Data integration and mechanistic modelling for breast cancer biology: Current state and future directions.

Breast cancer Deep learning Multi-omics modelling Network biology Precision oncology

Journal

Current opinion in endocrine and metabolic research
ISSN: 2451-9650
Titre abrégé: Curr Opin Endocr Metab Res
Pays: England
ID NLM: 101722894

Informations de publication

Date de publication:
Jun 2022
Historique:
entrez: 29 8 2022
pubmed: 30 8 2022
medline: 30 8 2022
Statut: ppublish

Résumé

Breast cancer is one of the most common cancers threatening women worldwide. A limited number of available treatment options, frequent recurrence, and drug resistance exacerbate the prognosis of breast cancer patients. Thus, there is an urgent need for methods to investigate novel treatment options, while taking into account the vast molecular heterogeneity of breast cancer. Recent advances in molecular profiling technologies, including genomics, epigenomics, transcriptomics, proteomics and metabolomics data, enable approaching breast cancer biology at multiple levels of omics interaction networks. Systems biology approaches, including computational inference of 'big data' and mechanistic modelling of specific pathways, are emerging to identify potential novel combinations of breast cancer subtype signatures and more diverse targeted therapies.

Identifiants

pubmed: 36034741
doi: 10.1016/j.coemr.2022.100350
pii: S2451-9650(22)00035-7
pmc: PMC9402443
doi:

Types de publication

Journal Article Review

Langues

eng

Pagination

None

Informations de copyright

© 2022 The Author(s).

