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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.

FBN1

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
FBN1 FBN
Sequence Length (AA) Molecular Weight (Da)
2871 312298
Protein Name
Fibrillin-1
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MRRGRLLEIA LGFTVLLASY TSHGADANLE AGNVKETRAS RAKRRGGGGH
60 70 80 90 100
DALKGPNVCG SRYNAYCCPG WKTLPGGNQC IVPICRHSCG DGFCSRPNMC
110 120 130 140 150
TCPSGQIAPS CGSRSIQHCN IRCMNGGSCS DDHCLCQKGY IGTHCGQPVC
160 170 180 190 200
ESGCLNGGRC VAPNRCACTY GFTGPQCERD YRTGPCFTVI SNQMCQGQLS
210 220 230 240 250
GIVCTKTLCC ATVGRAWGHP CEMCPAQPHP CRRGFIPNIR TGACQDVDEC
260 270 280 290 300
QAIPGLCQGG NCINTVGSFE CKCPAGHKLN EVSQKCEDID ECSTIPGICE
310 320 330 340 350
GGECTNTVSS YFCKCPPGFY TSPDGTRCID VRPGYCYTAL TNGRCSNQLP
360 370 380 390 400
QSITKMQCCC DAGRCWSPGV TVAPEMCPIR ATEDFNKLCS VPMVIPGRPE
410 420 430 440 450
YPPPPLGPIP PVLPVPPGFP PGPQIPVPRP PVEYLYPSRE PPRVLPVNVT
460 470 480 490 500
DYCQLVRYLC QNGRCIPTPG SYRCECNKGF QLDLRGECID VDECEKNPCA
510 520 530 540 550
GGECINNQGS YTCQCRAGYQ STLTRTECRD IDECLQNGRI CNNGRCINTD
560 570 580 590 600
GSFHCVCNAG FHVTRDGKNC EDMDECSIRN MCLNGMCINE DGSFKCICKP
610 620 630 640 650
GFQLASDGRY CKDINECETP GICMNGRCVN TDGSYRCECF PGLAVGLDGR
660 670 680 690 700
VCVDTHMRST CYGGYKRGQC IKPLFGAVTK SECCCASTEY AFGEPCQPCP
710 720 730 740 750
AQNSAEYQAL CSSGPGMTSA GSDINECALD PDICPNGICE NLRGTYKCIC
760 770 780 790 800
NSGYEVDSTG KNCVDINECV LNSLLCDNGQ CRNTPGSFVC TCPKGFIYKP
810 820 830 840 850
DLKTCEDIDE CESSPCINGV CKNSPGSFIC ECSSESTLDP TKTICIETIK
860 870 880 890 900
GTCWQTVIDG RCEININGAT LKSQCCSSLG AAWGSPCTLC QVDPICGKGY
910 920 930 940 950
SRIKGTQCED IDECEVFPGV CKNGLCVNTR GSFKCQCPSG MTLDATGRIC
960 970 980 990 1000
LDIRLETCFL RYEDEECTLP IAGRHRMDAC CCSVGAAWGT EECEECPMRN
1010 1020 1030 1040 1050
TPEYEELCPR GPGFATKEIT NGKPFFKDIN ECKMIPSLCT HGKCRNTIGS
1060 1070 1080 1090 1100
FKCRCDSGFA LDSEERNCTD IDECRISPDL CGRGQCVNTP GDFECKCDEG
1110 1120 1130 1140 1150
YESGFMMMKN CMDIDECQRD PLLCRGGVCH NTEGSYRCEC PPGHQLSPNI
1160 1170 1180 1190 1200
SACIDINECE LSAHLCPNGR CVNLIGKYQC ACNPGYHSTP DRLFCVDIDE
1210 1220 1230 1240 1250
CSIMNGGCET FCTNSEGSYE CSCQPGFALM PDQRSCTDID ECEDNPNICD
1260 1270 1280 1290 1300
GGQCTNIPGE YRCLCYDGFM ASEDMKTCVD VNECDLNPNI CLSGTCENTK
1310 1320 1330 1340 1350
GSFICHCDMG YSGKKGKTGC TDINECEIGA HNCGKHAVCT NTAGSFKCSC
1360 1370 1380 1390 1400
