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Volumn 6, Issue DEC, 2015, Pages

Forward individualized medicine from personal genomes to interactomes

Author keywords

Gene regulatory networks (GRN); Genome scale metabolic models; Integrative genomics; Interactome; Network medicine; Personalized medicine; Protein protein interaction (PPI)

Indexed keywords

METFORMIN; ROSIGLITAZONE;

EID: 84953279998     PISSN: None     EISSN: 1664042X     Source Type: Journal    
DOI: 10.3389/fphys.2015.00364     Document Type: Review
Times cited : (20)

References (115)
  • 1
    • 84975742565 scopus 로고    scopus 로고
    • A map of human genome variation from population-scale sequencing
    • Abecasis, G. R., Altshuler, D., Auton, A., Brooks, L. D., Durbin, R. M., et al. (2010). A map of human genome variation from population-scale sequencing. Nature 467, 1061-1073. doi: 10.1038/nature09534
    • (2010) Nature , vol.467 , pp. 1061-1073
    • Abecasis, G.R.1    Altshuler, D.2    Auton, A.3    Brooks, L.D.4    Durbin, R.M.5
  • 2
    • 84975795680 scopus 로고    scopus 로고
    • An integrated map of genetic variation from 1,092 human genomes
    • Abecasis, G. R., Auton, A., Brooks, L. D., DePristo, M. A., Durbin, R. M., et al. (2012). An integrated map of genetic variation from 1,092 human genomes. Nature 491, 56-65. doi: 10.1038/nature11632
    • (2012) Nature , vol.491 , pp. 56-65
    • Abecasis, G.R.1    Auton, A.2    Brooks, L.D.3    DePristo, M.A.4    Durbin, R.M.5
  • 3
    • 84943171338 scopus 로고    scopus 로고
    • A global reference for human genetic variation
    • Auton, A., Brooks, L. D., Durbin, R. M., Garrison, E. P., Kang, H. M., et al. (2015). A global reference for human genetic variation. Nature 526, 68-74. doi: 10.1038/nature15393
    • (2015) Nature , vol.526 , pp. 68-74
    • Auton, A.1    Brooks, L.D.2    Durbin, R.M.3    Garrison, E.P.4    Kang, H.M.5
  • 4
    • 84863662483 scopus 로고    scopus 로고
    • Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using init
    • Agren, R., Bordel, S., Mardinoglu, A., Pornputtapong, N., Nookaew, I., and Nielsen, J. (2012). Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using init. PLoS Comput. Biol. 8:e1002518. doi: 10.1371/journal.pcbi.1002518
    • (2012) PLoS Comput. Biol. , vol.8 , pp. e1002518
    • Agren, R.1    Bordel, S.2    Mardinoglu, A.3    Pornputtapong, N.4    Nookaew, I.5    Nielsen, J.6
  • 5
    • 84898663879 scopus 로고    scopus 로고
    • Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling
    • Agren, R., Mardinoglu, A., Asplund, A., Kampf, C., Uhlen, M., and Nielsen, J. (2014). Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling. Mol. Syst. Biol. 10:721. doi: 10.1002/msb.145122
    • (2014) Mol. Syst. Biol. , vol.10 , pp. 721
    • Agren, R.1    Mardinoglu, A.2    Asplund, A.3    Kampf, C.4    Uhlen, M.5    Nielsen, J.6
  • 6
    • 77957141016 scopus 로고    scopus 로고
    • Inferring the conservative causal core of gene regulatory networks
    • Altay, G., and Emmert-Streib, F. (2010a). Inferring the conservative causal core of gene regulatory networks. BMC Syst. Biol. 4:132. doi: 10.1186/1752-0509-4-132
    • (2010) BMC Syst. Biol. , vol.4 , pp. 132
    • Altay, G.1    Emmert-Streib, F.2
  • 7
    • 77954484005 scopus 로고    scopus 로고
    • Revealing differences in gene network inference algorithms on the network level by ensemble methods
    • Altay, G., and Emmert-Streib, F. (2010b). Revealing differences in gene network inference algorithms on the network level by ensemble methods. Bioinformatics 26, 1738-1744. doi: 10.1093/bioinformatics/btq259
    • (2010) Bioinformatics , vol.26 , pp. 1738-1744
    • Altay, G.1    Emmert-Streib, F.2
  • 8
    • 34047182529 scopus 로고    scopus 로고
    • Pharmgkb: a logical home for knowledge relating genotype to drug response phenotype
    • Altman, R. B. (2007). Pharmgkb: a logical home for knowledge relating genotype to drug response phenotype. Nat. Genet. 39:426. doi: 10.1038/ng0407-426
    • (2007) Nat. Genet. , vol.39 , pp. 426
    • Altman, R.B.1
  • 9
    • 78650373804 scopus 로고    scopus 로고
    • Network medicine: a network-based approach to human disease
    • Barabási, A. L., Gulbahce, N., and Loscalzo, J. (2011). Network medicine: a network-based approach to human disease. Nat. Rev. Genet. 12, 56-68. doi: 10.1038/nrg2918
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 56-68
    • Barabási, A.L.1    Gulbahce, N.2    Loscalzo, J.3
  • 10
    • 84876569934 scopus 로고    scopus 로고
    • The tissuenet database of human tissue protein-protein interactions
    • Barshir, R., Basha, O., Eluk, A., Smoly, I. Y., Lan, A., and Yeger-Lotem, E. (2013). The tissuenet database of human tissue protein-protein interactions. Nucleic Acids Res. 41, D841-D844. doi: 10.1093/nar/gks1198
    • (2013) Nucleic Acids Res. , vol.41 , pp. D841-D844
    • Barshir, R.1    Basha, O.2    Eluk, A.3    Smoly, I.Y.4    Lan, A.5    Yeger-Lotem, E.6
  • 11
    • 84937790219 scopus 로고    scopus 로고
    • The human blood metabolome-transcriptome interface
    • Bartel, J., Krumsiek, J., Schramm, K., Adamski, J., Gieger, C., Herder, C., et al. (2015). The human blood metabolome-transcriptome interface. PLoS Genet. 11:e1005274. doi: 10.1371/journal.pgen.1005274
    • (2015) PLoS Genet. , vol.11 , pp. e1005274
    • Bartel, J.1    Krumsiek, J.2    Schramm, K.3    Adamski, J.4    Gieger, C.5    Herder, C.6
  • 13
    • 84902316955 scopus 로고    scopus 로고
    • Gwas central: a comprehensive resource for the comparison and interrogation of genome-wide association studies
    • Beck, T., Hastings, R. K., Gollapudi, S., Free, R. C., and Brookes, A. J. (2014). Gwas central: a comprehensive resource for the comparison and interrogation of genome-wide association studies. Eur. J. Hum. Genet. 22, 949-952. doi: 10.1038/ejhg.2013.274
    • (2014) Eur. J. Hum. Genet. , vol.22 , pp. 949-952
    • Beck, T.1    Hastings, R.K.2    Gollapudi, S.3    Free, R.C.4    Brookes, A.J.5
  • 14
    • 44949225040 scopus 로고    scopus 로고
    • Context-specific metabolic networks are consistent with experiments
