Interrelations of Sphingolipid and Lysophosphatidate Signaling with Immune System in Ovarian Cancer.

From systems biology to systems medicine Integrative analysis algorithm On-site immune response Patient stratification Patient-specific expression data sets Sphingolipid/lysophosphatidate system

Journal

Computational and structural biotechnology journal
ISSN: 2001-0370
Titre abrégé: Comput Struct Biotechnol J
Pays: Netherlands
ID NLM: 101585369

Informations de publication

Date de publication:
2019
Historique:
received: 20 11 2018
revised: 03 04 2019
accepted: 05 04 2019
entrez: 4 5 2019
pubmed: 3 5 2019
medline: 3 5 2019
Statut: epublish

Résumé

The sphingolipid and lysophosphatidate regulatory networks impact diverse mechanisms attributed to cancer cells and the tumor immune microenvironment. Deciphering the complexity demands implementation of a holistic approach combined with higher-resolution techniques. We implemented a multi-modular integrative approach consolidating the latest accomplishments in gene expression profiling, prognostic/predictive modeling, next generation digital pathology, and systems biology for epithelial ovarian cancer. We assessed patient-specific transcriptional profiles using the sphingolipid/lysophosphatidate/immune-associated signature. This revealed novel sphingolipid/lysophosphatidate-immune gene-gene associations and distinguished tumor subtypes with immune high/low context. These were characterized by robust differences in sphingolipid-/lysophosphatidate-related checkpoints and the drug response. The analysis also nominates novel survival models for stratification of patients with

Identifiants

DOI: 10.1016/j.csbj.2019.04.004 PMID: 31049165 PMC: PMC6479272
pubmed: 31049165
doi: 10.1016/j.csbj.2019.04.004
pii: S2001-0370(18)30265-4
pmc: PMC6479272
doi:

Types de publication

Journal Article

Langues

eng

Pagination

537-560

Subventions

Organisme : Austrian Science Fund FWF
ID : P 28137
Pays : Austria

Références

Cell Signal. 2007 Apr;19(4):748-60
pubmed: 17113265
Curr Biol. 2000 Nov 30;10(23):1527-30
pubmed: 11114522
J Cell Biol. 1998 Jan 12;140(1):39-47
pubmed: 9425152
J Biol Chem. 2004 Nov 26;279(48):50580-90
pubmed: 15377653
NPJ Precis Oncol. 2017 Aug 15;1(1):26
pubmed: 29872708
J Nutr. 2007 Mar;137(3):548-53
pubmed: 17311938
J Biol Chem. 2008 Feb 29;283(9):5677-84
pubmed: 18165233
Cancer Metastasis Rev. 2011 Dec;30(3-4):567-76
pubmed: 22005951
Cell Mol Life Sci. 2011 Oct;68(20):3293-305
pubmed: 21533981
Lancet. 2018 May 26;391(10135):2128-2139
pubmed: 29754777
J Lipid Res. 2016 Apr;57(4):597-606
pubmed: 26884614
Oncotarget. 2016 Apr 19;7(16):22295-323
pubmed: 26967245
Eur J Cancer. 2014 Jan;50(1):99-110
pubmed: 24176298
J Neurochem. 2007 Mar;100(5):1203-10
pubmed: 17316399
J Immunol. 2016 Feb 15;196(4):1579-90
pubmed: 26783340
J Cell Biol. 2006 Apr 24;173(2):301-10
pubmed: 16636149
Nature. 2015 May 28;521(7553):489-94
pubmed: 26017449
PLoS Med. 2015 Feb 24;12(2):e1001789
pubmed: 25710373
Cytokine. 2012 May;58(2):133-47
pubmed: 22349527
Trends Cell Biol. 2012 Jan;22(1):50-60
pubmed: 22001186
Biochim Biophys Acta. 2015 Oct;1853(10 Pt B):2834-45
pubmed: 25634657
J Recept Signal Transduct Res. 2015;35(6):578-84
pubmed: 26393967
Nat Rev Drug Discov. 2013 Sep;12(9):688-702
pubmed: 23954895
Trends Cancer. 2017 Nov;3(11):748-752
pubmed: 29120750
Thorax. 2012 Feb;67(2):147-56
pubmed: 22106015
J Lipid Res. 2014 Nov;55(11):2389-400
pubmed: 25210149
J Cell Sci. 1999 Feb;112 ( Pt 3):415-22
pubmed: 9885294
Stat Med. 2011 May 10;30(10):1105-17
pubmed: 21484848
J Biochem. 2012 Oct;152(4):305-11
pubmed: 22923732
Blood. 2008 Aug 15;112(4):1129-38
pubmed: 18541717
Nat Med. 2015 Aug;21(8):938-945
pubmed: 26193342
Blood. 2017 Mar 2;129(9):1177-1183
pubmed: 28069607
Cell Signal. 2009 Jun;21(6):836-46
pubmed: 19385042
Scand J Immunol. 2008 May;67(5):453-63
pubmed: 18405323
Biomolecules. 2013;3(3):null
pubmed: 24286034
Neoplasia. 2015 Sep;17(9):723-734
pubmed: 26476080
Curr Top Microbiol Immunol. 2007;314:113-41
pubmed: 17593659
FASEB J. 2006 Mar;20(3):509-11
pubmed: 16319133
Cancers (Basel). 2018 Mar 15;10(3):null
pubmed: 29543710
Oncotarget. 2017 Jan 17;8(3):4008-4042
pubmed: 28008141
Curr Mol Med. 2010 Jul;10(5):454-66
pubmed: 20540705
Nat Genet. 2016 Aug;48(8):867-76
pubmed: 27399967
FEBS Lett. 2004 Nov 19;577(3):333-8
pubmed: 15556605
J Lipid Res. 2014 Aug;55(8):1596-608
pubmed: 24459205
Oncotarget. 2016 Apr 26;7(17):23106-27
pubmed: 27036015
Leukemia. 2006 Jan;20(1):95-102
pubmed: 16281067
Eur J Cancer. 2005 Aug;41(12):1690-6
pubmed: 16043346
Blood. 2000 May 1;95(9):2897-904
pubmed: 10779437
Cell Microbiol. 2008 Sep;10(9):1839-53
pubmed: 18485117
Lipids Health Dis. 2015 Jul 15;14:72
pubmed: 26174150
Int J Gynecol Cancer. 2013 Feb;23(2):268-75
pubmed: 23358178
Nat Commun. 2013;4:2126
pubmed: 23839242
Chem Rev. 2011 Oct 12;111(10):6299-320
pubmed: 21939239
Arch Gynecol Obstet. 2017 Mar;295(3):569-576
pubmed: 28154920
FEBS Lett. 2007 Jun 26;581(16):3063-8
pubmed: 17555747
J Biol Chem. 2003 Oct 10;278(41):39931-40
pubmed: 12890682
Proc Natl Acad Sci U S A. 1998 Dec 8;95(25):14863-8
pubmed: 9843981
Oncogene. 2014 Jun 26;33(26):3364-73
pubmed: 23893239
Int J Mol Sci. 2014 Mar 12;15(3):4356-92
pubmed: 24625663
Prog Lipid Res. 2012 Jan;51(1):50-62
pubmed: 22133871
Nat Rev Cancer. 2010 Jul;10(7):489-503
pubmed: 20555359
Clin Cancer Res. 2017 Dec 15;23(24):7621-7632
pubmed: 28972047
Stem Cells. 2016 Mar;34(3):551-64
pubmed: 26800320
Biochem J. 2005 Aug 15;390(Pt 1):263-71
pubmed: 15823095
Endocr Relat Cancer. 2015 Aug;22(4):593-607
pubmed: 26037280
J Clin Invest. 2004 Oct;114(8):1082-9
pubmed: 15489955
Lab Invest. 2017 Jan;97(1):4-13
pubmed: 27869795
J Biomed Res. 2016 Jul;30(4):272-84
pubmed: 27533936
PLoS One. 2011;6(10):e25611
pubmed: 21984922
Adv Bioinformatics. 2008;2008:420747
pubmed: 19956698
PLoS Biol. 2014 Oct 14;12(10):e1001966
pubmed: 25313567
Future Oncol. 2010 Oct;6(10):1603-24
pubmed: 21062159
FASEB J. 2015 Sep;29(9):3990-4000
pubmed: 26071407
Biol Chem. 2015 Jun;396(6-7):707-36
pubmed: 25803076
J Lipid Res. 2008 Jul;49(7):1388-94
pubmed: 18387885
Biometrics. 2000 Mar;56(1):249-55
pubmed: 10783803
Brief Bioinform. 2011 May;12(3):215-29
pubmed: 21245078
NPJ Precis Oncol. 2018 Sep 17;2:20
pubmed: 30246154
Bioorg Med Chem Lett. 2004 Oct 4;14(19):4903-6
pubmed: 15341948
CA Cancer J Clin. 2017 Jan;67(1):7-30
pubmed: 28055103
J Cell Biochem. 2003 Jun 1;89(3):507-19
pubmed: 12761884
J Gynecol Oncol. 2017 Mar;28(2):e20
pubmed: 28028993
J Stat Softw. 2011 Mar;39(5):1-13
pubmed: 27065756
J Biol Chem. 2012 Jan 27;287(5):3197-206
pubmed: 22144673
PLoS One. 2014 Jun 06;9(6):e99008
pubmed: 24905750
Clin Cancer Res. 2008 Aug 15;14(16):5198-208
pubmed: 18698038
Bioorg Med Chem Lett. 2017 Jan 1;27(1):1-5
pubmed: 27894870
BMC Genomics. 2016 Aug 16;17(1):643
pubmed: 27527602
Expert Opin Ther Targets. 2017 Jul;21(7):725-737
pubmed: 28524744