SPGWIGDGIK CTDLDECSNG THMCSQHADC KNTMGSYRCL CKEGYTGDGF
1410 1420 1430 1440 1450
TCTDLDECSE NLNLCGNGQC LNAPGGYRCE CDMGFVPSAD GKACEDIDEC
1460 1470 1480 1490 1500
SLPNICVFGT CHNLPGLFRC ECEIGYELDR SGGNCTDVNE CLDPTTCISG
1510 1520 1530 1540 1550
NCVNTPGSYI CDCPPDFELN PTRVGCVDTR SGNCYLDIRP RGDNGDTACS
1560 1570 1580 1590 1600
NEIGVGVSKA SCCCSLGKAW GTPCEMCPAV NTSEYKILCP GGEGFRPNPI
1610 1620 1630 1640 1650
TVILEDIDEC QELPGLCQGG KCINTFGSFQ CRCPTGYYLN EDTRVCDDVN
1660 1670 1680 1690 1700
ECETPGICGP GTCYNTVGNY TCICPPDYMQ VNGGNNCMDM RRSLCYRNYY
1710 1720 1730 1740 1750
ADNQTCDGEL LFNMTKKMCC CSYNIGRAWN KPCEQCPIPS TDEFATLCGS
1760 1770 1780 1790 1800
QRPGFVIDIY TGLPVDIDEC REIPGVCENG VCINMVGSFR CECPVGFFYN
1810 1820 1830 1840 1850
DKLLVCEDID ECQNGPVCQR NAECINTAGS YRCDCKPGYR FTSTGQCNDR
1860 1870 1880 1890 1900
NECQEIPNIC SHGQCIDTVG SFYCLCHTGF KTNDDQTMCL DINECERDAC
1910 1920 1930 1940 1950
GNGTCRNTIG SFNCRCNHGF ILSHNNDCID VDECASGNGN LCRNGQCINT
1960 1970 1980 1990 2000
VGSFQCQCNE GYEVAPDGRT CVDINECLLE PRKCAPGTCQ NLDGSYRCIC
2010 2020 2030 2040 2050
PPGYSLQNEK CEDIDECVEE PEICALGTCS NTEGSFKCLC PEGFSLSSSG
2060 2070 2080 2090 2100
RRCQDLRMSY CYAKFEGGKC SSPKSRNHSK QECCCALKGE GWGDPCELCP
2110 2120 2130 2140 2150
TEPDEAFRQI CPYGSGIIVG PDDSAVDMDE CKEPDVCKHG QCINTDGSYR
2160 2170 2180 2190 2200
CECPFGYILA GNECVDTDEC SVGNPCGNGT CKNVIGGFEC TCEEGFEPGP
2210 2220 2230 2240 2250
MMTCEDINEC AQNPLLCAFR CVNTYGSYEC KCPVGYVLRE DRRMCKDEDE
2260 2270 2280 2290 2300
CEEGKHDCTE KQMECKNLIG TYMCICGPGY QRRPDGEGCV DENECQTKPG
2310 2320 2330 2340 2350
ICENGRCLNT RGSYTCECND GFTASPNQDE CLDNREGYCF TEVLQNMCQI
2360 2370 2380 2390 2400
GSSNRNPVTK SECCCDGGRG WGPHCEICPF QGTVAFKKLC PHGRGFMTNG
2410 2420 2430 2440 2450
ADIDECKVIH DVCRNGECVN DRGSYHCICK TGYTPDITGT SCVDLNECNQ
2460 2470 2480 2490 2500
APKPCNFICK NTEGSYQCSC PKGYILQEDG RSCKDLDECA TKQHNCQFLC
2510 2520 2530 2540 2550
VNTIGGFTCK CPPGFTQHHT SCIDNNECTS DINLCGSKGI CQNTPGSFTC
2560 2570 2580 2590 2600
ECQRGFSLDQ TGSSCEDVDE CEGNHRCQHG CQNIIGGYRC SCPQGYLQHY
2610 2620 2630 2640 2650
QWNQCVDENE CLSAHICGGA SCHNTLGSYK CMCPAGFQYE QFSGGCQDIN
2660 2670 2680 2690 2700
ECGSAQAPCS YGCSNTEGGY LCGCPPGYFR IGQGHCVSGM GMGRGNPEPP
2710 2720 2730 2740 2750
VSGEMDDNSL SPEACYECKI NGYPKRGRKR RSTNETDASN IEDQSETEAN
2760 2770 2780 2790 2800
VSLASWDVEK TAIFAFNISH VSNKVRILEL LPALTTLTNH NRYLIESGNE
2810 2820 2830 2840 2850
DGFFKINQKE GISYLHFTKK KPVAGTYSLQ ISSTPLYKKK ELNQLEDKYD
2860 2870 2871
KDYLSGELGD NLKMKIQVLL H