    • Becker, S. A., and Palsson, B. O. (2008). Context-specific metabolic networks are consistent with experiments. PLoS Comput. Biol. 4:e1000082. doi: 10.1371/journal.pcbi.1000082
    • (2008) PLoS Comput. Biol. , vol.4 , pp. e1000082
    • Becker, S.A.1    Palsson, B.O.2
  • 16
    • 3242663659 scopus 로고    scopus 로고
    • An integrated epigenetic and genetic approach to common human disease
    • Bjornsson, H. T., Fallin, M. D., and Feinberg, A. P. (2004). An integrated epigenetic and genetic approach to common human disease. Trends Genet. 20, 350-358. doi: 10.1016/j.tig.2004.06.009
    • (2004) Trends Genet. , vol.20 , pp. 350-358
    • Bjornsson, H.T.1    Fallin, M.D.2    Feinberg, A.P.3
  • 17
    • 84872263390 scopus 로고    scopus 로고
    • From measurement to implementation of metabolic fluxes
    • Blank, L. M., and Ebert, B. E. (2013). From measurement to implementation of metabolic fluxes. Curr. Opin. Biotechnol. 24, 13-21. doi: 10.1016/j.copbio.2012.10.019
    • (2013) Curr. Opin. Biotechnol. , vol.24 , pp. 13-21
    • Blank, L.M.1    Ebert, B.E.2
  • 18
    • 80054969621 scopus 로고    scopus 로고
    • A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology
    • Bordbar, A., Feist, A. M., Usaite-Black, R., Woodcock, J., Palsson, B. O., and Famili, I. (2011). A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology. BMC Syst. Biol. 5:180. doi: 10.1186/1752-0509-5-180
    • (2011) BMC Syst. Biol. , vol.5 , pp. 180
    • Bordbar, A.1    Feist, A.M.2    Usaite-Black, R.3    Woodcock, J.4    Palsson, B.O.5    Famili, I.6
  • 19
    • 84863331725 scopus 로고    scopus 로고
    • Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation
    • Bordbar, A., Mo, M. L., Nakayasu, E. S., Schrimpe-Rutledge, A. C., Kim, Y. M., Metz, T. O., et al. (2012). Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation. Mol. Syst. Biol. 8, 558. doi: 10.1038/msb.2012.21
    • (2012) Mol. Syst. Biol. , vol.8 , pp. 558
    • Bordbar, A.1    Mo, M.L.2    Nakayasu, E.S.3    Schrimpe-Rutledge, A.C.4    Kim, Y.M.5    Metz, T.O.6
  • 20
    • 84892788440 scopus 로고    scopus 로고
    • Constraint-based models predict metabolic and associated cellular functions
    • Bordbar, A., Monk, J. M., King, Z. A., and Palsson, B. O. (2014). Constraint-based models predict metabolic and associated cellular functions. Nat. Rev. Genet. 15, 107-120. doi: 10.1038/nrg3643
    • (2014) Nat. Rev. Genet. , vol.15 , pp. 107-120
    • Bordbar, A.1    Monk, J.M.2    King, Z.A.3    Palsson, B.O.4
  • 21
    • 78049304837 scopus 로고    scopus 로고
    • Sampling the solution space in genome-scale metabolic networks reveals transcriptional regulation in key enzymes
    • Bordel, S., Agren, R., and Nielsen, J. (2010). Sampling the solution space in genome-scale metabolic networks reveals transcriptional regulation in key enzymes. PLoS Comput. Biol. 6:e1000859. doi: 10.1371/journal.pcbi.1000859
    • (2010) PLoS Comput. Biol. , vol.6 , pp. e1000859
    • Bordel, S.1    Agren, R.2    Nielsen, J.3
  • 22
    • 84924407226 scopus 로고    scopus 로고
    • Closing the gap between knowledge and clinical application: challenges for genomic translation
    • Burke, W., and Korngiebel, D. M. (2015). Closing the gap between knowledge and clinical application: challenges for genomic translation. PLoS Genet. 11:e1004978. doi: 10.1371/journal.pgen.1004978
    • (2015) PLoS Genet. , vol.11 , pp. e1004978
    • Burke, W.1    Korngiebel, D.M.2
  • 23
    • 0033655775 scopus 로고    scopus 로고
    • Mutual information relevance networks: functional genomic clustering using pairwise entropy measurements
    • Butte, A. J., and Kohane, I. S. (2000). Mutual information relevance networks: functional genomic clustering using pairwise entropy measurements. Pac. Symp. Biocomput. 5, 418-429. doi: 10.1002/047174882X
    • (2000) Pac. Symp. Biocomput. , vol.5 , pp. 418-429
    • Butte, A.J.1    Kohane, I.S.2
  • 24
    • 84864402194 scopus 로고    scopus 로고
    • Leveraging models of cell regulation and gwas data in integrative network-based association studies
    • Califano, A., Butte, A. J., Friend, S., Ideker, T., and Schadt, E. (2012). Leveraging models of cell regulation and gwas data in integrative network-based association studies. Nat. Genet. 44, 841-847. doi: 10.1038/ng.2355
    • (2012) Nat. Genet. , vol.44 , pp. 841-847
    • Califano, A.1    Butte, A.J.2    Friend, S.3    Ideker, T.4    Schadt, E.5
  • 25
    • 75149195336 scopus 로고    scopus 로고
    • The transcriptional network for mesenchymal transformation of brain tumours
    • Carro, M. S., Lim, W. K., Alvarez, M. J., Bollo, R. J., Zhao, X., Snyder, E. Y., et al. (2010). The transcriptional network for mesenchymal transformation of brain tumours. Nature 463, 318-325. doi: 10.1038/nature08712
    • (2010) Nature , vol.463 , pp. 318-325
    • Carro, M.S.1    Lim, W.K.2    Alvarez, M.J.3    Bollo, R.J.4    Zhao, X.5    Snyder, E.Y.6
  • 26
    • 84915815121 scopus 로고    scopus 로고
    • Identification of causal genetic drivers of human disease through systems-level analysis of regulatory networks
    • Chen, J. C., Alvarez, M. J., Talos, F., Dhruv, H., Rieckhof, G. E., Iyer, A., et al. (2014). Identification of causal genetic drivers of human disease through systems-level analysis of regulatory networks. Cell 159, 402-414. doi: 10.1016/j.cell.2014.09.021
    • (2014) Cell , vol.159 , pp. 402-414
    • Chen, J.C.1    Alvarez, M.J.2    Talos, F.3    Dhruv, H.4    Rieckhof, G.E.5    Iyer, A.6
  • 27
    • 84858433310 scopus 로고    scopus 로고
    • Personal omics profiling reveals dynamic molecular and medical phenotypes
    • Chen, R., Mias, G. I., Li-Pook-Than, J., Jiang, L., Lam, H. Y. K., Chen, R., et al. (2012). Personal omics profiling reveals dynamic molecular and medical phenotypes. Cell 148, 1293-1307. doi: 10.1016/j.cell.2012.02.009
    • (2012) Cell , vol.148 , pp. 1293-1307
    • Chen, R.1    Mias, G.I.2    Li-Pook-Than, J.3    Jiang, L.4    Lam, H.Y.K.5    Chen, R.6
  • 28
    • 84889281816 scopus 로고    scopus 로고
    • Elements of Information Theory 2nd Edn. New York NY: Wiley.