Auteurs

Anastasia Meshcheryakova (A)

Molecular Systems Biology and Pathophysiology Research Group, Department of Pathophysiology and Allergy Research, Center for Pathophysiology, Infectiology and Immunology, Medical University of Vienna, Vienna, Austria.

Martin Svoboda (M)

Molecular Systems Biology and Pathophysiology Research Group, Department of Pathophysiology and Allergy Research, Center for Pathophysiology, Infectiology and Immunology, Medical University of Vienna, Vienna, Austria.

Markus Jaritz (M)

Research Institute of Molecular Pathology, Vienna Biocenter, Vienna, Austria.

Felicitas Mungenast (F)

Molecular Systems Biology and Pathophysiology Research Group, Department of Pathophysiology and Allergy Research, Center for Pathophysiology, Infectiology and Immunology, Medical University of Vienna, Vienna, Austria.

Martina Salzmann (M)

Molecular Systems Biology and Pathophysiology Research Group, Department of Pathophysiology and Allergy Research, Center for Pathophysiology, Infectiology and Immunology, Medical University of Vienna, Vienna, Austria.

Dietmar Pils (D)

Sectionfor Clinical Biometrics, Center for Medical Statistics, Informatics, and Intelligent Systems, Medical University of Vienna, Vienna, Austria.

Dan Cacsire Castillo-Tong (D)

Translational Gynecology Group, Department of Obstetrics and Gynecology, Comprehensive Cancer Center, Medical University of Vienna, Vienna, Austria.

Gudrun Hager (G)

Molecular Oncology Group, Department of Obstetrics and Gynecology and Comprehensive Cancer Center, Gynecologic Cancer Unit, Medical University of Vienna, Vienna, Austria.

Andrea Wolf (A)

Translational Gynecology Group, Department of Obstetrics and Gynecology, Comprehensive Cancer Center, Medical University of Vienna, Vienna, Austria.

Elena Ioana Braicu (EI)

Charité - Universitätsmedizin Berlin, Humboldt-Universität zu Berlin, Berlin Institute of Health, Department of Gynecology, Berlin, Germany.

Jalid Sehouli (J)

Charité - Universitätsmedizin Berlin, Humboldt-Universität zu Berlin, Berlin Institute of Health, Department of Gynecology, Berlin, Germany.

Sandrina Lambrechts (S)

Division of Gynecologic Oncology, University Hospital Leuven, Leuven Cancer Institute, KU Leuven, Leuven, Belgium.

Ignace Vergote (I)

Division of Gynecologic Oncology, University Hospital Leuven, Leuven Cancer Institute, KU Leuven, Leuven, Belgium.

Sven Mahner (S)

Department of Gynecology and Gynecologic Oncology, University Medical Center Hamburg-Eppendorf, Hamburg, Germany.

Peter Birner (P)

Department of Pathology, Medical University of Vienna, Vienna, Austria.

Philip Zimmermann (P)

Nebion AG, Zürich, Switzerland.

David N Brindley (DN)

Cancer Research Institute of Northern Alberta, Department of Biochemistry, University of Alberta, Edmonton, Alberta, Canada.

Georg Heinze (G)

Sectionfor Clinical Biometrics, Center for Medical Statistics, Informatics, and Intelligent Systems, Medical University of Vienna, Vienna, Austria.

Robert Zeillinger (R)

Molecular Oncology Group, Department of Obstetrics and Gynecology and Comprehensive Cancer Center, Gynecologic Cancer Unit, Medical University of Vienna, Vienna, Austria.

Diana Mechtcheriakova (D)

Molecular Systems Biology and Pathophysiology Research Group, Department of Pathophysiology and Allergy Research, Center for Pathophysiology, Infectiology and Immunology, Medical University of Vienna, Vienna, Austria.

Classifications MeSH