Jennifer J Smith

Summary

Affiliation: Institute for Systems Biology
Country: USA

Publications

  1. pmc Regulation of peroxisome dynamics
    Jennifer J Smith
    Institute for Systems Biology, 1441 N 34th Street, Seattle, WA 98103, USA
    Curr Opin Cell Biol 21:119-26. 2009
  2. pmc A data integration methodology for systems biology
    Daehee Hwang
    Institute for Systems Biology, Seattle, WA 98103, USA
    Proc Natl Acad Sci U S A 102:17296-301. 2005
  3. pmc Histone chaperone Chz1p regulates H2B ubiquitination and subtelomeric anti-silencing
    Yakun Wan
    Institute for Systems Biology, Seattle, WA 98103, USA
    Nucleic Acids Res 38:1431-40. 2010
  4. pmc Role of the histone variant H2A.Z/Htz1p in TBP recruitment, chromatin dynamics, and regulated expression of oleate-responsive genes
    Yakun Wan
    Institute for Systems Biology, 1441 N 34th St, Seattle, WA 98103, USA
    Mol Cell Biol 29:2346-58. 2009
  5. pmc Transcriptional responses to fatty acid are coordinated by combinatorial control
    Jennifer J Smith
    Institute for Systems Biology, Seattle, WA 98103 8904, USA
    Mol Syst Biol 3:115. 2007
  6. pmc Control of transcriptional variability by overlapping feed-forward regulatory motifs
    Alexander V Ratushny
    Institute for Systems Biology, Seattle, Washington, USA
    Biophys J 95:3715-23. 2008
  7. pmc Global analysis of condition-specific subcellular protein distribution and abundance
    Sunhee Jung
    Molecular and Cellular Biology Program, University of Washington, Seattle, Washington 98195, USA
    Mol Cell Proteomics 12:1421-35. 2013
  8. pmc Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism
    Jennifer J Smith
    Institute for Systems Biology, Yeast Group, Seattle, WA 98103 8904, USA
    Mol Syst Biol 2:2006.0009. 2006
  9. pmc Environment-responsive transcription factors bind subtelomeric elements and regulate gene silencing
    Jennifer J Smith
    Institute for Systems Biology, Seattle, WA 98103, USA
    Mol Syst Biol 7:455. 2011
  10. ncbi request reprint Dual feedback loops in the GAL regulon suppress cellular heterogeneity in yeast
    Stephen A Ramsey
    Institute for Systems Biology, 1441 N 34th Street, Seattle, Washington 98103, USA
    Nat Genet 38:1082-7. 2006

