Christine Vogel

Summary

Affiliation: New York University
Country: USA

Publications

  1. ncbi The proteomic response to mutants of the Escherichia coli RNA degradosome
    Li Zhou
    University of Texas at Austin, Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, Austin, TX, USA
    Mol Biosyst 9:750-7. 2013
  2. ncbi Insights into the regulation of protein abundance from proteomic and transcriptomic analyses
    Christine Vogel
    Center for Genomics and Systems Biology, New York University, New York 10003, USA
    Nat Rev Genet 13:227-32. 2012
  3. ncbi Protein expression regulation under oxidative stress
    Christine Vogel
    Center for Genomics and Systems Biology, New York University, New York, New York 10003, USA
    Mol Cell Proteomics 10:M111.009217. 2011
  4. ncbi MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines
    Taejoon Kwon
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas, USA
    J Proteome Res 10:2949-58. 2011
  5. ncbi Mining gene functional networks to improve mass-spectrometry-based protein identification
    Smriti R Ramakrishnan
    Department of Computer Sciences, 1 University Station C0500, The University of Texas at Austin, Austin, TX 78712, USA
    Bioinformatics 25:2955-61. 2009
  6. ncbi Label-free protein quantitation using weighted spectral counting
    Christine Vogel
    Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, USA
    Methods Mol Biol 893:321-41. 2012
  7. ncbi Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line
    Christine Vogel
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78229 3900, USA
    Mol Syst Biol 6:400. 2010
  8. ncbi Integrating shotgun proteomics and mRNA expression data to improve protein identification
    Smriti R Ramakrishnan
    Department of Computer Sciences, The University of Texas at Austin, Austin, TX 78712, USA
    Bioinformatics 25:1397-403. 2009
  9. ncbi Calculating absolute and relative protein abundance from mass spectrometry-based protein expression data
    Christine Vogel
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas at Austin, 2500 Speedway, MBB 3 210, Austin, Texas 78712, USA
    Nat Protoc 3:1444-51. 2008
  10. ncbi Protein abundances are more conserved than mRNA abundances across diverse taxa
    Jon M Laurent
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas at Austin, TX, USA
    Proteomics 10:4209-12. 2010

Collaborators

Detail Information

Publications13

  1. ncbi The proteomic response to mutants of the Escherichia coli RNA degradosome
    Li Zhou
    University of Texas at Austin, Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, Austin, TX, USA
    Mol Biosyst 9:750-7. 2013
    ....
  2. ncbi Insights into the regulation of protein abundance from proteomic and transcriptomic analyses
    Christine Vogel
    Center for Genomics and Systems Biology, New York University, New York 10003, USA
    Nat Rev Genet 13:227-32. 2012
    ..Here, we summarize current understanding of the major factors regulating protein expression...
  3. ncbi Protein expression regulation under oxidative stress
    Christine Vogel
    Center for Genomics and Systems Biology, New York University, New York, New York 10003, USA
    Mol Cell Proteomics 10:M111.009217. 2011
    ..We are able to both describe general dynamics of protein concentration changes and suggest possible regulatory mechanisms for individual proteins...
  4. ncbi MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines
    Taejoon Kwon
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas, USA
    J Proteome Res 10:2949-58. 2011
    ..We also demonstrate that enhanced quantification contributes to improve sensitivity in differential expression analyses...
  5. ncbi Mining gene functional networks to improve mass-spectrometry-based protein identification
    Smriti R Ramakrishnan
    Department of Computer Sciences, 1 University Station C0500, The University of Texas at Austin, Austin, TX 78712, USA
    Bioinformatics 25:2955-61. 2009
    ..However, there is often other evidence to suggest that a protein is present and confidence in individual protein identification can be updated accordingly...
  6. ncbi Label-free protein quantitation using weighted spectral counting
    Christine Vogel
    Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, USA
    Methods Mol Biol 893:321-41. 2012
    ..e., measuring relative protein abundances. APEX-based protein abundances span more than four orders of magnitude and are applicable to mixtures of hundreds to thousands of proteins from any type of organism...
  7. ncbi Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line
    Christine Vogel
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78229 3900, USA
    Mol Syst Biol 6:400. 2010
    ....
  8. ncbi Integrating shotgun proteomics and mRNA expression data to improve protein identification
    Smriti R Ramakrishnan
    Department of Computer Sciences, The University of Texas at Austin, Austin, TX 78712, USA
    Bioinformatics 25:1397-403. 2009
    ..However, there is often other information available, e.g. the probability of a protein's presence is likely to correlate with its mRNA concentration...
  9. ncbi Calculating absolute and relative protein abundance from mass spectrometry-based protein expression data
    Christine Vogel
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas at Austin, 2500 Speedway, MBB 3 210, Austin, Texas 78712, USA
    Nat Protoc 3:1444-51. 2008
    ..e., measuring relative protein abundances. APEX-based protein abundances span 3-4 orders of magnitude and are applicable to mixtures of 100s to 1,000s of proteins...
  10. ncbi Protein abundances are more conserved than mRNA abundances across diverse taxa
    Jon M Laurent
    Center for Systems and Synthetic Biology, Institute for Cellular and Molecular Biology, University of Texas at Austin, TX, USA
    Proteomics 10:4209-12. 2010
    ..0008, paired Wilcoxon). These data support the presence of strong selective pressure to maintain protein abundances during evolution, even when mRNA abundances diverge...
  11. ncbi Global signatures of protein and mRNA expression levels
    Raquel de Sousa Abreu
    Children s Cancer Research Institute, University of Texas Health Science Center at San Antonio, TX, USA
    Mol Biosyst 5:1512-26. 2009
    ..We summarize the information that can be derived from comparison of protein and mRNA expression levels and discuss how corresponding sequence characteristics suggest modes of regulation...
  12. ncbi Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation
    Peng Lu
    Center for Systems and Synthetic Biology, Department of Chemistry and Biochemistry, Institute for Cellular and Molecular Biology, 2500 Speedway, University of Texas, Austin, Texas 78712, USA
    Nat Biotechnol 25:117-24. 2007
    ..Therefore, levels of both eukaryotic and prokaryotic proteins are set per mRNA molecule and independently of overall protein concentration, with >70% of yeast gene expression regulation occurring through mRNA-directed mechanisms...
  13. ncbi Buffering by gene duplicates: an analysis of molecular correlates and evolutionary conservation
    Kevin Hannay
    Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, University of Texas at Austin, 2500 Speedway, MBB 3 210, Austin, TX 78712, USA
    BMC Genomics 9:609. 2008
    ....