    • Cover, T. M., and Thomas, J. A. (2006). Elements of Information Theory, 2nd Edn. New York, NY: Wiley.
    • (2006)
    • Cover, T.M.1    Thomas, J.A.2
  • 29
    • 84866593873 scopus 로고    scopus 로고
    • Pharmacogenomics and individualized medicine: translating science into practice
    • Crews, K. R., Hicks, J. K., Pui, C. H., Relling, M. V., and Evans, W. E. (2012). Pharmacogenomics and individualized medicine: translating science into practice. Clin. Pharmacol. Ther. 92, 467-475. doi: 10.1038/clpt.2012.120
    • (2012) Clin. Pharmacol. Ther. , vol.92 , pp. 467-475
    • Crews, K.R.1    Hicks, J.K.2    Pui, C.H.3    Relling, M.V.4    Evans, W.E.5
  • 30
    • 27744567556 scopus 로고    scopus 로고
    • Interactome: gateway into systems biology
    • Cusick, M. E., Klitgord, N., Vidal, M., and Hill, D. E. (2005). Interactome: gateway into systems biology. Hum. Mol. Genet. 14, R171-R181. doi: 10.1093/hmg/ddi335
    • (2005) Hum. Mol. Genet. , vol.14 , pp. R171-R181
    • Cusick, M.E.1    Klitgord, N.2    Vidal, M.3    Hill, D.E.4
  • 31
    • 84892411193 scopus 로고    scopus 로고
    • B-cell lymphoma gene regulatory networks: biological consistency among inference methods
    • de Matos Simoes, R., Dehmer, M., and Emmert-Streib, F. (2013). B-cell lymphoma gene regulatory networks: biological consistency among inference methods. Front. Genet. 4:281. doi: 10.3389/fgene.2013.00281
    • (2013) Front. Genet. , vol.4 , pp. 281
    • de Matos Simoes, R.1    Dehmer, M.2    Emmert-Streib, F.3
  • 32
    • 84859125037 scopus 로고    scopus 로고
    • Bagging statistical network inference from large-scale gene expression data
    • de Matos Simoes, R., and Emmert-Streib, F. (2012). Bagging statistical network inference from large-scale gene expression data. PLoS ONE 7:e33624. doi: 10.1371/journal.pone.0033624
    • (2012) PLoS ONE , vol.7 , pp. e33624
    • de Matos Simoes, R.1    Emmert-Streib, F.2
  • 33
    • 33846910173 scopus 로고    scopus 로고
    • Global reconstruction of the human metabolic network based on genomic and bibliomic data
    • Duarte, N. C., Becker, S. A., Jamshidi, N., Thiele, I., Mo, M. L., Vo, T. D., et al. (2007). Global reconstruction of the human metabolic network based on genomic and bibliomic data. Proc. Natl. Acad. Sci. U.S.A. 104, 1777-1782. doi: 10.1073/pnas.0610772104
    • (2007) Proc. Natl. Acad. Sci. U.S.A. , vol.104 , pp. 1777-1782
    • Duarte, N.C.1    Becker, S.A.2    Jamshidi, N.3    Thiele, I.4    Mo, M.L.5    Vo, T.D.6
  • 35
    • 84928888210 scopus 로고    scopus 로고
    • Gene regulatory networks and their applications: understanding biological and medical problems in terms of networks
    • Emmert-Streib, F., Dehmer, M., and Haibe-Kains, B. (2014). Gene regulatory networks and their applications: understanding biological and medical problems in terms of networks. Front. Cell Dev. Biol. 2:38. doi: 10.3389/fcell.2014.00038
    • (2014) Front. Cell Dev. Biol. , vol.2 , pp. 38
    • Emmert-Streib, F.1    Dehmer, M.2    Haibe-Kains, B.3
  • 36
    • 33846400424 scopus 로고    scopus 로고
    • Large-scale mapping and validation of escherichia coli transcriptional regulation from a compendium of expression profiles
    • Faith, J. J., Hayete, B., Thaden, J. T., Mogno, I., Wierzbowski, J., Cottarel, G., et al. (2007). Large-scale mapping and validation of escherichia coli transcriptional regulation from a compendium of expression profiles. PLoS Biol. 5:e8. doi: 10.1371/journal.pbio.0050008
    • (2007) PLoS Biol. , vol.5 , pp. e8
    • Faith, J.J.1    Hayete, B.2    Thaden, J.T.3    Mogno, I.4    Wierzbowski, J.5    Cottarel, G.6
  • 37
    • 84923326765 scopus 로고    scopus 로고
    • Genetic and epigenetic fine mapping of causal autoimmune disease variants
    • Farh, K. K. H., Marson, A., Zhu, J., Kleinewietfeld, M., Housley, W. J., Beik, S., et al. (2015). Genetic and epigenetic fine mapping of causal autoimmune disease variants. Nature 518, 337-343. doi: 10.1038/nature13835
    • (2015) Nature , vol.518 , pp. 337-343
    • Farh, K.K.H.1    Marson, A.2    Zhu, J.3    Kleinewietfeld, M.4    Housley, W.J.5    Beik, S.6
  • 38
    • 34249275353 scopus 로고    scopus 로고
    • Phenotypic plasticity and the epigenetics of human disease
    • Feinberg, A. P. (2007). Phenotypic plasticity and the epigenetics of human disease. Nature 447, 433-440. doi: 10.1038/nature05919
    • (2007) Nature , vol.447 , pp. 433-440
    • Feinberg, A.P.1
  • 39
    • 77956913463 scopus 로고    scopus 로고
    • Personalized epigenomic signatures that are stable over time and covary with body mass index
    • Feinberg, A. P., Irizarry, R. A., Fradin, D., Aryee, M. J., Murakami, P., Aspelund, T., et al. (2010). Personalized epigenomic signatures that are stable over time and covary with body mass index. Sci. Transl. Med. 2, 49ra67. doi: 10.1126/scitranslmed.3001262
    • (2010) Sci. Transl. Med. , vol.2 , pp. 49ra67
    • Feinberg, A.P.1    Irizarry, R.A.2    Fradin, D.3    Aryee, M.J.4    Murakami, P.5    Aspelund, T.6
  • 40
    • 84904434881 scopus 로고    scopus 로고
    • Individualized proteomics
    • Forler, S., Klein, O., and Klose, J. (2014). Individualized proteomics. J. Proteomics 107, 56-61. doi: 10.1016/j.jprot.2014.04.003
    • (2014) J. Proteomics , vol.107 , pp. 56-61
    • Forler, S.1    Klein, O.2    Klose, J.3
  • 41
    • 84876515907 scopus 로고    scopus 로고
    • String v9.1: protein-protein interaction networks, with increased coverage and integration
