CTNNB1, CPTAC-1745 - 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.
Protein Sequence hover to view complete sequence
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MATQADLMEL | DMAMEPDRKA | AVSHWQQQSY | LDSGIHSGAT | TTAPSLSGKG |
| 60 | 70 | 80 | 90 | 100 |
| NPEEEDVDTS | QVLYEWEQGF | SQSFTQEQVA | DIDGQYAMTR | AQRVRAAMFP |
| 110 | 120 | 130 | 140 | 150 |
| ETLDEGMQIP | STQFDAAHPT | NVQRLAEPSQ | MLKHAVVNLI | NYQDDAELAT |
| 160 | 170 | 180 | 190 | 200 |
| RAIPELTKLL | NDEDQVVVNK | AAVMVHQLSK | KEASRHAIMR | SPQMVSAIVR |
| 210 | 220 | 230 | 240 | 250 |
| TMQNTNDVET | ARCTAGTLHN | LSHHREGLLA | IFKSGGIPAL | VKMLGSPVDS |
| 260 | 270 | 280 | 290 | 300 |
| VLFYAITTLH | NLLLHQEGAK | MAVRLAGGLQ | KMVALLNKTN | VKFLAITTDC |
| 310 | 320 | 330 | 340 | 350 |
| LQILAYGNQE | SKLIILASGG | PQALVNIMRT | YTYEKLLWTT | SRVLKVLSVC |
| 360 | 370 | 380 | 390 | 400 |
| SSNKPAIVEA | GGMQALGLHL | TDPSQRLVQN | CLWTLRNLSD | AATKQEGMEG |
| 410 | 420 | 430 | 440 | 450 |
| LLGTLVQLLG | SDDINVVTCA | AGILSNLTCN | NYKNKMMVCQ | VGGIEALVRT |
| 460 | 470 | 480 | 490 | 500 |
| VLRAGDREDI | TEPAICALRH | LTSRHQEAEM | AQNAVRLHYG | LPVVVKLLHP |
| 510 | 520 | 530 | 540 | 550 |
| PSHWPLIKAT | VGLIRNLALC | PANHAPLREQ | GAIPRLVQLL | VRAHQDTQRR |
| 560 | 570 | 580 | 590 | 600 |
| TSMGGTQQQF | VEGVRMEEIV | EGCTGALHIL | ARDVHNRIVI | RGLNTIPLFV |
| 610 | 620 | 630 | 640 | 650 |
| QLLYSPIENI | QRVAAGVLCE | LAQDKEAAEA | IEAEGATAPL | TELLHSRNEG |
| 660 | 670 | 680 | 690 | 700 |
| VATYAAAVLF | RMSEDKPQDY | KKRLSVELTS | SLFRTEPMAW | NETADLGLDI |
| 710 | 720 | 730 | 740 | 750 |
| GAQGEPLGYR | QDDPSYRSFH | SGGYGQDALG | MDPMMEHEMG | GHHPGADYPV |
| 760 | 770 | 780 | 781 | |
| DGLPDLGHAQ | DLMDGLPPGD | SNQLAWFDTD | L |
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 non-CPTAC-3265 Collapse assay details
Data source: Panorama
Official Gene Symbol
CTNNB1
Peptide Sequence
RTSMGGTQQQFVEGVR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
550
Peptide End
565
CPTAC ID
non-CPTAC-3265
Peptide Molecular Mass
1,779.8686
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Cell Line Pool: H2444, H2122, AsPC-1, BxPC-3
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen
Publication
View Details (opens in a new window)
Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Thermo TSQ Quantiva
Internal Standard
light
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Dionex Ultimate 3000 RSLCnano System
Column Packing
C18, 2 uM, 100 A
Column Dimensions
75 uM x 25 cm
Flow Rate
300 nl/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-TiO2SRM
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 (1+) | 11.1 | 4.8 | 1.6 | 15.1 | 12.5 | 7.4 | 18.7 | 13.4 | 7.6 | 15 | 15 | 15 |
| y6 (1+) | 7.2 | 3.8 | 2.6 | 13.7 | 10.6 | 8.4 | 15.5 | 11.3 | 8.8 | 15 | 15 | 15 |
| y5 (1+) | 9.7 | 3.7 | 3.1 | 11.2 | 9.7 | 7.5 | 14.8 | 10.4 | 8.1 | 15 | 15 | 15 |
| y4 (1+) | 7 | 3 | 2.3 | 10 | 9.7 | 9.9 | 12.2 | 10.2 | 10.2 | 15 | 15 | 15 |
| sum | 4.6 | 3.1 | 1.3 | 10.3 | 10 | 8.2 | 11.3 | 10.5 | 8.3 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-5716 Collapse assay details
