6 | 65.2 |
Additional Resources and Comments
Comments
Assay Details for CPTAC-1209 Collapse assay details
Data source: Panorama
Official Gene Symbol
LYL1
Peptide Sequence
SQPAPPADPDGSPGGAARPIK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
249
Peptide End
269
CPTAC ID
CPTAC-1209
Peptide Molecular Mass
1,984.9967
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Ovarian cancer tumor tissue lysate
Submitting Laboratory
Pacific Northwest National Laboratory
Submitting Lab PI
Tao Liu
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
TSQ Vantage
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Waters nanoACQUITY (Part Number 176016000)
Column Packing
Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)
Column Dimensions
100 um x 100 mm
Flow Rate
0.5 uL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectMRM
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 |
| y9 (2+) | 54.6 | 13.3 | 8.4 | 49.5 | 13.2 | 10.9 | 73.7 | 18.7 | 13.8 | 15 | 15 | 15 |
| y17 (2+) | 26.6 | 10.8 | 4.4 | 27.8 | 12.3 | 8 | 38.5 | 16.4 | 9.1 | 15 | 15 | 15 |
| y9 (1+) | 45.7 | 13.8 | 6.4 | 59.6 | 16 | 7.6 | 75.1 | 21.1 | 9.9 | 15 | 15 | 15 |
| sum | 24.8 | 8.3 | 4 | 26.9 | 10.5 | 7.1 | 36.6 | 13.4 | 8.1 | 15 | 15 | 15 |
Selectivity
Data source: Panorama
| Slope of Curve Fit for cell line | ||||||
|---|---|---|---|---|---|---|
| fragment_ion | 1 | 2 | 3 | 4 | 5 | 6 |
| y9 (1+) | 0.32 | 0.46 | 0.45 | 0.28 | 0.43 | 0.38 |
| y17 (2+) | 0.38 | 0.38 | 0.57 | 0.4 | 0.39 | 0.52 |
| y9 (2+) | 0.47 | 0.45 | 0.65 | 0.57 | 0.36 | 0.56 |
| sum | 0.38 | 0.4 | 0.57 | 0.41 | 0.39 | 0.51 |
Stability
Data source: Panorama
| Fragment ion / Transition | control_intra_CV | actual_temp_intra_CV | frozen_intra_CV | FTx1_intra_CV | FTx2_intra_CV |
|---|
| Fragment ion / Transition | all_intra_CV | all_inter_CV |
|---|
Endogenous
Data source: Panorama
| Fragment ion / Transition | intra_CV | inter_CV | total_CV |
|---|---|---|---|
| y9 (1+) | 94.7 | 89.7 | 130.4 |
| y17 (2+) | 80.5 | 86 | 117.8 |
| y9 (2+) | 140.5 | 100 | 172.5 |
| sum | 62.8 | 62.4 | 88.5 |