Soumyaroop Bhattacharya

Summary

Affiliation: Harvard University
Country: USA

Publications

  1. pmc Transformation of expression intensities across generations of Affymetrix microarrays using sequence matching and regression modeling
    Soumyaroop Bhattacharya
    Division of Pulmonary Medicine, Pulmonary Medicine Thorn 908, Brigham and Women s Hospital, Boston, MA 02115, USA
    Nucleic Acids Res 33:e157. 2005
  2. pmc Transcriptomic analysis of human lung development
    Alvin T Kho
    Children s Hospital Informatics Program, Harvard MIT Division of Health Sciences and Technology, Boston, Massachusetts, USA
    Am J Respir Crit Care Med 181:54-63. 2010
  3. pmc Expression profiles of the mouse lung identify a molecular signature of time-to-birth
    Alvin T Kho
    Childrens Hospital Informatics Program, Children s Hospital Boston, Harvard MIT Division of Health Sciences and Technology, Boston, Massachusetts, USA
    Am J Respir Cell Mol Biol 40:47-57. 2009
  4. pmc SOX5 is a candidate gene for chronic obstructive pulmonary disease susceptibility and is necessary for lung development
    Craig P Hersh
    Channing Laboratory, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts, USA
    Am J Respir Crit Care Med 183:1482-9. 2011
  5. pmc Integration of genomic and genetic approaches implicates IREB2 as a COPD susceptibility gene
    Dawn L DeMeo
    Channing Laboratory, Brigham and Women s Hospital, Boston, MA 02115, USA
    Am J Hum Genet 85:493-502. 2009
  6. pmc Platform dependence of inference on gene-wise and gene-set involvement in human lung development
    Rose Du
    Channing Laboratory, Brigham and Women s Hospital, Boston, MA 02115, USA
    BMC Bioinformatics 10:189. 2009
  7. pmc Microarray data-based prioritization of chronic obstructive pulmonary disease susceptibility genes
    Soumyaroop Bhattacharya
    Pulmonary Medicine, Thorn 8, Brigham and Womens s Hospital, 75 Francis Street, Boston, MA 02115, USA
    Proc Am Thorac Soc 3:472. 2006
  8. ncbi request reprint Epithelial cell PPAR[gamma] contributes to normal lung maturation
    Dawn M Simon
    Division of Pulmonary and Critical Care Medicine, Brigham and Women s Hospital, Harvard Medical School, Thorn 908, 75 Francis St, Boston, Massachusetts 02115, USA
    FASEB J 20:1507-9. 2006
  9. ncbi request reprint Epithelial cell PPARgamma is an endogenous regulator of normal lung maturation and maintenance
    Dawn M Simon
    Division of Pulmonary Medicine, Brigham and Women s Hospital, The Lung Biology Center, Harvard Medical School, Boston, Massachusetts, USA
    Proc Am Thorac Soc 3:510-1. 2006
  10. pmc A classification-based machine learning approach for the analysis of genome-wide expression data
    James Lyons-Weiler
    Department of Biological Sciences, University of Massachusetts, Lowell, Massachusetts 01854, USA
    Genome Res 13:503-12. 2003

