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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.

LYL1

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
LYL1 BHLHA18
Sequence Length (AA) Molecular Weight (Da)
280 29938
Protein Name
Protein lyl-1
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

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

Protein Map Collapse protein map

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

Uniprot Database Entry PhosphoSitePlus ®

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All other points link out to UniProt


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

CPTAC-1168:
FCER1G.
AAITSYEK 		CPTAC-1169:
MELK.
DLKPENLLFDEYHK 		CPTAC-1170:
PEPD.
VPLALFALNR
CPTAC-1171:
PES1.
LAALSASLAR 		CPTAC-1172:
PTPRC.
LFLAEFQSIPR 		CPTAC-1173:
SYK.
NYLGGFALSVAHGR
CPTAC-1174:
SYK.
LIATTAHEK 		CPTAC-1175:
ANKRD27.
LYDLPDEPFTR 		CPTAC-1176:
ASGR2.
ADHDALLFHLK
CPTAC-1177:
C3AR1.
STHC[+57.0]PSNNVISER 		CPTAC-1178:
CD79A.
SHGGIYVC[+57.0]R 		CPTAC-1179:
CEACAM1.
TIIVTELSPVVAKPQIK
CPTAC-1180:
COL3A1.
GPVGPSGPPGK 		CPTAC-1181:
CYBB.
LLGSALALAR 		CPTAC-1182:
EVI2B.
STLLADDLEIK
CPTAC-1183:
FCGR2B.
VTFFQNGK 		CPTAC-1184:
GPR20.
YLAIVRPEGSR 		CPTAC-1185:
SIX6.
AIVAFHGGNYR
CPTAC-1186:
THBS2.
GTLLALEGPGLSQR 		CPTAC-1187:
TOP2A.
TLAVSGLGVVGR 		CPTAC-1188:
TSPAN14.
TLISDIEAVK
CPTAC-1189:
TLE1.
FTIPESLDR 		CPTAC-1190:
SLC7A9.
LGSYVQNIFTAAK 		CPTAC-1191:
SLC7A9.
VLSYISVR
CPTAC-1192:
PEPD.
FEVNNTILHPEIVEC[+57.0]R 		CPTAC-1193:
PES1.
FLLHEPIVNK 		CPTAC-1194:
TARS.
AELNPWPEYIYTR
CPTAC-1195:
TARS.
GFQEVVTPNIFNSR 		CPTAC-1196:
STARD3NL.
VLILAYAVC[+57.0]R 		CPTAC-1197:
STARD3NL.
LLIVQDASER
CPTAC-1198:
ANKRD27.
LNDPSVVTPFSR 		CPTAC-1199:
CD48.
LQVLDPVPKPVIK 		CPTAC-1200:
CDK1.
LESEEEGVPSTAIR
CPTAC-1201:
COL11A1.
GFDGLPGLPGDK 		CPTAC-1202:
COL11A1.
GEVGQIGPR 		CPTAC-1203:
CYBB.
IGVFLC[+57.0]GPEALAETLSK
CPTAC-1204:
DLGAP5.
DVNIPTLEGR 		CPTAC-1205:
DLGAP5.
IAQPHHGVPYFR 		CPTAC-1206:
ETS1.
YENDYPSVILR
CPTAC-1207:
EVI2B.
STPGFILDTTSNK 		CPTAC-1208:
LYL1.
DQAAALAAGPTPPGPR 		CPTAC-1209:
LYL1.
SQPAPPADPDGSPGGAARPIK
CPTAC-1210:
MCM10.
GTNLIIQETR 		CPTAC-1211:
MCM10.
IGGETLLPR 		CPTAC-1212:
OSGIN1.
AVDDPGLVFNQLPK
CPTAC-1213:
PIK3CD.
GELLNPTGTVR 		CPTAC-1214:
SFTPA1.
NPEENEAIASFVK 		CPTAC-1215:
ZNF507.
TKPDPLIHVIQK
CPTAC-1216:
ZNF592.
AAPLIVEVFNK 		CPTAC-1217:
ANXA11.
TPVLFDIYEIK 		CPTAC-1218:
ANXA11.
DAQELYAAGENR

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
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

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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

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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

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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

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
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