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 CPTAC-5851 Collapse assay details

Data source: Panorama

Official Gene Symbol
FBN1
Peptide Modified Sequence
SGNC[+57.021464]YLDIRPR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
1531
Peptide End
1541
CPTAC ID
CPTAC-5851
Peptide Molecular Mass
1,349.6510
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
Frozen breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 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

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
y7 (2+) 12.8 4.9 5.6 10.4 5.3 5.4 16.5 7.2 7.8 15 17 15
y8 (2+) 12.1 4.3 5.3 11.2 7.1 5.3 16.5 8.3 7.5 15 17 15
y9 (2+) 12.1 5.5 6.5 12.6 7.3 6 17.5 9.1 8.8 15 17 15
y4 (1+) 15.2 9.4 6.6 16.5 10.9 7.5 22.4 14.4 10 15 17 15
y4 (2+) 12.2 3.4 4.4 11.8 4.8 4.3 17 5.9 6.2 15 17 15
sum 10.3 1.7 3.6 10 5.1 3.9 14.4 5.4 5.3 15 17 15

Additional Resources and Comments

Resources
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Assay Details for CPTAC-5876 Collapse assay details

Data source: Panorama

Official Gene Symbol
FBN1
Peptide Modified Sequence
SGNC[+57.021464]YLDIRPR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
1531
Peptide End
1541
CPTAC ID
CPTAC-5876
Peptide Molecular Mass
1,349.6510
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
FFPE breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min

Chromatograms

Data source: Panorama

view larger image
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
y9 (2+) 8.1 4.3 2.9 11.7 4.7 3.8 14.2 6.4 4.8 12 12 12
y8 (2+) 13.6 4.7 4.1 13.7 5 3.7 19.3 6.9 5.5 12 12 12
y7 (2+) 10.6 7.1 4.2 17 6.7 4.2 20 9.8 5.9 12 12 12
y4 (2+) 11.1 7.2 6.5 13 7.1 6.3 17.1 10.1 9.1 12 12 12
y4 (1+) 17.7 7.3 7.4 10.2 10.8 9.5 20.4 13 12 12 12 12
sum 10.2 5 3.6 11.8 5 3.3 15.6 7.1 4.9 12 12 12

Additional Resources and Comments

Resources
Download SOPs
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View Protein in Panorama
Comments

Assay Details for CPTAC-5850 Collapse assay details

Data source: Panorama

Official Gene Symbol
FBN1
Peptide Modified Sequence
TC[+57.021464]VDINEC[+57.021464]LLEPR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
1970
Peptide End
1982
CPTAC ID
CPTAC-5850
Peptide Molecular Mass
1,617.7491
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
Frozen breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min

