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TCSBN: A database of tissue and cancer specific biological networks
KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Biotechnology (BIO), Proteomics and Nanobiotechnology.ORCID iD: 0000-0002-6428-5936
KTH, School of Biotechnology (BIO), Proteomics and Nanobiotechnology. KTH, Centres, Science for Life Laboratory, SciLifeLab.ORCID iD: 0000-0002-8640-9370
KTH, Centres, Science for Life Laboratory, SciLifeLab. KTH, School of Biotechnology (BIO), Proteomics and Nanobiotechnology.
KTH, Centres, Science for Life Laboratory, SciLifeLab.
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2018 (English)In: Nucleic Acids Research, ISSN 0305-1048, E-ISSN 1362-4962, Vol. 46, no D1, p. D595-D600Article in journal (Refereed) Published
Abstract [en]

Biological networks provide new opportunities for understanding the cellular biology in both health and disease states. We generated tissue specific integrated networks (INs) for liver, muscle and adipose tissues by integrating metabolic, regulatory and protein-protein interaction networks. We also generated human co-expression networks (CNs) for 46 normal tissues and 17 cancers to explore the functional relationships between genes as well as their relationships with biological functions, and investigate the overlap between functional and physical interactions provided by CNs and INs, respectively. These networks can be employed in the analysis of omics data, provide detailed insight into disease mechanisms by identifying the key biological components and eventually can be used in the development of efficient treatment strategies. Moreover, comparative analysis of the networks may allow for the identification of tissue-specific targets that can be used in the development of drugs with the minimum toxic effect to other human tissues. These context-specific INs and CNs are presented in an interactive website http://inetmodels.com without any limitation. 

Place, publisher, year, edition, pages
Oxford University Press , 2018. Vol. 46, no D1, p. D595-D600
Keywords [en]
fatty acid synthase, lipid, adipose tissue, Article, cancer research, case study, coexpression network, comparative study, data base, drug targeting, gene, gene expression, human, integrated network, lipogenesis, liquid chromatography-mass spectrometry, liver tissue, muscle tissue, omics, priority journal, protein protein interaction, protein protein interaction network, RNA sequence, tissue cancer specific biological network, tissue specificity
National Category
Biological Sciences
Identifiers
URN: urn:nbn:se:kth:diva-223201DOI: 10.1093/nar/gkx994ISI: 000419550700090Scopus ID: 2-s2.0-85040915985OAI: oai:DiVA.org:kth-223201DiVA, id: diva2:1186279
Funder
Knut and Alice Wallenberg FoundationScience for Life Laboratory - a national resource center for high-throughput molecular bioscience
Note

Export Date: 13 February 2018; Article; CODEN: NARHA; Correspondence Address: Mardinoglu, A.; Science for Life Laboratory, KTH-Royal Institute of TechnologySweden; email: adilm@scilifelab.se QC 20180228

Available from: 2018-02-28 Created: 2018-02-28 Last updated: 2018-02-28Bibliographically approved

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Lee, SunjaeZhang, ChengUhlén, Mathias

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Lee, SunjaeZhang, ChengArif, MuhammadLiu, ZhengtaoBenfeitas, RuiBidkhori, GholamrezaDeshmukh, SumitAl Shobky, MohamedLovric, AlenNielsen, J.Uhlén, MathiasMardinoglu, Adil
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