A mouse SWATH-mass spectrometry reference spectral library enables deconvolution of species-specific proteomic alterations in human tumour xenografts.
Animals
Breast Neoplasms
/ metabolism
Carcinoma, Intraductal, Noninfiltrating
/ metabolism
Cell Communication
Cell Line, Tumor
Chromatography, Liquid
Databases, Protein
Female
Heterografts
Humans
Male
Mice
Mice, Inbred C57BL
Mice, Nude
Mice, SCID
NIH 3T3 Cells
Neoplasm Proteins
/ metabolism
Neoplasm Transplantation
Proteome
Proteomics
Species Specificity
Stromal Cells
/ metabolism
Tandem Mass Spectrometry
Tumor Microenvironment
Breast cancer
DCIS
Mass spectrometry
Mouse
Proteomics
SWATH-MS
Xenografts
Journal
Disease models & mechanisms
ISSN: 1754-8411
Titre abrégé: Dis Model Mech
Pays: England
ID NLM: 101483332
Informations de publication
Date de publication:
14 07 2020
14 07 2020
Historique:
received:
22
02
2020
accepted:
20
05
2020
pubmed:
5
6
2020
medline:
24
8
2021
entrez:
5
6
2020
Statut:
epublish
Résumé
SWATH-mass spectrometry (MS) enables accurate and reproducible proteomic profiling in multiple model organisms including the mouse. Here, we present a comprehensive mouse reference spectral library (MouseRefSWATH) that permits quantification of up to 10,597 proteins (62.2% of the mouse proteome) by SWATH-MS. We exploit MouseRefSWATH to develop an analytical pipeline for species-specific deconvolution of proteomic alterations in human tumour xenografts (XenoSWATH). This method overcomes the challenge of high sequence similarity between mouse and human proteins, facilitating the study of host microenvironment-tumour interactions from 'bulk tumour' measurements. We apply the XenoSWATH pipeline to characterize an intraductal xenograft model of breast ductal carcinoma
Identifiants
pubmed: 32493768
pii: dmm.044586
doi: 10.1242/dmm.044586
pmc: PMC7375474
pii:
doi:
Substances chimiques
Neoplasm Proteins
0
Proteome
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : Cancer Research UK
ID : CRUK/A19763
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_U12266B
Pays : United Kingdom
Informations de copyright
© 2020. Published by The Company of Biologists Ltd.
Déclaration de conflit d'intérêts
Competing interestsThe authors declare no competing or financial interests.
Références
Oncotarget. 2014 Jul 30;5(14):5570-80
pubmed: 25015194
J Proteomics. 2018 Oct 30;189:11-22
pubmed: 29501709
Mol Cell Proteomics. 2015 Dec;14(12):3105-17
pubmed: 26628741
Nat Genet. 2003 Jul;34(3):267-73
pubmed: 12808457
Mol Cell Proteomics. 2018 Sep;17(9):1766-1777
pubmed: 29945935
Cancer Cell. 2016 Mar 14;29(3):407-422
pubmed: 26947176
Int J Mol Sci. 2019 May 22;20(10):
pubmed: 31121957
Dis Model Mech. 2008 Sep-Oct;1(2-3):78-82
pubmed: 19048064
Nature. 2002 Dec 5;420(6915):520-62
pubmed: 12466850
Sci Data. 2019 Feb 12;6:190011
pubmed: 30747917
Bioinformatics. 2019 Jul 15;35(14):i436-i445
pubmed: 31510660
Mol Syst Biol. 2005;1:2005.0017