Data source: Panorama
Official Gene Symbol
CTNNB1
Peptide Modified Sequence
RTS[+79.966331]MGGTQQQFVEGVR
Modification Type
Phospho (ST)
Protein - Site of Modification
N/A
Peptide - Site of Modification
3
Peptide Start
550
Peptide End
565
CPTAC ID
non-CPTAC-5716
Peptide Molecular Mass
1,859.8349
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM or SRM
Enrichment Method
Titanium Dioxide
Matrix
Cell Lysate
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen
Publication
View Details (opens in a new window)
Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Thermo Quantiva
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Dionex Ultimate 3000 RSLCnano
Column Packing
Pepmap 100
Column Dimensions
75um x 25cm
Flow Rate
300 nL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-TiO2SRM
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 |
| y3 (1+) | 4.4 | 3.4 | 2.3 | 6.1 | 3.9 | 3.1 | 7.5 | 5.2 | 3.9 | 15 | 15 | 15 |
| y4 (1+) | 5.6 | 2.9 | 2.6 | 6 | 4 | 2.6 | 8.2 | 4.9 | 3.7 | 15 | 15 | 15 |
| y6 (1+) | 2.6 | 3.2 | 3.2 | 2.3 | 3.6 | 3.4 | 3.5 | 4.8 | 4.7 | 15 | 15 | 15 |
| y7 (1+) | 7 | 5.2 | 2.5 | 5.4 | 4.8 | 3.1 | 8.8 | 7.1 | 4 | 15 | 15 | 15 |
| sum | 2.7 | 2.1 | 2.1 | 2.4 | 2.7 | 2.4 | 3.6 | 3.4 | 3.2 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-3266 Collapse assay details
Data source: Panorama
Official Gene Symbol
CTNNB1
Peptide Sequence
TSMGGTQQQFVEGVR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
551
Peptide End
565
CPTAC ID
non-CPTAC-3266
Peptide Molecular Mass
1,623.7675
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Cell Line Pool: H2444, H2122, AsPC-1, BxPC-3
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen
Publication
View Details (opens in a new window)
Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Thermo TSQ Quantiva
Internal Standard
light
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Dionex Ultimate 3000 RSLCnano System
Column Packing
C18, 2 uM, 100 A
Column Dimensions
75 uM x 25 cm
Flow Rate
300 nl/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-TiO2SRM
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+) | 9.9 | 3.4 | 1.6 | 11.8 | 9.3 | 10 | 15.4 | 9.9 | 10.1 | 15 | 15 | 15 |
| y7 (1+) | 8.1 | 4.3 | 2.4 | 14.6 | 10.2 | 9.2 | 16.7 | 11.1 | 9.5 | 15 | 15 | 15 |
| y6 (1+) | 8.3 | 4.2 | 2.4 | 15.2 | 10.9 | 10.1 | 17.3 | 11.7 | 10.4 | 15 | 15 | 15 |
| y4 (1+) | 7.3 | 2.5 | 1.3 | 15.4 | 10.2 | 8.5 | 17 | 10.5 | 8.6 | 15 | 15 | 15 |
| y3 (1+) | 5.3 | 2.7 | 1.4 | 11.6 | 10.4 | 9.1 | 12.8 | 10.7 | 9.2 | 15 | 15 | 15 |
| sum | 1.9 | 1.8 | 0.9 | 12.2 | 10 | 9 | 12.3 | 10.2 | 9 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-5365 Collapse assay details
Data source: Panorama
Official Gene Symbol
CTNNB1
Peptide Sequence
TSMGGTQQQFVEGVR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
551
Peptide End
565
CPTAC ID
non-CPTAC-5365
Peptide Molecular Mass
1,623.7675
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Cell Lysate
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen
Publication
View Details (opens in a new window)
Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
