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Coregulation mapping based on individual phenotypic variation in response to virus infection

By German Nudelman, Yongchao Ge, Jianzhong Hu, Madhu Kumar, Jeremy Seto, Jamie L Duke, Steven H Kleinstein, Fernand Hayot, Stuart C Sealfon and James G Wetmur
Topics: Research
Publisher: BioMed Central
OAI identifier: oai:pubmedcentral.nih.gov:3161383
Provided by: PubMed Central

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Citations

  1. (eds): Multidimensional scaling.
  2. (1992). (eds): Numerical recipes in C: The art of scientific computing
  3. A language and environment for statistical computing.
  4. (1996). A language for data analysis and graphics.
  5. (2000). Altman RB: Principal components analysis to summarize microarray experiments: application to sporulation time series. Pac Symp Biocomput
  6. (2004). Analyzing time series gene expression data. Bioinformatics
  7. (2006). Bar-Joseph Z: STEM: a tool for the analysis of short time series gene expression data. Bmc Bioinformatics
  8. (2005). Cavalleri GL: Genomics: understanding human diversity. Nature
  9. (1998). Cluster analysis and display of genome-wide expression patterns.
  10. DR: NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins.
  11. (2008). E: The HGNC Database in 2008: a resource for the human genome. Nucleic Acids Res
  12. (2009). et al: Genetic variation in IL28B and spontaneous clearance of hepatitis C virus. Nature
  13. (2003). et al: The UCSC Genome Browser Database. Nucleic Acids Res
  14. (2008). et al: Uncovering a macrophage transcriptional program by integrating evidence from motif scanning and expression dynamics. PLoS Comput Biol
  15. (2002). Gene expression patterns in human liver cancers. Mol Biol Cell
  16. (2001). Hacohen N: The plasticity of dendritic cell responses to pathogens and their components. Science
  17. (2009). Hayot F: Powerlaws in interferon-B mRNA distribution in virus-infected dendritic cells.
  18. (2003). Kel AE, Kel-Margoulis OV, et al: TRANSFAC: transcriptional regulation, from patterns to profiles. Nucleic Acids Res
  19. (2010). Kleinstein SH: Antiviral response dictated by choreographed cascade of transcription factors.
  20. (2006). MEME: discovering and analyzing DNA and protein sequence motifs.
  21. (2001). Microarray analysis reveals previously unknown changes in Toxoplasma gondii-infected human cells.
  22. (2006). Nature Genetics
  23. (2003). P: Newcastle disease virus V protein is a determinant of host range restriction.
  24. (2008). Reich NC: IRF-3-dependent and augmented target genes during viral infection. Genes Immun
  25. (2001). Ricciardi-Castagnoli P: Inducible IL-2 production by dendritic cells revealed by global gene expression analysis. Nat Immunol
  26. (2007). Sealfon SC: BioPP: a tool for webpublication of biological networks.
  27. (2008). Sealfon SC: Getting started in biological pathway construction and analysis. PLoS Comput Biol
  28. (2007). Wetmur JG: Chromosome-specific and noisy IFNB1 transcription in individual virus-infected human primary dendritic cells. Nucleic Acids Res
  29. (2008). WH: Multidimensional scaling for large genomic data sets. Bmc Bioinformatics
  30. (2003). Wingender E: MATCH: A tool for searching transcription factor binding sites in DNA sequences. Nucleic Acids Res
  31. (2005). Young RA: Insights into host responses against pathogens from transcriptional profiling. Nat Rev Microbiol