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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.

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


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

Uniprot Database Entry PhosphoSitePlus ®

Click a point on a node
to view detailed assay information below
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


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  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

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


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


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  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

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

Additional Resources and Comments