RSLCnano and Quantiva
Internal Standard
Stable Isotope Labeled Standard
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
RSLCnano
Column Packing
C18 PepMap 100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nl/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-TiO2SRM
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 |
| y4 (1+) | 8.1 | 3.3 | 2.8 | 8.7 | 4 | 2.9 | 11.9 | 5.2 | 4 | 15 | 15 | 15 |
| y6 (1+) | 6.8 | 2.8 | 3.1 | 9.8 | 3.1 | 4.5 | 11.9 | 4.2 | 5.5 | 15 | 15 | 15 |
| y7 (1+) | 8.9 | 3.8 | 3.4 | 9.7 | 5 | 3.3 | 13.2 | 6.3 | 4.7 | 15 | 15 | 15 |
| y8 (1+) | 12.2 | 4.4 | 3.4 | 13.3 | 3.4 | 4.8 | 18 | 5.6 | 5.9 | 15 | 15 | 15 |
| y3 (1+) | 4.9 | 2.3 | 1.6 | 7.4 | 3 | 2.6 | 8.9 | 3.8 | 3.1 | 15 | 15 | 15 |
| sum | 4.8 | 1.2 | 1.7 | 6.1 | 2.2 | 2.8 | 7.8 | 2.5 | 3.3 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-5715 Collapse assay details
Data source: Panorama
Official Gene Symbol
CTNNB1
Peptide Modified Sequence
TS[+79.966331]MGGTQQQFVEGVR
Modification Type
Phospho (ST)
Protein - Site of Modification
N/A
Peptide - Site of Modification
3
Peptide Start
551
Peptide End
565
CPTAC ID
non-CPTAC-5715
Peptide Molecular Mass
1,703.7338
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM or SRM
Enrichment Method
Titanium Dioxide
Matrix
Cell Lysate
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen
Publication
View Details (opens in a new window)
Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Thermo Quantiva
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Dionex Ultimate 3000 RSLCnano
Column Packing
Pepmap 100
Column Dimensions
75um x 25cm
Flow Rate
300 nL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-TiO2SRM
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+) | 10.1 | 4.8 | 3.3 | 9.7 | 5.3 | 4.5 | 14 | 7.2 | 5.6 | 15 | 15 | 15 |
| y4 (1+) | 8.5 | 4.8 | 2.6 | 8.9 | 6.6 | 5.4 | 12.3 | 8.2 | 6 | 15 | 15 | 15 |
| y5 (1+) | 7.5 | 5.7 | 1.9 | 6.9 | 7.4 | 3.4 | 10.2 | 9.3 | 3.9 | 15 | 15 | 15 |
| y8 (1+) | 11.2 | 4.3 | 3.1 | 10.7 | 4.8 | 3.9 | 15.5 | 6.4 | 5 | 15 | 15 | 15 |
| sum | 5.7 | 2.6 | 1.6 | 6.7 | 3.2 | 4 | 8.8 | 4.1 | 4.3 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1745 Collapse assay details
Data source: Panorama
Official Gene Symbol
CTNNB1
Peptide Modified Sequence
S[+80.0]PQMVSAIVR
Modification Type
Phospho (ST)
Protein - Site of Modification
191
Peptide - Site of Modification
1
Peptide Start
191
Peptide End
200
CPTAC ID
CPTAC-1745
Peptide Molecular Mass
1,166.5519
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM or SRM
Enrichment Method
Titanium Dioxide
Matrix
Ovarian cancer cell 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-TiO2SRM
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 |
| y5 (1+) | 23.6 | 5.4 | 7.2 | 26.3 | 6.2 | 12.1 | 35.3 | 8.2 | 14.1 | 15 | 15 | 15 |
| y6 (1+) | 23.1 | 9.1 | 7 | 21.6 | 10.9 | 9.9 | 31.6 | 14.2 | 12.1 | 15 | 15 | 15 |
| y7 (1+) | 17.9 | 6.8 | 3.9 | 18.7 | 6.9 | 5.2 | 25.9 | 9.7 | 6.5 | 15 | 15 | 15 |
| sum | 14.5 | 4 | 3.1 | 15.8 | 5.1 | 4.9 | 21.4 | 6.5 | 5.8 | 15 | 15 | 15 |