    • Franceschini, A., Szklarczyk, D., Frankild, S., Kuhn, M., Simonovic, M., Roth, A., et al. (2013). String v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res. 41, D808-D815. doi: 10.1093/nar/gks1094
    • (2013) Nucleic Acids Res. , vol.41 , pp. D808-D815
    • Franceschini, A.1    Szklarczyk, D.2    Frankild, S.3    Kuhn, M.4    Simonovic, M.5    Roth, A.6
  • 43
    • 84926292452 scopus 로고    scopus 로고
    • Using bioconductor package biggr for metabolic flux estimation based on gene expression changes in brain
    • Gavai, A. K., Supandi, F., Hettling, H., Murrell, P., Leunissen, J. A. M., and van Beek, J. H. G. M. (2015). Using bioconductor package biggr for metabolic flux estimation based on gene expression changes in brain. PLoS ONE 10:e0119016. doi: 10.1371/journal.pone.0119016
    • (2015) PLoS ONE , vol.10 , pp. e0119016
    • Gavai, A.K.1    Supandi, F.2    Hettling, H.3    Murrell, P.4    Leunissen, J.A.M.5    van Beek, J.H.G.M.6
  • 44
    • 84929494337 scopus 로고    scopus 로고
    • A disease module detection (diamond) algorithm derived from a systematic analysis of connectivity patterns of disease proteins in the human interactome
    • Ghiassian, S. D., Menche, J., and Barabási, A. L. (2015). A disease module detection (diamond) algorithm derived from a systematic analysis of connectivity patterns of disease proteins in the human interactome. PLoS Comput. Biol. 11:e1004120. doi: 10.1371/journal.pcbi.1004120
    • (2015) PLoS Comput. Biol. , vol.11 , pp. e1004120
    • Ghiassian, S.D.1    Menche, J.2    Barabási, A.L.3
  • 45
    • 77956407882 scopus 로고    scopus 로고
    • Hepatonet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology
    • Gille, C., Bölling, C., Hoppe, A., Bulik, S., Hoffmann, S., Hübner, K., et al. (2010). Hepatonet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology. Mol. Syst. Biol. 6, 411. doi: 10.1038/msb.2010.62
    • (2010) Mol. Syst. Biol. , vol.6 , pp. 411
    • Gille, C.1    Bölling, C.2    Hoppe, A.3    Bulik, S.4    Hoffmann, S.5    Hübner, K.6
  • 46
    • 4644231870 scopus 로고    scopus 로고
    • A protein interaction network links git1, an enhancer of huntingtin aggregation, to huntington's disease
    • Goehler, H., Lalowski, M., Stelzl, U., Waelter, S., Stroedicke, M., Worm, U., et al. (2004). A protein interaction network links git1, an enhancer of huntingtin aggregation, to huntington's disease. Mol. Cell 15, 853-865. doi: 10.1016/j.molcel.2004.09.016
    • (2004) Mol. Cell , vol.15 , pp. 853-865
    • Goehler, H.1    Lalowski, M.2    Stelzl, U.3    Waelter, S.4    Stroedicke, M.5    Worm, U.6
  • 47
    • 84865760395 scopus 로고    scopus 로고
    • Gencode: the reference human genome annotation for the encode project
    • Harrow, J., Frankish, A., Gonzalez, J. M., Tapanari, E., Diekhans, M., Kokocinski, F., et al. (2012). Gencode: the reference human genome annotation for the encode project. Genome Res. 22, 1760-1774. doi: 10.1101/gr.135350.111
    • (2012) Genome Res. , vol.22 , pp. 1760-1774
    • Harrow, J.1    Frankish, A.2    Gonzalez, J.M.3    Tapanari, E.4    Diekhans, M.5    Kokocinski, F.6
  • 49
    • 84938988506 scopus 로고    scopus 로고
    • Long noncoding rna malat1 promotes aggressive renal cell carcinoma through ezh2 and interacts with mir-205
    • Hirata, H., Hinoda, Y., Shahryari, V., Deng, G., Nakajima, K., Tabatabai, Z. L., et al. (2015). Long noncoding rna malat1 promotes aggressive renal cell carcinoma through ezh2 and interacts with mir-205. Cancer Res. 75, 1322-1331. doi: 10.1158/0008-5472.CAN-14-2931
    • (2015) Cancer Res. , vol.75 , pp. 1322-1331
    • Hirata, H.1    Hinoda, Y.2    Shahryari, V.3    Deng, G.4    Nakajima, K.5    Tabatabai, Z.L.6
  • 51
    • 84937213168 scopus 로고    scopus 로고
    • The bioplex network: a systematic exploration of the human interactome
    • Huttlin, E. L., Ting, L., Bruckner, R. J., Gebreab, F., Gygi, M. P., Szpyt, J., et al. (2015). The bioplex network: a systematic exploration of the human interactome. Cell 162, 425-440. doi: 10.1016/j.cell.2015.06.043
    • (2015) Cell , vol.162 , pp. 425-440
    • Huttlin, E.L.1    Ting, L.2    Bruckner, R.J.3    Gebreab, F.4    Gygi, M.P.5    Szpyt, J.6
  • 52
    • 84895774260 scopus 로고    scopus 로고
    • Varwalker: personalized mutation network analysis of putative cancer genes from next-generation sequencing data
    • Jia, P., and Zhao, Z. (2014). Varwalker: personalized mutation network analysis of putative cancer genes from next-generation sequencing data. PLoS Comput. Biol. 10:e1003460. doi: 10.1371/journal.pcbi.1003460
    • (2014) PLoS Comput. Biol. , vol.10 , pp. e1003460
    • Jia, P.1    Zhao, Z.2
  • 53
    • 52649087274 scopus 로고    scopus 로고
    • Modelling and analysis of gene regulatory networks
    • Karlebach, G., and Shamir, R. (2008). Modelling and analysis of gene regulatory networks. Nat. Rev. Mol. Cell Biol. 9, 770-780. doi: 10.1038/nrm2503
    • (2008) Nat. Rev. Mol. Cell Biol. , vol.9 , pp. 770-780
    • Karlebach, G.1    Shamir, R.2
  • 54
    • 84858383447 scopus 로고    scopus 로고
    • Genetics of human cardiovascular disease
    • Kathiresan, S., and Srivastava, D. (2012). Genetics of human cardiovascular disease. Cell 148, 1242-1257. doi: 10.1016/j.cell.2012.03.001
    • (2012) Cell , vol.148 , pp. 1242-1257
    • Kathiresan, S.1    Srivastava, D.2
  • 57
    • 70049106408 scopus 로고    scopus 로고
    • Geometric de-noising of protein-protein interaction networks
    • Kuchaiev, O., Rasajski, M., Higham, D. J., and Przulj, N. (2009). Geometric de-noising of protein-protein interaction networks. PLoS Comput. Biol. 5:e1000454. doi: 10.1371/journal.pcbi.1000454