Références

Trends Cancer. 2021 Nov;7(11):1033-1046
pubmed: 34312120
Front Genet. 2019 Feb 21;10:110
pubmed: 30847004
Front Genet. 2019 Dec 11;10:1205
pubmed: 31921281
Nat Genet. 2013 Oct;45(10):1113-20
pubmed: 24071849
Front Genet. 2019 Mar 08;10:166
pubmed: 30906311
Sci Rep. 2019 Mar 7;9(1):3877
pubmed: 30846808
Cancers (Basel). 2019 Aug 24;11(9):
pubmed: 31450618
Genome Med. 2021 Jul 14;13(1):112
pubmed: 34261540
Radiology. 2018 Jun;287(3):732-747
pubmed: 29782246
Front Oncol. 2021 Jan 07;10:602416
pubmed: 33489906
Nat Rev Dis Primers. 2019 Sep 23;5(1):66
pubmed: 31548545
N Engl J Med. 2018 Nov 29;379(22):2108-2121
pubmed: 30345906
Nucleic Acids Res. 2019 Jan 8;47(D1):D941-D947
pubmed: 30371878
Bioinformatics. 2021 Feb 18;:
pubmed: 33599254
N Engl J Med. 2016 Sep 22;375(12):1109-12
pubmed: 27653561
J Clin Oncol. 2015 Apr 1;33(10):1128-35
pubmed: 25713430
J Hum Genet. 2021 Jan;66(1):93-102
pubmed: 32385339
NAR Cancer. 2020 Jun 25;2(2):zcaa011
pubmed: 34316686
Nature. 2016 May 25;534(7605):55-62
pubmed: 27251275
Lancet. 2020 Dec 5;396(10265):1817-1828
pubmed: 33278935
Nature. 2015 May 28;521(7553):436-44
pubmed: 26017442
Cell Metab. 2021 Jan 5;33(1):51-64.e9
pubmed: 33181091
Nat Commun. 2016 May 10;7:11479
pubmed: 27161491
Brief Bioinform. 2021 May 20;22(3):
pubmed: 34020542
Cancer Discov. 2014 Sep;4(9):998-1013
pubmed: 25185190
Nat Commun. 2017 Mar 28;8:14864
pubmed: 28348404
Brief Bioinform. 2022 Jan 17;23(1):
pubmed: 34791014
BMC Genomics. 2021 Mar 24;22(1):214
pubmed: 33761889
Mol Syst Biol. 2021 Oct;17(10):e10141
pubmed: 34694069
Bioinformatics. 2020 Mar 1;36(5):1476-1483
pubmed: 31603461
Front Genet. 2020 Nov 12;11:564792
pubmed: 33281870
Mol Oncol. 2022 Jan;16(2):422-446
pubmed: 34197030
Nucleic Acids Res. 2013 Jan;41(Database issue):D991-5
pubmed: 23193258
J Proteome Res. 2016 Mar 4;15(3):1023-32
pubmed: 26860878
Cancers (Basel). 2021 Sep 19;13(18):
pubmed: 34572926
Lancet. 2021 May 8;397(10286):1750-1769
pubmed: 33812473
Nucleic Acids Res. 2018 Nov 16;46(20):10546-10562
pubmed: 30295871
Sci Rep. 2021 Nov 3;11(1):21545
pubmed: 34732772
Front Oncol. 2020 Jun 30;10:1030
pubmed: 32695678
PLoS Comput Biol. 2021 Aug 12;17(8):e1009224
pubmed: 34383739
Cancer Discov. 2012 May;2(5):401-4
pubmed: 22588877
Pharmgenomics Pers Med. 2019 May 27;12:59-73
pubmed: 31213877
Cancer Manag Res. 2021 Jul 01;13:5223-5237
pubmed: 34234565
Nucleic Acids Res. 2019 Jan 8;47(D1):D442-D450
pubmed: 30395289
Jpn J Clin Oncol. 2020 Mar 9;50(3):225-229
pubmed: 32147701
Nucleic Acids Res. 2013 Jan;41(Database issue):D955-61
pubmed: 23180760
Front Cell Dev Biol. 2020 Jan 22;7:395
pubmed: 32039208
Comput Biol Med. 2021 Jul;134:104481
pubmed: 33989895
Nat Rev Drug Discov. 2021 Oct;20(10):741-769
pubmed: 34127844
Am J Pathol. 2017 Oct;187(10):2175-2184
pubmed: 28736317
BMC Med Inform Decis Mak. 2020 Sep 15;20(1):225
pubmed: 32933515
JAMA. 2019 Jan 22;321(3):288-300
pubmed: 30667505
NAR Cancer. 2021 Sep 09;3(3):zcab035
pubmed: 34514415
Nat Methods. 2018 Jun;15(6):399-400
pubmed: 29855577
Nat Biotechnol. 2019 Apr;37(4):367-369
pubmed: 30877282
Biotechnol Adv. 2021 Jul-Aug;49:107739
pubmed: 33794304
Bioinformatics. 2019 Jul 15;35(14):i501-i509
pubmed: 31510700
BMC Cancer. 2019 Mar 12;19(1):219
pubmed: 30866861
Nucleic Acids Res. 2020 Jan 8;48(D1):D440-D444
pubmed: 31691833
Cell. 2020 Nov 25;183(5):1436-1456.e31
pubmed: 33212010
Ther Adv Med Oncol. 2018 Jul 17;10:1758835918786451
pubmed: 30038670
Nature. 2012 Apr 18;486(7403):346-52
pubmed: 22522925

Auteurs

Hanyi Mo (H)

Division of Evolution, Infection and Genomics, School of Biological Sciences, University of Manchester, Manchester, M13 9PT, UK.
Division of Molecular and Cellular Function, School of Biological Sciences, University of Manchester, Manchester, M13 9PT, UK.

Rainer Breitling (R)

Manchester Institute of Biotechnology, School of Natural Sciences, University of Manchester, Manchester, M1 7DN, UK.

Chiara Francavilla (C)

Division of Molecular and Cellular Function, School of Biological Sciences, University of Manchester, Manchester, M13 9PT, UK.
Manchester Breast Centre, Manchester Cancer Research Centre, University of Manchester, M13 9PT, Manchester, UK.

Jean-Marc Schwartz (JM)

Division of Evolution, Infection and Genomics, School of Biological Sciences, University of Manchester, Manchester, M13 9PT, UK.

Classifications MeSH