CPTAC-1168:
FCER1G.
AAITSYEK 		CPTAC-1169:
MELK.
DLKPENLLFDEYHK 		CPTAC-1170:
PEPD.
VPLALFALNR
CPTAC-1171:
PES1.
LAALSASLAR 		CPTAC-1172:
PTPRC.
LFLAEFQSIPR 		CPTAC-1173:
SYK.
NYLGGFALSVAHGR
CPTAC-1174:
SYK.
LIATTAHEK 		CPTAC-1175:
ANKRD27.
LYDLPDEPFTR 		CPTAC-1176:
ASGR2.
ADHDALLFHLK
CPTAC-1177:
C3AR1.
STHC[+57.0]PSNNVISER 		CPTAC-1178:
CD79A.
SHGGIYVC[+57.0]R 		CPTAC-1179:
CEACAM1.
TIIVTELSPVVAKPQIK
CPTAC-1180:
COL3A1.
GPVGPSGPPGK 		CPTAC-1181:
CYBB.
LLGSALALAR 		CPTAC-1182:
EVI2B.
STLLADDLEIK
CPTAC-1183:
FCGR2B.
VTFFQNGK 		CPTAC-1184:
GPR20.
YLAIVRPEGSR 		CPTAC-1185:
SIX6.
AIVAFHGGNYR
CPTAC-1186:
THBS2.
GTLLALEGPGLSQR 		CPTAC-1187:
TOP2A.
TLAVSGLGVVGR 		CPTAC-1188:
TSPAN14.
TLISDIEAVK
CPTAC-1189:
TLE1.
FTIPESLDR 		CPTAC-1190:
SLC7A9.
LGSYVQNIFTAAK 		CPTAC-1191:
SLC7A9.
VLSYISVR
CPTAC-1192:
PEPD.
FEVNNTILHPEIVEC[+57.0]R 		CPTAC-1193:
PES1.
FLLHEPIVNK 		CPTAC-1194:
TARS.
AELNPWPEYIYTR
CPTAC-1195:
TARS.
GFQEVVTPNIFNSR 		CPTAC-1196:
STARD3NL.
VLILAYAVC[+57.0]R 		CPTAC-1197:
STARD3NL.
LLIVQDASER
CPTAC-1198:
ANKRD27.
LNDPSVVTPFSR 		CPTAC-1199:
CD48.
LQVLDPVPKPVIK 		CPTAC-1200:
CDK1.
LESEEEGVPSTAIR
CPTAC-1201:
COL11A1.
GFDGLPGLPGDK 		CPTAC-1202:
COL11A1.
GEVGQIGPR 		CPTAC-1203:
CYBB.
IGVFLC[+57.0]GPEALAETLSK
CPTAC-1204:
DLGAP5.
DVNIPTLEGR 		CPTAC-1205:
DLGAP5.
IAQPHHGVPYFR 		CPTAC-1206:
ETS1.
YENDYPSVILR
CPTAC-1207:
EVI2B.
STPGFILDTTSNK 		CPTAC-1208:
LYL1.
DQAAALAAGPTPPGPR 		CPTAC-1209:
LYL1.
SQPAPPADPDGSPGGAARPIK
CPTAC-1210:
MCM10.
GTNLIIQETR 		CPTAC-1211:
MCM10.
IGGETLLPR 		CPTAC-1212:
OSGIN1.
AVDDPGLVFNQLPK
CPTAC-1213:
PIK3CD.
GELLNPTGTVR 		CPTAC-1214:
SFTPA1.
NPEENEAIASFVK 		CPTAC-1215:
ZNF507.
TKPDPLIHVIQK
CPTAC-1216:
ZNF592.
AAPLIVEVFNK 		CPTAC-1217:
ANXA11.
TPVLFDIYEIK 		CPTAC-1218:
ANXA11.
DAQELYAAGENR

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
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

view larger image
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

view larger image
Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
y17 (2+) 7.4 8.8 5.8 2.7 8
y9 (1+) 13.9 7.7 12.9 10.4 18.4
y9 (2+) 18.1 23.9 27.5 9.1 26.1
sum 7.6 7 2.6 1.4 2.7
Fragment ion / Transition all_intra_CV all_inter_CV
y17 (2+) 6.9 6
y9 (1+) 11.8 13.8
y9 (2+) 21.4 24.5
sum 4.7 5.5

Endogenous

Data source: Panorama

view larger image
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

Additional Resources and Comments

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