Collaborators

Detail Information

Publications12

  1. pmc Transformation of expression intensities across generations of Affymetrix microarrays using sequence matching and regression modeling
    Soumyaroop Bhattacharya
    Division of Pulmonary Medicine, Pulmonary Medicine Thorn 908, Brigham and Women s Hospital, Boston, MA 02115, USA
    Nucleic Acids Res 33:e157. 2005
    ..Our results suggest that this transformation method is a valuable tool for integrating microarray datasets from different generations of arrays...
  2. pmc Transcriptomic analysis of human lung development
    Alvin T Kho
    Children s Hospital Informatics Program, Harvard MIT Division of Health Sciences and Technology, Boston, Massachusetts, USA
    Am J Respir Crit Care Med 181:54-63. 2010
    ..Current understanding of the molecular regulation of lung development is limited and derives mostly from animal studies...
  3. pmc Expression profiles of the mouse lung identify a molecular signature of time-to-birth
    Alvin T Kho
    Childrens Hospital Informatics Program, Children s Hospital Boston, Harvard MIT Division of Health Sciences and Technology, Boston, Massachusetts, USA
    Am J Respir Cell Mol Biol 40:47-57. 2009
    ....
  4. pmc SOX5 is a candidate gene for chronic obstructive pulmonary disease susceptibility and is necessary for lung development
    Craig P Hersh
    Channing Laboratory, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts, USA
    Am J Respir Crit Care Med 183:1482-9. 2011
    ..Chromosome 12p has been linked to chronic obstructive pulmonary disease (COPD) in the Boston Early-Onset COPD Study (BEOCOPD), but a susceptibility gene in that region has not been identified...
  5. pmc Integration of genomic and genetic approaches implicates IREB2 as a COPD susceptibility gene
    Dawn L DeMeo
    Channing Laboratory, Brigham and Women s Hospital, Boston, MA 02115, USA
    Am J Hum Genet 85:493-502. 2009
    ..4 x 10(-4). IREB2 protein and mRNA were increased in lung-tissue samples from COPD subjects in comparison to controls. In summary, gene-expression and genetic-association results have implicated IREB2 as a COPD susceptibility gene...
  6. pmc Platform dependence of inference on gene-wise and gene-set involvement in human lung development
    Rose Du
    Channing Laboratory, Brigham and Women s Hospital, Boston, MA 02115, USA
    BMC Bioinformatics 10:189. 2009
    ..0 and the Illumina HumanRef-8 v2 Expression Bead Chips, for comparability in a biological system in which changes may be subtle, namely fetal lung tissue as a function of gestational age...
  7. pmc Microarray data-based prioritization of chronic obstructive pulmonary disease susceptibility genes
    Soumyaroop Bhattacharya
    Pulmonary Medicine, Thorn 8, Brigham and Womens s Hospital, 75 Francis Street, Boston, MA 02115, USA
    Proc Am Thorac Soc 3:472. 2006
  8. ncbi request reprint Epithelial cell PPAR[gamma] contributes to normal lung maturation
    Dawn M Simon
    Division of Pulmonary and Critical Care Medicine, Brigham and Women s Hospital, Harvard Medical School, Thorn 908, 75 Francis St, Boston, Massachusetts 02115, USA
    FASEB J 20:1507-9. 2006
    ..These data reveal airway epithelial cell PPARgamma is necessary for normal lung structure and function...
  9. ncbi request reprint Epithelial cell PPARgamma is an endogenous regulator of normal lung maturation and maintenance
    Dawn M Simon
    Division of Pulmonary Medicine, Brigham and Women s Hospital, The Lung Biology Center, Harvard Medical School, Boston, Massachusetts, USA
    Proc Am Thorac Soc 3:510-1. 2006
  10. pmc A classification-based machine learning approach for the analysis of genome-wide expression data
    James Lyons-Weiler
    Department of Biological Sciences, University of Massachusetts, Lowell, Massachusetts 01854, USA
    Genome Res 13:503-12. 2003
    ..By incorporating two criteria-statistical significance and predictive utility-the approach learns the significance level relevant for a given data set. The MDSS approach can be used with any test and classifier operator pair...
  11. ncbi request reprint Overcoming confounded controls in the analysis of gene expression data from microarray experiments
    Soumyaroop Bhattacharya
    Center for Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA 15232, USA
    Appl Bioinformatics 2:197-208. 2003
    ..upmc.edu/GE2/GEDA.html )...
  12. ncbi request reprint Progression-associated genes in astrocytoma identified by novel microarray gene expression data reanalysis
    Tobey J Macdonald
    Center for Cancer and Immunology Research, Children s Research Institute, Department of Hematology Oncology, Children s National Medical Center, Washington, DC, USA
    Methods Mol Biol 377:203-22. 2007
    ..Further investigation is needed to evaluate the role of APOD, as well as the other genes identified, in malignant astrocytoma development...