Thbs4, CPTAC-3954 - CPTAC Assay Portal | Office of Cancer Clinical Proteomics Research

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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.

Overview Data source: UniProt

Official Gene Symbol	Other Aliases
Thbs4	Tsp4

Sequence Length (AA)	Molecular Weight (Da)
963	106366

Protein Name
Thrombospondin-4

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MPAPRAAAAA	FLLLHLVLQP	WQRTSAQATP	QVFDLLPSSS	QRLNPSALQP
60	70	80	90	100
VLTDPTLHEV	YLISTFKLQS	KSSATIFGLY	SSSDNSKYFE	FTVMGRLNKA
110	120	130	140	150
ILRYLKNDGK	IHLVVFNNLQ	LADGRRHRVL	LRLSNLQRGD	GSVELYLDCA
160	170	180	190	200
QADSVRNLPR	AFSGLTQNPE	SIELRTFQRK	PQDFLEELKL	VVRGSLFQVA
210	220	230	240	250
SLQDCFLQQS	EPLAATSTGD	FNRQFLGQMT	QLNQLLGEVK	DLLRQQVKET
260	270	280	290	300
SFLRNTIAEC	QACGPLSFQS	PTPNTLVPIA	PPAPPTRPTR	HCDSSPCFRG
310	320	330	340	350
VRCTDTRDGF	QCGPCPDGYT	GNGITCSDVD	ECKYHPCYPG	VRCVNLAPGF
360	370	380	390	400
RCDACPVGFT	GPMVQGVGIN	FAKTNKQVCT	DVDECQNGAC	VLNSICINTL
410	420	430	440	450
GSYRCGPCKP	GYTGDQTRGC	KTERSCRNPE	QNPCSVHAQC	IEERQGDVTC
460	470	480	490	500
VCGVGWAGDG	YVCGKDVDID	SYPDEELPCS	ARNCKKDNCK	YVPNSGQEDA
510	520	530	540	550
DRDGIGDACD	EDADGDGILN	EQDNCVLTHN	IDQRNSDKDI	FGDACDNCRM
560	570	580	590	600
VLNNDQKDTD	GDGRGDACDD	DMDGDGIKNI	LDNCPRVPNR	DQQDRDGDDV
610	620	630	640	650
GDACDSCPDV	SNPNQSDVDN	DLVGDSCDTN	QDSDGDGHQD	STDNCPTVIN
660	670	680	690	700
SSQLDTDKDG	IGDECDDDDD	NDGIPDLVPP	GPDNCRLVPN	PAQEDSNNDG
710	720	730	740	750
VGDICEADFD	QDQVIDHIDV	CPENAEITLT	DFRAYQTVVL	DPEGDAQIDP
760	770	780	790	800
NWVVLNQGME	IVQTMNSDPG	LAVGYTAFNG	VDFEGTFHVN	TQTDDDYAGF
810	820	830	840	850
IFGYQDSSSF	YVVMWKQTEQ	TYWQATPFRA	VAEPGIQLKA	VKSKTGPGEH
860	870	880	890	900
LRNSLWHTGD	TSDQVRLLWK	DSRNVGWKDK	VSYRWFLQHR	PQVGYIRVRF
910	920	930	940	950
YEGSELVADS	GVTIDTTMRG	GRLGVFCFSQ	ENIIWSNLKY	RCNDTIPEDF
960	963
QEFQTQSFDR	LDN

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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Assay Details for non-CPTAC-3954 Collapse assay details

Data source: Panorama

Official Gene Symbol: Thbs4
Peptide Sequence: AFSGLTQNPESIELR
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 161
Peptide End: 175

CPTAC ID: non-CPTAC-3954
Peptide Molecular Mass: 1,660.8421
Species: Mus musculus (Mouse)
Assay Type: Direct MRM
Matrix: Plasma
Submitting Laboratory: UVic-Genome BC Proteomics Centre
Submitting Lab PI: Christoph Borchers

Publication

View Details (opens in a new window)

Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays. Michaud SA, Sinclair NJ, Petrošová H, Palmer AL, Pistawka AJ, Zhang S, Hardie DB, Mohammed Y Eshghi A1, Richard VR, Sickmann A, Borchers CH. Commun Biol. 2018 Jun 27;1:78. doi: 10.1038/s42003-018-0087-6. eCollection 2018.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: Agilent 6490/6495 QQQ
Internal Standard: synthetic peptide
Peptide Standard Purity: >80%
Peptide Standard Label Type: 13C and 15N at C-terminus R

LC: 1290 LC (Agilent)
Column Packing: Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions: 2.1 x 150 mm
Flow Rate: 400 µL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

Repeatability

Data source: Panorama

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	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
y10 (1+)	11.5	2.1	2.2	14.7	3.1	7.1	18.7	3.7	7.4	15	15	15
y8 (1+)	10.6	4.4	2.1	44.9	7.9	5.1	46.1	9	5.5	15	15	15
y7 (1+)	13.7	3.3	2	17.2	9.1	5	22	9.7	5.4	15	15	15
y2 (1+)	15.9	9.3	3.3	122.5	14.9	7.2	123.5	17.6	7.9	15	15	15
y7 (2+)	32.9	16.1	28.1	52.1	20.7	25.2	61.6	26.2	37.7	15	15	15
sum	7.4	2.7	1.2	50.2	7.5	5.4	50.7	8	5.5	15	15	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

Comments

Assay Details for non-CPTAC-2703 Collapse assay details

Data source: Panorama

Official Gene Symbol: THBS4
Peptide Sequence: KPQDFLEELK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 178
Peptide End: 187

CPTAC ID: non-CPTAC-2703
Peptide Molecular Mass: 1,245.6605
Species: Homo sapiens (Human)
Assay Type: Direct MRM
Matrix: plasma
Submitting Laboratory: UVic-Genome BC Proteomics Centre
Submitting Lab PI: Christoph Borchers