    • (2009) PLoS Comput. Biol. , vol.5 , pp. e1000454
    • Kuchaiev, O.1    Rasajski, M.2    Higham, D.J.3    Przulj, N.4
  • 58
    • 77953255983 scopus 로고    scopus 로고
    • A human b-cell interactome identifies myb and foxm1 as master regulators of proliferation in germinal centers
    • Lefebvre, C., Rajbhandari, P., Alvarez, M. J., Bandaru, P., Lim, W. K., Sato, M., et al. (2010). A human b-cell interactome identifies myb and foxm1 as master regulators of proliferation in germinal centers. Mol. Syst. Biol. 6, 377. doi: 10.1038/msb.2010.31
    • (2010) Mol. Syst. Biol. , vol.6 , pp. 377
    • Lefebvre, C.1    Rajbhandari, P.2    Alvarez, M.J.3    Bandaru, P.4    Lim, W.K.5    Sato, M.6
  • 59
    • 78650002545 scopus 로고    scopus 로고
    • Large-scale in silico modeling of metabolic interactions between cell types in the human brain
    • Lewis, N. E., Schramm, G., Bordbar, A., Schellenberger, J., Andersen, M. P., Cheng, J. K., et al. (2010). Large-scale in silico modeling of metabolic interactions between cell types in the human brain. Nat. Biotechnol. 28, 1279-1285. doi: 10.1038/nbt.1711
    • (2010) Nat. Biotechnol. , vol.28 , pp. 1279-1285
    • Lewis, N.E.1    Schramm, G.2    Bordbar, A.3    Schellenberger, J.4    Andersen, M.P.5    Cheng, J.K.6
  • 60
    • 84861023442 scopus 로고    scopus 로고
    • Gwasdb: a database for human genetic variants identified by genome-wide association studies
    • Li, M. J., Wang, P., Liu, X., Lim, E. L., Wang, Z., Yeager, M., et al. (2012). Gwasdb: a database for human genetic variants identified by genome-wide association studies. Nucleic Acids Res. 40, D1047-D1054. doi: 10.1093/nar/gkr1182
    • (2012) Nucleic Acids Res. , vol.40 , pp. D1047-D1054
    • Li, M.J.1    Wang, P.2    Liu, X.3    Lim, E.L.4    Wang, Z.5    Yeager, M.6
  • 62
    • 84901021796 scopus 로고    scopus 로고
    • Genome-wide association study: a useful tool to identify common genetic variants associated with drug toxicity and efficacy in cancer pharmacogenomics
    • Low, S. K., Takahashi, A., Mushiroda, T., and Kubo, M. (2014). Genome-wide association study: a useful tool to identify common genetic variants associated with drug toxicity and efficacy in cancer pharmacogenomics. Clin. Cancer Res. 20, 2541-2552. doi: 10.1158/1078-0432.CCR-13-2755
    • (2014) Clin. Cancer Res. , vol.20 , pp. 2541-2552
    • Low, S.K.1    Takahashi, A.2    Mushiroda, T.3    Kubo, M.4
  • 63
    • 34548860112 scopus 로고    scopus 로고
    • The edinburgh human metabolic network reconstruction and its functional analysis
    • Ma, H., Sorokin, A., Mazein, A., Selkov, A., Selkov, E., Demin, O., et al. (2007). The edinburgh human metabolic network reconstruction and its functional analysis. Mol. Syst. Biol. 3, 135. doi: 10.1038/msb4100177
    • (2007) Mol. Syst. Biol. , vol.3 , pp. 135
    • Ma, H.1    Sorokin, A.2    Mazein, A.3    Selkov, A.4    Selkov, E.5    Demin, O.6
  • 64
    • 84901306814 scopus 로고    scopus 로고
    • Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism
    • Machado, D., and Herrgård, M. (2014). Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism. PLoS Comput. Biol. 10:e1003580. doi: 10.1371/journal.pcbi.1003580
    • (2014) PLoS Comput. Biol. , vol.10 , pp. e1003580
    • Machado, D.1    Herrgård, M.2
  • 65
    • 84866888440 scopus 로고    scopus 로고
    • Enhancing the prioritization of disease-causing genes through tissue specific protein interaction networks
    • Magger, O., Waldman, Y. Y., Ruppin, E., and Sharan, R. (2012). Enhancing the prioritization of disease-causing genes through tissue specific protein interaction networks. PLoS Comput. Biol. 8:e1002690. doi: 10.1371/journal.pcbi.1002690
    • (2012) PLoS Comput. Biol. , vol.8 , pp. e1002690
    • Magger, O.1    Waldman, Y.Y.2    Ruppin, E.3    Sharan, R.4
  • 66
    • 84883787394 scopus 로고    scopus 로고
    • Integration of clinical data with a genome-scale metabolic model of the human adipocyte
    • Mardinoglu, A., Agren, R., Kampf, C., Asplund, A., Nookaew, I., Jacobson, P., et al. (2013). Integration of clinical data with a genome-scale metabolic model of the human adipocyte. Mol. Syst. Biol. 9:649. doi: 10.1038/msb.2013.5
    • (2013) Mol. Syst. Biol. , vol.9 , pp. 649
    • Mardinoglu, A.1    Agren, R.2    Kampf, C.3    Asplund, A.4    Nookaew, I.5    Jacobson, P.6
  • 67
    • 84898011025 scopus 로고    scopus 로고
    • Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease
    • Mardinoglu, A., Agren, R., Kampf, C., Asplund, A., Uhlen, M., and Nielsen, J. (2014). Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease. Nat. Commun. 5:3083. doi: 10.1038/ncomms4083
    • (2014) Nat. Commun. , vol.5 , pp. 3083
    • Mardinoglu, A.1    Agren, R.2    Kampf, C.3    Asplund, A.4    Uhlen, M.5    Nielsen, J.6
  • 68
    • 84920286423 scopus 로고    scopus 로고
    • New paradigms for metabolic modeling of human cells
    • Mardinoglu, A., and Nielsen, J. (2015). New paradigms for metabolic modeling of human cells. Curr. Opin. Biotechnol. 34C, 91-97. doi: 10.1016/j.copbio.2014.12.013
    • (2015) Curr. Opin. Biotechnol. , vol.34C , pp. 91-97
    • Mardinoglu, A.1    Nielsen, J.2
  • 69
    • 33947305781 scopus 로고    scopus 로고
    • Aracne: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context
    • Margolin, A. A., Nemenman, I., Basso, K., Wiggins, C., Stolovitzky, G., Dalla Favera, R., et al. (2006). Aracne: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. BMC Bioinformatics 7(Suppl. 1):S7. doi: 10.1186/1471-2105-7-S1-S7