Collaborators

Detail Information

Publications17

  1. pmc Regulation of peroxisome dynamics
    Jennifer J Smith
    Institute for Systems Biology, 1441 N 34th Street, Seattle, WA 98103, USA
    Curr Opin Cell Biol 21:119-26. 2009
    ..This review focuses on the biogenesis of peroxisomes with an emphasis on the regulation of peroxisome formation and the import of peroxisomal matrix proteins in the model organism Saccharomyces cerevisiae...
  2. pmc A data integration methodology for systems biology
    Daehee Hwang
    Institute for Systems Biology, Seattle, WA 98103, USA
    Proc Natl Acad Sci U S A 102:17296-301. 2005
    ..In an accompanying companion paper, we demonstrate the applicability of our approach to biological data. We have integrated our methodology into a free open source software package named POINTILLIST...
  3. pmc Histone chaperone Chz1p regulates H2B ubiquitination and subtelomeric anti-silencing
    Yakun Wan
    Institute for Systems Biology, Seattle, WA 98103, USA
    Nucleic Acids Res 38:1431-40. 2010
    ..Taken together, the results demonstrate a novel role for Chz1p in epigenetic regulation, through H2B de-ubiquitination by Ubp10p...
  4. pmc Role of the histone variant H2A.Z/Htz1p in TBP recruitment, chromatin dynamics, and regulated expression of oleate-responsive genes
    Yakun Wan
    Institute for Systems Biology, 1441 N 34th St, Seattle, WA 98103, USA
    Mol Cell Biol 29:2346-58. 2009
    ..While these new nucleosomes do not incorporate Htz1p, the initial presence of Htz1p appears to mark the promoter for sustained gene expression and the recruitment of TATA-binding protein...
  5. pmc Transcriptional responses to fatty acid are coordinated by combinatorial control
    Jennifer J Smith
    Institute for Systems Biology, Seattle, WA 98103 8904, USA
    Mol Syst Biol 3:115. 2007
    ..Together, these data suggest a network mechanism involving dynamic combinatorial control for coordinating transcriptional responses...
  6. pmc Control of transcriptional variability by overlapping feed-forward regulatory motifs
    Alexander V Ratushny
    Institute for Systems Biology, Seattle, Washington, USA
    Biophys J 95:3715-23. 2008
    ..The OFFNM is highly overrepresented in the yeast regulome, suggesting that the specific functions described for the OFFNM, or other properties of this motif, provide a selective advantage...
  7. pmc Global analysis of condition-specific subcellular protein distribution and abundance
    Sunhee Jung
    Molecular and Cellular Biology Program, University of Washington, Seattle, Washington 98195, USA
    Mol Cell Proteomics 12:1421-35. 2013
    ..It also led to the identification of Fat3, a fatty acid transport protein of the plasma membrane, previously annotated as Ykl187...
  8. pmc Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism
    Jennifer J Smith
    Institute for Systems Biology, Yeast Group, Seattle, WA 98103 8904, USA
    Mol Syst Biol 2:2006.0009. 2006
    ..Statistical analyses of these and other global data sets suggest that the utilization of distinct control mechanisms for the execution of morphological versus metabolic responses is widespread...
  9. pmc Environment-responsive transcription factors bind subtelomeric elements and regulate gene silencing
    Jennifer J Smith
    Institute for Systems Biology, Seattle, WA 98103, USA
    Mol Syst Biol 7:455. 2011
    ..This study reveals a path for the coordination of subtelomeric silencing with cellular environment, and with activities of other cellular processes...
  10. ncbi request reprint Dual feedback loops in the GAL regulon suppress cellular heterogeneity in yeast
    Stephen A Ramsey
    Institute for Systems Biology, 1441 N 34th Street, Seattle, Washington 98103, USA
    Nat Genet 38:1082-7. 2006
    ....
  11. pmc The mobile nucleoporin Nup2p and chromatin-bound Prp20p function in endogenous NPC-mediated transcriptional control
    David J Dilworth
    Institute for Systems Biology, Seattle, WA 98103, USA
    J Cell Biol 171:955-65. 2005
    ....
  12. pmc Genome-wide analysis of signaling networks regulating fatty acid-induced gene expression and organelle biogenesis
    Ramsey A Saleem
    Institute for Systems Biology, Seattle, WA 98103, USA
    J Cell Biol 181:281-92. 2008
    ..Our study represents the first global study of signaling networks regulating the biogenesis of an organelle...
  13. pmc Quantitative mass spectrometry reveals a role for the GTPase Rho1p in actin organization on the peroxisome membrane
    Marcello Marelli
    Institute for Systems Biology, Seattle, WA 98103, USA
    J Cell Biol 167:1099-112. 2004
    ..Rho1p regulates the assembly state of actin on the peroxisome membrane, thereby controlling peroxisome membrane dynamics and biogenesis...
  14. doi request reprint Peroxisomes take shape
    Jennifer J Smith
    1 Seattle Biomedical Research Institute, 307 Westlake Avenue North, 98109 5240, USA 2 Institute for Systems Biology, 401 Terry Avenue North, Seattle, Washington 98109 5219, USA
    Nat Rev Mol Cell Biol 14:803-17. 2013
    ..These important challenges should lead to an understanding of peroxisome dynamics that can be capitalized upon for bioengineering and the development of therapies to improve human health. ..
  15. doi request reprint Statistical analysis of dynamic transcriptional regulatory network structure
    Jennifer J Smith
    Institute for Systems Biology, Seattle, WA, USA
    Methods Mol Biol 781:337-52. 2011
    ....
  16. pmc A data integration methodology for systems biology: experimental verification
    Daehee Hwang
    Institute for Systems Biology, Seattle, WA 98103, USA
    Proc Natl Acad Sci U S A 102:17302-7. 2005
    ..The methodology described here, addresses a critical need across all domains of molecular and cell biology, to effectively integrate large and disparate data sets...
  17. pmc Transcriptome profiling to identify genes involved in peroxisome assembly and function
    Jennifer J Smith
    The Institute for Systems Biology, 1441 N 34th Street, Seattle, WA 98103 8904, USA
    J Cell Biol 158:259-71. 2002
    ..These studies demonstrate the utility of comparative gene profiling as an alternative to functional assays to identify genes with roles in peroxisome biogenesis...