Pržulj N (2011) Protein-protein interactions: making sense of networks via graph-theoretic
modeling. Bioessays 33(2):115–123. doi:10.1002/bies.201000044
Pržulj N, Corneil DG, Jurisica I (2004) Modeling interactome: scale-free or geometric? Bioinfor-
matics 20(18):3508–3515. doi:10.1093/bioinformatics/bth436
Quackenbush J (2001) Computational analysis of microarray data. Nat Rev Genet 2(6):418–427.
doi:10.1038/35076576
Quinn BJ, Kitagawa H, Memmott RM, Gills JJ, Dennis PA (2013) Repositioning metformin for
cancer prevention and treatment. Trends Endocrinol Metab 24(9):469–480
Sarajlic ́A, Pržulj N (2014) Survey of network-based approaches to research of cardiovascular
diseases. Biomed Res Int 2014:527,029
Schacherer F, Choi C, Gtze U, Krull M, Pistor S, Wingender E (2001) The transpath signal
transduction database: a knowledge base on signal transduction networks. Bioinformatics 17
(11):1053–1057. doi:10.1093/bioinformatics/17.11.1053
Schadt EE, Woo S, Hao K (2012) Bayesian method to predict individual SNP genotypes from gene
expression data. Nat Genet 44(5):603–608. doi:10.1038/ng.2248
Scholkopf B, Smola AJ (2001) Learning with kernels: support vector machines, regularization,
optimization, and beyond. MIT Press, Cambridge
Schomburg I, Chang A, Placzek S, Shngen C, Rother M, Lang M, Munaretto C, Ulas S, Stelzer M,
Grote A, Scheer M, Schomburg D (2013) BRENDA in 2013: integrated reactions, kinetic data,
enzyme function data, improved disease classification: new options and contents in BRENDA.
Nucleic Acids Res 41(D1):D764–D772. doi:10.1093/nar/gks1049
Schriml LM, Arze C, Nadendla S, Chang YWW, Mazaitis M, Felix V, Feng G, Kibbe WA (2012)
Disease ontology: a backbone for disease semantic integration. Nucleic Acids Res 40(D1):
D940–D946. doi:10.1093/nar/gkr972
Schuster S, Fell DA, Dandekar T (2000) A general definition of metabolic pathways useful for
systematic organization and analysis of complex metabolic networks. Nat Biotechnol 18
(3):326332. doi:10.1038/73786
Sharan R, Ulitsky I, Shamir R (2007) Network-based prediction of protein function. Mol Syst Biol
3(1). doi:10.1038/msb4100129
Simonis N, Rual JFF, Carvunis ARR et al (2009) Empirically controlled mapping of the
Caenorhabditis elegans protein-protein interactome network. Nat Methods 6(1):47–54
Sioutos N, de Coronado S, Haber MW, Hartel FW, Shaiu WL, Wright LW (2007) NCI thesaurus: a
semantic model integrating cancer-related clinical and molecular information. J Biomed
Inform 40(1):30–43. doi:10.1186/1750-1172-5-S1-P1
Sladek R, Rocheleau G, Rung J, Dina C, Shen L, Serre D, Boutin P, Vincent D, Belisle A, Hadjadj
S (2007) A genome-wide association study identifies novel risk loci for type 2 diabetes. Nature
445(7130):881885. doi:10.1038/nature05616
Smith CA, Want EJ, O’Maille G, Abagyan R, Siuzdak G (2006) XCMS: processing mass
spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and
identification. Anal Chem 78(3):779–787. doi:10.1021/ac051437y
Soyer OS, Salath M, Bonhoeffer S (2006) Signal transduction networks: topology, response and
biochemical processes. J Theor Biol 238(2):416–425. doi:10.1016/j.jtbi.2005.05.030
Stelzl U, Worm U, Lalowski M et al (2005) A human protein-protein interaction network: a
resource for annotating the proteome. Cell 122(6):957–968. doi:10.1016/j.cell.2005.08.029
The Wellcome Trust Case Control Consortium (2007) Genome-wide association study of 14,000
cases of seven common diseases and 3,000 shared controls. Nature 447(7145):661–678.
doi:10.1038/nature05911
Tong AH, Evangelista M, Parsons AB, Xu H, Bader GD, Page ́N, Robinson M, Raghibizadeh S,
Hogue CW, Bussey H, Andrews B, Tyers M, Boone C (2001) Systematic genetic analysis with
ordered arrays of yeast deletion mutants. Science 294(5550):2364–2368. doi:10.1126/science.
1065810
Trenkwalder C, Garcia-Borreguero D, Montagna P, Lainey E, de Weerd AW, Tidswell P, Saletu-
Zyhlarz G, Telstad W, Ferini-Strambi L (2004) Ropinirole in the treatment of restless legs
176 V. Gligorijevic ́and N. Pržulj