    • (2006) BMC Bioinformatics , vol.7 , pp. S7
    • Margolin, A.A.1    Nemenman, I.2    Basso, K.3    Wiggins, C.4    Stolovitzky, G.5    Dalla Favera, R.6
  • 70
    • 58149178567 scopus 로고    scopus 로고
    • Pips: human protein-protein interaction prediction database
    • McDowall, M. D., Scott, M. S., and Barton, G. J. (2009). Pips: human protein-protein interaction prediction database. Nucleic Acids Res. 37, D651-D656. doi: 10.1093/nar/gkn870
    • (2009) Nucleic Acids Res. , vol.37 , pp. D651-D656
    • McDowall, M.D.1    Scott, M.S.2    Barton, G.J.3
  • 72
    • 36248999573 scopus 로고    scopus 로고
    • Information-theoretic inference of large transcriptional regulatory networks
    • Meyer, P. E., Kontos, K., Lafitte, F., and Bontempi, G. (2007). Information-theoretic inference of large transcriptional regulatory networks. EURASIP J. Bioinform. Syst. Biol. 2007:79879. doi: 10.1155/2007/79879
    • (2007) EURASIP J. Bioinform. Syst. Biol. , vol.2007 , pp. 79879
    • Meyer, P.E.1    Kontos, K.2    Lafitte, F.3    Bontempi, G.4
  • 73
    • 79952902493 scopus 로고    scopus 로고
    • From expression qtls to personalized transcriptomics
    • Montgomery, S. B., and Dermitzakis, E. T. (2011). From expression qtls to personalized transcriptomics. Nat. Rev. Genet. 12, 277-282. doi: 10.1038/nrg2969
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 277-282
    • Montgomery, S.B.1    Dermitzakis, E.T.2
  • 74
    • 84872376676 scopus 로고    scopus 로고
    • Isotopically nonstationary 13c flux analysis of myc-induced metabolic reprogramming in b-cells
    • Murphy, T. A., Dang, C. V., and Young, J. D. (2013). Isotopically nonstationary 13c flux analysis of myc-induced metabolic reprogramming in b-cells. Metab. Eng. 15, 206-217. doi: 10.1016/j.ymben.2012.07.008
    • (2013) Metab. Eng. , vol.15 , pp. 206-217
    • Murphy, T.A.1    Dang, C.V.2    Young, J.D.3
  • 75
    • 84953339312 scopus 로고    scopus 로고
    • Vade: a manually curated database of reproducible associations between various traits and human genomic polymorphisms
    • Nagai, Y., Takahashi, Y., and Imanishi, T. (2015). Vade: a manually curated database of reproducible associations between various traits and human genomic polymorphisms. Nucleic Acids Res. 43, D868-D872. doi: 10.1093/nar/gku1037
    • (2015) Nucleic Acids Res. , vol.43 , pp. D868-D872
    • Nagai, Y.1    Takahashi, Y.2    Imanishi, T.3
  • 76
    • 84869049715 scopus 로고    scopus 로고
    • Metabolic phenotyping in clinical and surgical environments
    • Nicholson, J. K., Holmes, E., Kinross, J. M., Darzi, A. W., Takats, Z., and Lindon, J. C. (2012). Metabolic phenotyping in clinical and surgical environments. Nature 491, 384-392. doi: 10.1038/nature11708
    • (2012) Nature , vol.491 , pp. 384-392
    • Nicholson, J.K.1    Holmes, E.2    Kinross, J.M.3    Darzi, A.W.4    Takats, Z.5    Lindon, J.C.6
  • 77
    • 0347506028 scopus 로고    scopus 로고
    • It is all about metabolic fluxes
    • Nielsen, J. (2003). It is all about metabolic fluxes. J. Bacteriol. 185, 7031-7035. doi: 10.1128/JB.185.24.7031-7035.2003
    • (2003) J. Bacteriol. , vol.185 , pp. 7031-7035
    • Nielsen, J.1
  • 78
    • 80052644208 scopus 로고    scopus 로고
    • Metabolite channeling and compartmentation in the human cell line age1.hn determined by 13c labeling experiments and 13c metabolic flux analysis
    • Niklas, J., Sandig, V., and Heinzle, E. (2011). Metabolite channeling and compartmentation in the human cell line age1.hn determined by 13c labeling experiments and 13c metabolic flux analysis. J. Biosci. Bioeng. 112, 616-623. doi: 10.1016/j.jbiosc.2011.07.021
    • (2011) J. Biosci. Bioeng. , vol.112 , pp. 616-623
    • Niklas, J.1    Sandig, V.2    Heinzle, E.3
  • 79
    • 84891799734 scopus 로고    scopus 로고
    • The mintact project-intact as a common curation platform for 11 molecular interaction databases
    • Orchard, S., Ammari, M., Aranda, B., Breuza, L., Briganti, L., Broackes-Carter, F., et al. (2014). The mintact project-intact as a common curation platform for 11 molecular interaction databases. Nucleic Acids Res. 42, D358-D363. doi: 10.1093/nar/gkt1115
    • (2014) Nucleic Acids Res. , vol.42 , pp. D358-D363
    • Orchard, S.1    Ammari, M.2    Aranda, B.3    Breuza, L.4    Briganti, L.5    Broackes-Carter, F.6
  • 80
    • 14544268137 scopus 로고    scopus 로고
    • Uncovering transcriptional regulation of metabolism by using metabolic network topology
    • Patil, K. R., and Nielsen, J. (2005). Uncovering transcriptional regulation of metabolism by using metabolic network topology. Proc. Natl. Acad. Sci. U.S.A. 102, 2685-2689. doi: 10.1073/pnas.0406811102
    • (2005) Proc. Natl. Acad. Sci. U.S.A. , vol.102 , pp. 2685-2689
    • Patil, K.R.1    Nielsen, J.2
  • 82
    • 84923638273 scopus 로고    scopus 로고
    • Long noncoding rnas: an emerging link between gene regulation and nuclear organization
    • Quinodoz, S., and Guttman, M. (2014). Long noncoding rnas: an emerging link between gene regulation and nuclear organization. Trends Cell Biol. 24, 651-663. doi: 10.1016/j.tcb.2014.08.009
    • (2014) Trends Cell Biol. , vol.24 , pp. 651-663
    • Quinodoz, S.1    Guttman, M.2
  • 83
    • 84928339162 scopus 로고    scopus 로고
    • The role of epigenetics in personalized medicine: challenges and opportunities
