Pratyaksha Wirapati

Summary

Affiliation: Swiss Institute of Bioinformatics
Country: Switzerland

Publications

  1. pmc Relationship between estrogen receptor alpha location and gene induction reveals the importance of downstream sites and cofactors
    Fabio Parisi
    School of Life Sciences, Swiss Institute for Experimental Cancer Research ISREC, Ecole Polytechnique Federale de Lausanne EPFL, CH 1015 Lausanne, Switzerland
    BMC Genomics 10:381. 2009
  2. pmc Molecular risk assessment of BIG 1-98 participants by expression profiling using RNA from archival tissue
    Janine Antonov
    Department of Clinical Research, University of Bern, Bern, Switzerland
    BMC Cancer 10:37. 2010
  3. pmc Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures
    Pratyaksha Wirapati
    Swiss Institute of Bioinformatics, Batiment Genopode, University of Lausanne, 1015 Lausanne, Switzerland
    Breast Cancer Res 10:R65. 2008
  4. doi request reprint Detecting epistasis with restricted response patterns in pairs of biallelic loci
    Pratyaksha Wirapati
    Swiss Institute of Bioinformatics, Lausanne, Switzerland
    Ann Hum Genet 75:133-45. 2011
  5. pmc Selecting control genes for RT-QPCR using public microarray data
    Vlad Popovici
    Bioinformatics Core Facility, Swiss Institute of Bioinformatics, CH 1015 Lausanne, Switzerland
    BMC Bioinformatics 10:42. 2009
  6. doi request reprint Chromosomal number aberrations and transformation in adult mouse retinal stem cells in vitro
    Meta Djojosubroto
    Unit of Gene Therapy and Stem Cell Biology, Department of Ophthalmology, Jules Gonin Eye Hospital, Lausanne, Switzerland
    Invest Ophthalmol Vis Sci 50:5975-87. 2009
  7. pmc Impact of normalization on miRNA microarray expression profiling
    Sylvain Pradervand
    Lausanne DNA Array Facility, Center for Integrative Genomics, University of Lausanne, CH 1015 Lausanne, Switzerland
    RNA 15:493-501. 2009
  8. pmc Identifying synergistic regulation involving c-Myc and sp1 in human tissues
    Fabio Parisi
    Swiss Institute for Experimental Cancer Research ISREC and NCCR Molecular Oncology, Lausanne, Switzerland
    Nucleic Acids Res 35:1098-107. 2007
  9. doi request reprint Affymetrix Whole-Transcript Human Gene 1.0 ST array is highly concordant with standard 3' expression arrays
    Sylvain Pradervand
    DNA Array Facility, Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland
    Biotechniques 44:759-62. 2008

Collaborators

Detail Information

Publications9

  1. pmc Relationship between estrogen receptor alpha location and gene induction reveals the importance of downstream sites and cofactors
    Fabio Parisi
    School of Life Sciences, Swiss Institute for Experimental Cancer Research ISREC, Ecole Polytechnique Federale de Lausanne EPFL, CH 1015 Lausanne, Switzerland
    BMC Genomics 10:381. 2009
    ..In particular, we study the influence of patterns of DNA occupancy by hERalpha on expression phenotypes...
  2. pmc Molecular risk assessment of BIG 1-98 participants by expression profiling using RNA from archival tissue
    Janine Antonov
    Department of Clinical Research, University of Bern, Bern, Switzerland
    BMC Cancer 10:37. 2010
    ..The purpose of the work reported here is to test reliable molecular profiles using routinely processed formalin-fixed paraffin-embedded (FFPE) tissues from participants of the clinical trial BIG 1-98 with a median follow-up of 60 months...
  3. pmc Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures
    Pratyaksha Wirapati
    Swiss Institute of Bioinformatics, Batiment Genopode, University of Lausanne, 1015 Lausanne, Switzerland
    Breast Cancer Res 10:R65. 2008
    ....
  4. doi request reprint Detecting epistasis with restricted response patterns in pairs of biallelic loci
    Pratyaksha Wirapati
    Swiss Institute of Bioinformatics, Lausanne, Switzerland
    Ann Hum Genet 75:133-45. 2011
    ..Interaction-only tests are the least powerful; while pattern search approach is the most powerful if the range of possibilities is restricted, but still includes the true pattern...
  5. pmc Selecting control genes for RT-QPCR using public microarray data
    Vlad Popovici
    Bioinformatics Core Facility, Swiss Institute of Bioinformatics, CH 1015 Lausanne, Switzerland
    BMC Bioinformatics 10:42. 2009
    ..Thus, the choice of the control genes is of utmost importance, yet there is not a generally accepted standard technique for screening a large number of candidates and identifying the best ones...
  6. doi request reprint Chromosomal number aberrations and transformation in adult mouse retinal stem cells in vitro
    Meta Djojosubroto
    Unit of Gene Therapy and Stem Cell Biology, Department of Ophthalmology, Jules Gonin Eye Hospital, Lausanne, Switzerland
    Invest Ophthalmol Vis Sci 50:5975-87. 2009
    ..However, as cells in prolonged cultivation may be unstable and thus have a risk of transformation, it is important to assess the stability of these cells...
  7. pmc Impact of normalization on miRNA microarray expression profiling
    Sylvain Pradervand
    Lausanne DNA Array Facility, Center for Integrative Genomics, University of Lausanne, CH 1015 Lausanne, Switzerland
    RNA 15:493-501. 2009
    ....
  8. pmc Identifying synergistic regulation involving c-Myc and sp1 in human tissues
    Fabio Parisi
    Swiss Institute for Experimental Cancer Research ISREC and NCCR Molecular Oncology, Lausanne, Switzerland
    Nucleic Acids Res 35:1098-107. 2007
    ..Our approach shows how integrated functional analyses can uncover tissue-specific and combinatorial regulatory dependencies in mammals...
  9. doi request reprint Affymetrix Whole-Transcript Human Gene 1.0 ST array is highly concordant with standard 3' expression arrays
    Sylvain Pradervand
    DNA Array Facility, Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland
    Biotechniques 44:759-62. 2008
    ..This may reflect the impact of the target type. Overall, the high degree of correspondence provides strong evidence for the reliability of the Gene 1.0 ST array...