pubmed: 16729052
Breast Cancer Res. 2009;11(5):R66
pubmed: 19735549
Cell. 2008 May 16;133(4):704-15
pubmed: 18485877
Amyotroph Lateral Scler Frontotemporal Degener. 2018 Aug;19(5-6):362-376
pubmed: 29384411
Clin Proteomics. 2019 Jun 20;16:26
pubmed: 31249499
Nat Biotechnol. 2014 Mar;32(3):223-6
pubmed: 24727771
J Proteome Res. 2019 Mar 1;18(3):1340-1351
pubmed: 30726097
Nat Med. 2011 Aug 07;17(9):1109-15
pubmed: 21822285
J Mammary Gland Biol Neoplasia. 2018 Dec;23(4):207-221
pubmed: 30168075
Clin Exp Metastasis. 2007;24(2):69-78
pubmed: 17370041
Nat Commun. 2017 Aug 21;8(1):291
pubmed: 28827567
Cell Rep. 2019 Jul 16;28(3):832-843.e7
pubmed: 31315058
BMC Cancer. 2018 Dec 17;18(1):1255
pubmed: 30558665
Proteomics. 2016 Aug;16(15-16):2246-56
pubmed: 27213465
J Clin Oncol. 2005 Feb 1;23(4):732-40
pubmed: 15681518
Cell. 2019 Jun 13;177(7):1903-1914.e14
pubmed: 31031007
J Pathol. 2017 Oct;243(2):193-207
pubmed: 28707729
Mol Cell Proteomics. 2015 May;14(5):1400-10
pubmed: 25724911
Proteomics. 2012 Apr;12(8):1111-21
pubmed: 22577012
BMC Bioinformatics. 2011 Nov 09;12:436
pubmed: 22070249
Nat Commun. 2016 Jan 06;7:10261
pubmed: 26732734
Proteomics. 2017 Nov;17(21):
pubmed: 28922568
PLoS One. 2018 Mar 7;13(3):e0193799
pubmed: 29513714
J Natl Cancer Inst. 2000 Jul 19;92(14):1185-6
pubmed: 10904098
Nature. 2013 Feb 14;494(7436):266-70
pubmed: 23334424
Sci Rep. 2017 Apr 05;7:45913
pubmed: 28378759
Mol Cell Proteomics. 2012 Jun;11(6):O111.016717
pubmed: 22261725
Nat Med. 2015 Apr;21(4):407-13
pubmed: 25730263
Cell. 2012 Dec 21;151(7):1457-73
pubmed: 23245941
Oncol Lett. 2018 Apr;15(4):5285-5293
pubmed: 29552168
Nat Cell Biol. 2013 Jun;15(6):637-46
pubmed: 23708000
Sci Signal. 2017 Aug 08;10(491):
pubmed: 28790197
J Transl Med. 2014 Apr 07;12:92
pubmed: 24708788
J Proteome Res. 2010 Feb 5;9(2):761-76
pubmed: 19921851
Genome Res. 2003 Nov;13(11):2498-504
pubmed: 14597658
Proc Natl Acad Sci U S A. 2005 Oct 25;102(43):15545-50
pubmed: 16199517
BMC Bioinformatics. 2018 Oct 4;19(1):366
pubmed: 30286710
Proteomics. 2010 Mar;10(6):1150-9
pubmed: 20101611
Sci Data. 2014 Sep 16;1:140031
pubmed: 25977788
Breast Cancer Res. 2018 Sep 5;20(1):108
pubmed: 30185216
Mol Cell Proteomics. 2009 Nov;8(11):2405-17
pubmed: 19608599
Nucleic Acids Res. 2016 Jan 4;44(D1):D1251-7
pubmed: 26450961
Cancer Cell. 2008 May;13(5):394-406
pubmed: 18455123
PLoS One. 2018 Jun 4;13(6):e0197702
pubmed: 29864117
Proteomes. 2017 Jul 07;5(3):
pubmed: 28686225
J Proteome Res. 2016 Feb 5;15(2):680
pubmed: 26783832
Cell Rep. 2018 Mar 20;22(12):3362-3374
pubmed: 29562190
J Cancer Res Clin Oncol. 2013 May;139(5):727-37
pubmed: 23354841
J Immunol. 2012 Dec 15;189(12):5533-40
pubmed: 23125418
Mol Cell Proteomics. 2009 Nov;8(11):2595-612
pubmed: 19674965
Nat Methods. 2016 Sep;13(9):731-40
pubmed: 27348712
Mol Cell Proteomics. 2020 Jan;19(1):181-197
pubmed: 31699904
Mol Oncol. 2019 Nov;13(11):2305-2328
pubmed: 31495056