    • Rasool, M., Malik, A., Naseer, M. I., Manan, A., Ansari, S., Begum, I., et al. (2015). The role of epigenetics in personalized medicine: challenges and opportunities. BMC Med. Genomics 8(Suppl. 1):S5. doi: 10.1186/1755-8794-8-S1-S5
    • (2015) BMC Med. Genomics , vol.8 , pp. S5
    • Rasool, M.1    Malik, A.2    Naseer, M.I.3    Manan, A.4    Ansari, S.5    Begum, I.6
  • 84
    • 84884829249 scopus 로고    scopus 로고
    • Mapping human epigenomes
    • Rivera, C. M., and Ren, B. (2013). Mapping human epigenomes. Cell 155, 39-55. doi: 10.1016/j.cell.2013.09.011
    • (2013) Cell , vol.155 , pp. 39-55
    • Rivera, C.M.1    Ren, B.2
  • 86
    • 84911474471 scopus 로고    scopus 로고
    • A proteome-scale map of the human interactome network
    • Rolland, T., Tasan, M., Charloteaux, B., Pevzner, S. J., Zhong, Q., Sahni, N., et al. (2014). A proteome-scale map of the human interactome network. Cell 159, 1212-1226. doi: 10.1016/j.cell.2014.10.050
    • (2014) Cell , vol.159 , pp. 1212-1226
    • Rolland, T.1    Tasan, M.2    Charloteaux, B.3    Pevzner, S.J.4    Zhong, Q.5    Sahni, N.6
  • 87
    • 79955155765 scopus 로고    scopus 로고
    • Towards a quantitative prediction of the fluxome from the proteome
    • Rossell, S., Solem, C., Jensen, P. R., and Heijnen, J. J. (2011). Towards a quantitative prediction of the fluxome from the proteome. Metab. Eng. 13, 253-262. doi: 10.1016/j.ymben.2011.01.010
    • (2011) Metab. Eng. , vol.13 , pp. 253-262
    • Rossell, S.1    Solem, C.2    Jensen, P.R.3    Heijnen, J.J.4
  • 88
    • 27144530248 scopus 로고    scopus 로고
    • Towards a proteome-scale map of the human protein-protein interaction network
    • Rual, J. F., Venkatesan, K., Hao, T., Hirozane-Kishikawa, T., Dricot, A., Li, N., et al. (2005). Towards a proteome-scale map of the human protein-protein interaction network. Nature 437, 1173-1178. doi: 10.1038/nature04209
    • (2005) Nature , vol.437 , pp. 1173-1178
    • Rual, J.F.1    Venkatesan, K.2    Hao, T.3    Hirozane-Kishikawa, T.4    Dricot, A.5    Li, N.6
  • 89
    • 79960156076 scopus 로고    scopus 로고
    • Genomics and personalized medicine
    • Sadee, W. (2011). Genomics and personalized medicine. Int. J. Pharm. 415, 2-4. doi: 10.1016/j.ijpharm.2011.04.048
    • (2011) Int. J. Pharm. , vol.415 , pp. 2-4
    • Sadee, W.1
  • 90
    • 84928389942 scopus 로고    scopus 로고
    • Widespread macromolecular interaction perturbations in human genetic disorders
    • Sahni, N., Yi, S., Taipale, M., Fuxman Bass, J. I., Coulombe-Huntington, J., Yang, F., et al. (2015). Widespread macromolecular interaction perturbations in human genetic disorders. Cell 161, 647-660. doi: 10.1016/j.cell.2015.04.013
    • (2015) Cell , vol.161 , pp. 647-660
    • Sahni, N.1    Yi, S.2    Taipale, M.3    Fuxman Bass, J.I.4    Coulombe-Huntington, J.5    Yang, F.6
  • 92
    • 84873512768 scopus 로고    scopus 로고
    • Adding protein context to the human protein-protein interaction network to reveal meaningful interactions
    • Schaefer, M. H., Lopes, T. J. S., Mah, N., Shoemaker, J. E., Matsuoka, Y., Fontaine, J. F., et al. (2013). Adding protein context to the human protein-protein interaction network to reveal meaningful interactions. PLoS Comput. Biol. 9:e1002860. doi: 10.1371/journal.pcbi.1002860
    • (2013) PLoS Comput. Biol. , vol.9 , pp. e1002860
    • Schaefer, M.H.1    Lopes, T.J.S.2    Mah, N.3    Shoemaker, J.E.4    Matsuoka, Y.5    Fontaine, J.F.6
  • 93
    • 84923201396 scopus 로고    scopus 로고
    • The role of protein interaction networks in systems biomedicine
    • Sevimoglu, T., and Arga, K. Y. (2014). The role of protein interaction networks in systems biomedicine. Comput. Struct. Biotechnol. J. 11, 22-27. doi: 10.1016/j.csbj.2014.08.008
    • (2014) Comput. Struct. Biotechnol. J. , vol.11 , pp. 22-27
    • Sevimoglu, T.1    Arga, K.Y.2
  • 95
    • 0034666108 scopus 로고    scopus 로고
    • String: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene
    • Snel, B., Lehmann, G., Bork, P., and Huynen, M. A. (2000). String: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene. Nucleic Acids Res. 28, 3442-3444. doi: 10.1093/nar/28.18.3442
    • (2000) Nucleic Acids Res. , vol.28 , pp. 3442-3444
    • Snel, B.1    Lehmann, G.2    Bork, P.3    Huynen, M.A.4
  • 97
    • 25144498379 scopus 로고    scopus 로고
    • A human protein-protein interaction network: a resource for annotating the proteome
    • Stelzl, U., Worm, U., Lalowski, M., Haenig, C., Brembeck, F. H., Goehler, H., et al. (2005). A human protein-protein interaction network: a resource for annotating the proteome. Cell 122, 957-968. doi: 10.1016/j.cell.2005.08.029
    • (2005) Cell , vol.122 , pp. 957-968
    • Stelzl, U.1    Worm, U.2    Lalowski, M.3    Haenig, C.4    Brembeck, F.H.5    Goehler, H.6
  • 98
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • Stuart, J. M., Segal, E., Koller, D., and Kim, S. K. (2003). A gene-coexpression network for global discovery of conserved genetic modules. Science 302, 249-255. doi: 10.1126/science.1087447
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 99
    • 80052398214 scopus 로고    scopus 로고
    • Human metabolic individuality in biomedical and pharmaceutical research
    • Suhre, K., Shin, S. Y., Petersen, A. K., Mohney, R. P., Meredith, D., Wägele, B., et al. (2011). Human metabolic individuality in biomedical and pharmaceutical research. Nature 477, 54-60. doi: 10.1038/nature10354
    • (2011) Nature , vol.477 , pp. 54-60
    • Suhre, K.1    Shin, S.Y.2    Petersen, A.K.3    Mohney, R.P.4    Meredith, D.5    Wägele, B.6
  • 101
