References Associated with Literature Topic: Computational analysis Help


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Sun S, et al.  (2012) An iterative network partition algorithm for accurate identification of dense network modules. Nucleic Acids Res 40(3):e18
Surovtsova I, et al.  (2012) Simplification of biochemical models: a general approach based on the analysis of the impact of individual species and reactions on the systems dynamics. BMC Syst Biol 6(1):14
Swinnen S, et al.  (2012) Identification of novel causative genes determining the complex trait of high ethanol tolerance in yeast using pooled-segregant whole-genome sequence analysis. Genome Res 22(5):975-84
Szklarczyk R, et al.  (2012) Iterative orthology prediction uncovers new mitochondrial proteins and identifies C12orf62 as the human ortholog of COX14, a protein involved in the assembly of cytochrome c oxidase. Genome Biol 13(2):R12
Tazzyman SJ, et al.  (2012) Mate choice among yeast gametes can purge deleterious mutations. J Evol Biol 25(8):1463-71
Tetenbaum-Novatt J, et al.  (2012) Nucleocytoplasmic transport: a role for nonspecific competition in karyopherin-nucleoporin interactions. Mol Cell Proteomics 11(5):31-46
Thompson EG and Galitski T  (2012) Quantifying and analyzing the network basis of genetic complexity. PLoS Comput Biol 8(7):e1002583
Tiger CF, et al.  (2012) A framework for mapping, visualisation and automatic model creation of signal-transduction networks. Mol Syst Biol 8():578
Tjong H, et al.  (2012) Physical tethering and volume exclusion determine higher-order genome organization in budding yeast. Genome Res 22(7):1295-305
Tkach JM, et al.  (2012) Dissecting DNA damage response pathways by analysing protein localization and abundance changes during DNA replication stress. Nat Cell Biol 14(9):966-76
Todd RG and Helikar T  (2012) Ergodic sets as cell phenotype of budding yeast cell cycle. PLoS One 7(10):e45780
Tokuda N, et al.  (2012) Dynamical Modeling of Three-Dimensional Genome Organization in Interphase Budding Yeast. Biophys J 102(2):296-304
Tu S, et al.  (2012) Transcription network analysis by a sparse binary factor analysis algorithm. J Integr Bioinform 9(2):198
Tuikkala J, et al.  (2012) A multilevel layout algorithm for visualizing physical and genetic interaction networks, with emphasis on their modular organization. BioData Min 5(1):2
Tuncbag N, et al.  (2012) SteinerNet: a web server for integrating 'omic' data to discover hidden components of response pathways. Nucleic Acids Res 40(Web Server issue):W505-9
Urquiza JM, et al.  (2012) Using machine learning techniques and genomic/proteomic information from known databases for defining relevant features for PPI classification. Comput Biol Med 42(6):639-50
Van Deun K, et al.  (2012) DISCO-SCA and Properly Applied GSVD as Swinging Methods to Find Common and Distinctive Processes. PLoS One 7(5):e37840
Venturelli OS, et al.  (2012) Synergistic dual positive feedback loops established by molecular sequestration generate robust bimodal response. Proc Natl Acad Sci U S A 109(48):E3324-33
Vinh NX, et al.  (2012) Issues impacting genetic network reverse engineering algorithm validation using small networks. Biochim Biophys Acta 1824(12):1434-41
Walker MB, et al.  (2012) Clusters of ancestrally related genes that show paralogy in whole or in part are a major feature of the genomes of humans and other species. PLoS One 7(4):e35274
Wang B and Gao L  (2012) Seed selection strategy in global network alignment without destroying the entire structures of functional modules. Proteome Sci 10 Suppl 1():S16
Wang D, et al.  (2012) Principal-oscillation-pattern analysis of gene expression. PLoS One 7(1):e28805
Wang H and Zheng H  (2012) Correlation of genomic features with dynamic modularity in the yeast interactome: a view from the structural perspective. IEEE Trans Nanobioscience 11(3):244-50
Wang J, et al.  (2012) Filtering Gene Ontology semantic similarity for identifying protein complexes in large protein interaction networks. Proteome Sci 10 Suppl 1():S18
Wang J, et al.  (2012) Identification of hierarchical and overlapping functional modules in PPI networks. IEEE Trans Nanobioscience 11(4):386-93
Wang J, et al.  (2012) Identifying protein complexes from interactome based on essential proteins and local fitness method. IEEE Trans Nanobioscience 11(4):324-35
Wang K, et al.  (2012) Clustering of time-course gene expression profiles using normal mixture models with autoregressive random effects. BMC Bioinformatics 13(1):300
Wang L, et al.  (2012) Integrating phosphorylation network with transcriptional network reveals novel functional relationships. PLoS One 7(3):e33160
Wang L, et al.  (2012) Penalized generalized estimating equations for high-dimensional longitudinal data analysis. Biometrics 68(2):353-60
Wang X, et al.  (2012) An overlapping module identification method in protein-protein interaction networks. BMC Bioinformatics 13 Suppl 7():S4