Chromatograms

Data source: Panorama

view larger image
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
y11 (1+) 15.8 12.4 9.3 19.9 12 35.4 25.4 17.3 36.6 15 17 15
y10 (1+) 23.1 8.1 11.7 29.2 10.4 35.1 37.2 13.2 37 15 17 15
y9 (1+) 17.2 9.3 14.8 16.8 6.8 34.2 24 11.5 37.3 15 17 15
y8 (1+) 20.2 7.7 8.9 24.9 11.6 31.2 32.1 13.9 32.4 15 17 15
y7 (1+) 20 14.7 18.8 31 13 32.9 36.9 19.6 37.9 15 17 15
sum 15.2 8.1 9.4 20.4 9.2 32.9 25.4 12.3 34.2 15 17 15

Additional Resources and Comments

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

Assay Details for CPTAC-5875 Collapse assay details

Data source: Panorama

Official Gene Symbol
FBN1
Peptide Modified Sequence
TC[+57.021464]VDINEC[+57.021464]LLEPR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
1970
Peptide End
1982
CPTAC ID
CPTAC-5875
Peptide Molecular Mass
1,617.7491
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
FFPE breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min

Chromatograms

Data source: Panorama

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
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
y11 (1+) 24.6 16.9 12.1 34.9 22.8 25.4 42.7 28.4 28.1 12 12 12
y10 (1+) 19.3 14.4 17.8 23.5 24.5 23.9 30.4 28.4 29.8 12 12 12
y9 (1+) 27.8 15.4 13.5 35.7 28.9 25.5 45.2 32.7 28.9 12 12 12
y8 (1+) 22 14.9 14.5 28.5 24.1 14 36 28.3 20.2 12 12 12
y7 (1+) 28.3 16.2 12.2 40.1 31.2 27.2 49.1 35.2 29.8 12 12 12
sum 19 11.8 13.4 28.3 24.3 20.3 34.1 27 24.3 12 12 12

Additional Resources and Comments

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

Assay Details for CPTAC-5852 Collapse assay details

Data source: Panorama

Official Gene Symbol
FBN1
Peptide Modified Sequence
YEDEEC[+57.021464]TLPIAGR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
962
Peptide End
974
CPTAC ID
CPTAC-5852
Peptide Molecular Mass
1,551.6875
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
Frozen breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min

Chromatograms

Data source: Panorama

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
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
y11 (2+) 49.1 71.3 50.5 61.1 65.3 65.4 78.4 96.7 82.6 15 17 15
y5 (1+) 18.1 7.5 7.2 19 8.3 8.8 26.2 11.2 11.4 15 17 15
y7 (1+) 30.7 19.2 17.4 31.6 23.1 19.6 44.1 30 26.2 15 17 15
y8 (1+) 24.2 12.8 8.2 24.3 14.5 10.5 34.3 19.3 13.3 15 17 15
y9 (1+) 31.2 20.4 15.5 25.2 18.8 16 40.1 27.7 22.3 15 17 15
sum 17.8 5.3 3.7 17.5 6 5.3 25 8 6.5 15 17 15

Additional Resources and Comments

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

Assay Details for CPTAC-5877 Collapse assay details

Data source: Panorama

Official Gene Symbol
FBN1
Peptide Modified Sequence
YEDEEC[+57.021464]TLPIAGR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
962
Peptide End
974
CPTAC ID
CPTAC-5877
Peptide Molecular Mass
1,551.6875
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
FFPE breast cancer tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 6500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
10.0 µL/min

Chromatograms

Data source: Panorama

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
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
y11 (2+) 68.9 44.6 43.3 69.3 45.6 55 97.7 63.8 70 12 12 12
y5 (1+) 10.2 11.6 10 12.6 12.7 9.4 16.2 17.2 13.7 12 12 12
y7 (1+) 33.1 15.1 24.9 26.7 14.5 24.3 42.5 20.9 34.8 12 12 12
y8 (1+) 28.6 15.7 19.8 30.7 15.7 17.6 42 22.2 26.5 12 12 12
y9 (1+) 24.9 16.3 9.4 36 20.8 18.7 43.8 26.4 20.9 12 12 12
sum 13.7 7.5 8.5 16.4 9.2 8.2 21.4 11.9 11.8 12 12 12

Additional Resources and Comments

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