    • 84897136781 scopus 로고    scopus 로고
    • Individualized medicine from prewomb to tomb
    • Topol, E. J. (2014). Individualized medicine from prewomb to tomb. Cell 157, 241-253. doi: 10.1016/j.cell.2014.02.012
    • (2014) Cell , vol.157 , pp. 241-253
    • Topol, E.J.1
  • 104
    • 84943182742 scopus 로고    scopus 로고
    • The uk10k project identifies rare variants in health and disease
    • UK10K Consortium, Walter, K., Min, J. L., Huang, J., Crooks, L., Memari, Y., et al. (2015). The uk10k project identifies rare variants in health and disease. Nature 526, 82-90. doi: 10.1038/nature14962
    • (2015) Nature , vol.526 , pp. 82-90
    • Walter, K.1    Min, J.L.2    Huang, J.3    Crooks, L.4    Memari, Y.5
  • 105
    • 84929276343 scopus 로고    scopus 로고
    • Proteome- and transcriptome-driven reconstruction of the human myocyte metabolic network and its use for identification of markers for diabetes
    • Väremo, L., Scheele, C., Broholm, C., Mardinoglu, A., Kampf, C., Asplund, A., et al. (2015). Proteome- and transcriptome-driven reconstruction of the human myocyte metabolic network and its use for identification of markers for diabetes. Cell Rep. 11, 921-933. doi: 10.1016/j.celrep.2015.04.010
    • (2015) Cell Rep. , vol.11 , pp. 921-933
    • Väremo, L.1    Scheele, C.2    Broholm, C.3    Mardinoglu, A.4    Kampf, C.5    Asplund, A.6
  • 106
    • 79952674000 scopus 로고    scopus 로고
    • Interactome networks and human disease
    • Vidal, M., Cusick, M. E., and Barabási, A. L. (2011). Interactome networks and human disease. Cell 144, 986-998. doi: 10.1016/j.cell.2011.02.016
    • (2011) Cell , vol.144 , pp. 986-998
    • Vidal, M.1    Cusick, M.E.2    Barabási, A.L.3
  • 107
    • 84870933131 scopus 로고    scopus 로고
    • Reconstruction of genome-scale metabolic models for 126 human tissues using mcadre
    • Wang, Y., Eddy, J. A., and Price, N. D. (2012). Reconstruction of genome-scale metabolic models for 126 human tissues using mcadre. BMC Syst. Biol. 6:153. doi: 10.1186/1752-0509-6-153
    • (2012) BMC Syst. Biol. , vol.6 , pp. 153
    • Wang, Y.1    Eddy, J.A.2    Price, N.D.3
  • 108
    • 84891790401 scopus 로고    scopus 로고
    • The nhgri gwas catalog, a curated resource of snp-trait associations
    • Welter, D., MacArthur, J., Morales, J., Burdett, T., Hall, P., Junkins, H., et al. (2014). The nhgri gwas catalog, a curated resource of snp-trait associations. Nucleic Acids Res. 42, D1001-D1006. doi: 10.1093/nar/gkt1229
    • (2014) Nucleic Acids Res. , vol.42 , pp. D1001-D1006
    • Welter, D.1    MacArthur, J.2    Morales, J.3    Burdett, T.4    Hall, P.5    Junkins, H.6
  • 109
    • 84880044091 scopus 로고    scopus 로고
    • Fluxomics - connecting 'omics analysis and phenotypes
    • Winter, G., and Krömer, J. O. (2013). Fluxomics - connecting 'omics analysis and phenotypes. Environ. Microbiol. 15, 1901-1916. doi: 10.1111/1462-2920.12064
    • (2013) Environ. Microbiol. , vol.15 , pp. 1901-1916
    • Winter, G.1    Krömer, J.O.2
  • 110
    • 0036088133 scopus 로고    scopus 로고
    • Dip, the database of interacting proteins: a research tool for studying cellular networks of protein interactions
    • Xenarios, I., Salwínski, L., Duan, X. J., Higney, P., Kim, S. M., and Eisenberg, D. (2002). Dip, the database of interacting proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res. 30, 303-305. doi: 10.1093/nar/30.1.303
    • (2002) Nucleic Acids Res. , vol.30 , pp. 303-305
    • Xenarios, I.1    Salwínski, L.2    Duan, X.J.3    Higney, P.4    Kim, S.M.5    Eisenberg, D.6
  • 111
    • 77954197778 scopus 로고    scopus 로고
    • Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model
    • Yizhak, K., Benyamini, T., Liebermeister, W., Ruppin, E., and Shlomi, T. (2010). Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model. Bioinformatics 26, i255-i260. doi: 10.1093/bioinformatics/btq183
    • (2010) Bioinformatics , vol.26 , pp. i255-i260
    • Yizhak, K.1    Benyamini, T.2    Liebermeister, W.3    Ruppin, E.4    Shlomi, T.5
  • 112
    • 84930377006 scopus 로고    scopus 로고
    • Phenotype-based cell-specific metabolic modeling reveals metabolic liabilities of cancer
    • Yizhak, K., Gaude, E., Le Dévédec, S., Waldman, Y. Y., Stein, G. Y., van de Water, B., et al. (2014). Phenotype-based cell-specific metabolic modeling reveals metabolic liabilities of cancer. Elife 3:e03641. doi: 10.7554/eLife.03641
    • (2014) Elife , vol.3 , pp. e03641
    • Yizhak, K.1    Gaude, E.2    Le Dévédec, S.3    Waldman, Y.Y.4    Stein, G.Y.5    van de Water, B.6
  • 113
    • 38649091333 scopus 로고    scopus 로고
    • A navigator for human genome epidemiology
    • Yu, W., Gwinn, M., Clyne, M., Yesupriya, A., and Khoury, M. J. (2008). A navigator for human genome epidemiology. Nat. Genet. 40, 124-125. doi: 10.1038/ng0208-124
    • (2008) Nat. Genet. , vol.40 , pp. 124-125
    • Yu, W.1    Gwinn, M.2    Clyne, M.3    Yesupriya, A.4    Khoury, M.J.5
  • 115
    • 77952663448 scopus 로고    scopus 로고
    • Timedelay-aracne: reverse engineering of gene networks from time-course data by an information theoretic approach
    • Zoppoli, P., Morganella, S., and Ceccarelli, M. (2010). Timedelay-aracne: reverse engineering of gene networks from time-course data by an information theoretic approach. BMC Bioinformatics 11:154. doi: 10.1186/1471-2105-11-154
    • (2010) BMC Bioinformatics , vol.11 , pp. 154
    • Zoppoli, P.1    Morganella, S.2    Ceccarelli, M.3


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