Genome-wide Analysis papers 
Click on a topic to see a list of all papers associated with that topic:
| Citation | Topic(s) |
|---|---|
| Cui F, et al. (2012) Transcriptional activation of yeast genes disrupts intragenic nucleosome phasing. Nucleic Acids Res 40(21):10753-64 | Omics , Other genomic analysis |
| Cui G, et al. (2012) ModuleSearch: finding functional modules in a protein-protein interaction network. Comput Methods Biomech Biomed Engin 15(7):691-9 | Computational analysis , Omics |
| Curtis RE, et al. (2012) Enabling dynamic network analysis through visualization in TVNViewer. BMC Bioinformatics 13(1):204 | Computational analysis , Omics |
| Dai Z and Dai X (2012) Antisense transcription is coupled to nucleosome occupancy in sense promoters. Bioinformatics 28(21):2719-23 | Omics , Other genomic analysis |
| Dai Z and Dai X (2012) Nuclear colocalization of transcription factor target genes strengthens coregulation in yeast. Nucleic Acids Res 40(1):27-36 | Computational analysis , Omics |
| Daigle BJ Jr, et al. (2012) Accelerated maximum likelihood parameter estimation for stochastic biochemical systems. BMC Bioinformatics 13(1):68 | Computational analysis , Omics |
| Darby MM, et al. (2012) The Saccharomyces cerevisiae Nrd1-Nab3 transcription termination pathway acts in opposition to Ras signaling and mediates response to nutrient depletion. Mol Cell Biol 32(10):1762-75 | Large-scale genetic interaction , Omics |
| Darieva Z, et al. (2012) Protein kinase C regulates late cell cycle-dependent gene expression. Mol Cell Biol 32(22):4651-61 | Genomic expression study , Omics |
| Das R, et al. (2012) Extracting gene-gene interactions through curve fitting. IEEE Trans Nanobioscience 11(4):402-9 | Computational analysis , Omics |
| Davey HM, et al. (2012) Genome-wide analysis of longevity in nutrient-deprived Saccharomyces cerevisiae reveals importance of recycling in maintaining cell viability. Environ Microbiol 14(5):1249-60 | Large-scale phenotype analysis , Omics |
| Davidson MB, et al. (2012) Endogenous DNA replication stress results in expansion of dNTP pools and a mutator phenotype. EMBO J 31(4):895-907 | Comparative genomic hybridization , Omics |
| Daye ZJ, et al. (2012) A Sparse Structured Shrinkage Estimator for Nonparametric Varying-Coefficient Model with an Application in Genomics. J Comput Graph Stat 21(1):110-133 | Computational analysis , Omics |
| Daye ZJ, et al. (2012) High-Dimensional Heteroscedastic Regression with an Application to eQTL Data Analysis. Biometrics 68(1):316-326 | Computational analysis , Omics |
| De Battista H, et al. (2012) Reaction rate reconstruction from biomass concentration measurement in bioreactors using modified second-order sliding mode algorithms. Bioprocess Biosyst Eng 35(9):1615-25 | Computational analysis , Omics |
| De Piccoli G, et al. (2012) Replisome stability at defective DNA replication forks is independent of S phase checkpoint kinases. Mol Cell 45(5):696-704 | Genomic co-immunoprecipitation study , Omics |
| De RK and Tomar N (2012) Modeling the optimal central carbon metabolic pathways under feedback inhibition using flux balance analysis. J Bioinform Comput Biol 10(6):1250019 | Computational analysis , Omics |
| De la Fuente IM and Cortes JM (2012) Quantitative analysis of the effective functional structure in yeast glycolysis. PLoS One 7(2):e30162 | Computational analysis , Omics |
| Debacker K, et al. (2012) Histone deacetylase complexes promote trinucleotide repeat expansions. PLoS Biol 10(2):e1001257 | Large-scale phenotype analysis , Omics |
| Dephoure N and Gygi SP (2012) Hyperplexing: a method for higher-order multiplexed quantitative proteomics provides a map of the dynamic response to rapamycin in yeast. Sci Signal 5(217):rs2 | Large-scale protein detection , Omics |
| Dev BB, et al. (2012) Detecting motifs and patterns at mobile genetic element insertion site. Bioinformation 8(16):777-86 | Computational analysis , Omics |
| Di Rienzi SC, et al. (2012) Maintaining replication origins in the face of genomic change. Genome Res 22(10):1940-52 | Omics , Other genomic analysis |
| Diao L and Chen KC (2012) Local ancestry corrects for population structure in Saccharomyces cerevisiae genome-wide association studies. Genetics 192(4):1503-11 | Computational analysis , Omics |
| Dikicioglu D, et al. (2012) Short- and long-term dynamic responses of the metabolic network and gene expression in yeast to a transient change in the nutrient environment. Mol Biosyst 8(6):1760-74 | Computational analysis , Genomic expression study , Omics |
| Ding MZ, et al. (2012) Proteomic research reveals the stress response and detoxification of yeast to combined inhibitors. PLoS One 7(8):e43474 | Large-scale protein detection , Omics |
| Doherty KM, et al. (2012) Loss of a 20S Proteasome Activator in Saccharomyces cerevisiae Downregulates Genes Important for Genomic Integrity, Increases DNA Damage, and Selectively Sensitizes Cells to Agents With Diverse Mechanisms of Action. G3 (Bethesda) 2(8):943-59 | Genomic expression study , Omics |
| Dos Santos SC, et al. (2012) Quantitative- and phospho-proteomic analysis of the yeast response to the tyrosine kinase inhibitor imatinib to pharmacoproteomics-guided drug line extension. OMICS 16(10):537-51 | Omics , Other large-scale proteomic analysis |
| Douglas AC, et al. (2012) Functional analysis with a barcoder yeast gene overexpression system. G3 (Bethesda) 2(10):1279-89 | Large-scale genetic interaction , Large-scale phenotype analysis , Omics |
| Du Y, et al. (2012) Expression profiling reveals an unexpected growth-stimulating effect of surplus iron on the yeast Saccharomyces cerevisiae. Mol Cells 34(2):127-32 | Genomic expression study , Omics |
| Duenas-Sanchez R, et al. (2012) Transcriptional regulation of fermentative and respiratory metabolism in Saccharomyces cerevisiae industrial bakers' strains. FEMS Yeast Res 12(6):625-36 | Genomic expression study , Omics |
| Dumcke S, et al. (2012) One Hand Clapping: detection of condition-specific transcription factor interactions from genome-wide gene activity data. Nucleic Acids Res 40(18):8883-92 | Computational analysis , Omics |
