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Gilberto Paz-Filho Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Claudio Alberto Mastronardi Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Brian J Parker Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Ainy Khan Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Antonio Inserra Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Klaus I Matthaei Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Monika Ehrhart-Bornstein Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Stefan Bornstein Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Ma-Li Wong Departments of Translational Medicine, Genome Biology, Molecular Bioscience, Medical Clinic III, The John Curtin School of Medical Research, The Australian National University, Garran Road, Building 131, Acton, Canberra, Australian Capital Territory 0200, Australia

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Julio Licinio
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). Quality control of RNA and microarray samples The same amount of high-quality RNA from each of the samples was used for the transplanted and sham-operated groups. The assessment of RNA integrity on the Agilent Bioanalyzer 2100 indicated an average RNA

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Julian C Lui Program in Developmental Endocrinology and Genetics, Center for Molecular Medicine and Pediatric Endocrinology Unit, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, CRC, Room 1-3330, 10 Center Drive, MSC 1103, Bethesda, Maryland 20892-1103, USA

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Ola Nilsson Program in Developmental Endocrinology and Genetics, Center for Molecular Medicine and Pediatric Endocrinology Unit, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, CRC, Room 1-3330, 10 Center Drive, MSC 1103, Bethesda, Maryland 20892-1103, USA
Program in Developmental Endocrinology and Genetics, Center for Molecular Medicine and Pediatric Endocrinology Unit, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, CRC, Room 1-3330, 10 Center Drive, MSC 1103, Bethesda, Maryland 20892-1103, USA

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Jeffrey Baron Program in Developmental Endocrinology and Genetics, Center for Molecular Medicine and Pediatric Endocrinology Unit, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, CRC, Room 1-3330, 10 Center Drive, MSC 1103, Bethesda, Maryland 20892-1103, USA

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necessarily involves studying one candidate gene at a time. However, recently, methods have been developed to study expression patterns of large numbers of genes in the growth plate, using microdissection, followed by microarray analysis ( Nilsson et al

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Petter Vikman Diabetes and Endocrinology, Department of Clinical Sciences, Malmö University Hospital, CRC, Lund University, Building 60, Level 13, Entrance 72, S-205 02 Malmö, Skåne, Sweden

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Joao Fadista Diabetes and Endocrinology, Department of Clinical Sciences, Malmö University Hospital, CRC, Lund University, Building 60, Level 13, Entrance 72, S-205 02 Malmö, Skåne, Sweden

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Nikolay Oskolkov Diabetes and Endocrinology, Department of Clinical Sciences, Malmö University Hospital, CRC, Lund University, Building 60, Level 13, Entrance 72, S-205 02 Malmö, Skåne, Sweden

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using hybridization techniques such as northern blotting analysis ( Kevil et al . 1997 ) with the subsequent development allowing for the use of macroarrays ( Rast et al . 2000 ) and then microarrays ( Schena et al . 1995 ) and finally a fully

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R Sasik
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CH Woelk
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J Corbeil
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For many, analysis of a microarray experiment starts with a spreadsheet of expression levels. While great attention is duly paid to RNA extraction, preparation and hybridization, relatively little care is devoted to extraction of expression levels from the fluorescent image. By delegating this step to a click of the mouse the exact extraction process is masked and researchers may be unwittingly compromising their data. In this review, we describe the most common mistakes committed on the path from the image to the spreadsheet and their impact on data quality. Remedies are further proposed for most of the popular microarray platforms in use today.

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A Stevens Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK
Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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C De Leonibus Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK
Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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D Hanson Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK
Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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A W Dowsey Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK
Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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A Whatmore Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK
Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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S Meyer Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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R P Donn Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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P Chatelain Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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I Banerjee Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK
Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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K E Cosgrove Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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P E Clayton Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK
Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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M J Dunne Faculty of Medical and Human Sciences, Manchester Academic Health Science Centre, Paediatric and Adolescent Oncology, Stem Cell and Leukaemia Proteomics Laboratory, Musculoskeletal Research Group, Department Pediatrie, Faculty of Life Sciences, Institute of Human Development, University of Manchester, Manchester, UK

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database of microarray experiments and gene expression profiles . Nucleic Acids Research 35 D747 – D750 . ( doi:10.1093/nar/gkl995 ). Patel L Clayton PE 2012 Predicting response to growth hormone treatment . Indian Journal of Pediatrics 79 229 – 237

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G A Martens Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium
Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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E Motté Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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G Kramer Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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G Stangé Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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L W Gaarn Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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K Hellemans Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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J H Nielsen Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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J M Aerts Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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Z Ling Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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D Pipeleers Diabetes Research Center, Department of Clinical Chemistry and Radioimmunology, Department of Medical Biochemistry, Department of Biomedical Sciences, Brussels Free University (VUB), Laarbeeklaan 103, B1090 Brussel, Belgium

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) ( Fig. 3A ). Gene expression of 22 β cell markers was verified by real-time PCR. Only for Npy and St18 , the microarray and real-time PCR results were congruent. Relative to their Ppia (and Ubc , not shown) mRNA levels, neonatal β cells expressed

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Matthew L Rise
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Susan E Douglas
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Dionne Sakhrani
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Jason Williams
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K Vanya Ewart
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Marlies Rise
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William S Davidson
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Ben F Koop
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Robert H Devlin
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animals. Until recently, studies of the effects of GH on tissue gene expression have been hampered by the lack of genomic tools and methods for global gene expression profiling. The advent of DNA microarrays has allowed detailed analyses of the impacts of

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Angela Delaney Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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Vasantha Padmanabhan Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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Geoffrey Rezvani Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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Weiping Chen Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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Patricia Forcinito Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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Crystal S F Cheung Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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Jeffrey Baron Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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Julian C K Lui Program on Developmental Endocrinology and Genetics, Microarray Core Facility, Department of Pediatrics and the Reproductive Sciences Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development

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( Heinrichs et al . 1994 ). RNA integrity was confirmed using an Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA). Expression microarray No ovine-specific microarray was available commercially. However, sheep and cows differ at <3% of

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S Tozlu-Kara Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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V Roux Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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C Andrieu Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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J Vendrell Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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S Vacher Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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V Lazar Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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F Spyratos Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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M Tubiana-Hulin Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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P Cohen Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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P Dessen Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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R Lidereau Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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I Bièche Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France
Centre René Huguenin, FNCLCC, F-92210 St-Cloud, France INSERM, U735, F-92210 St-Cloud, France Functional Genomic Unit, Institut Gustave-Roussy, Villejuif, France ISPB, Faculté de Pharmacie de Lyon, Université Claude Bernard Lyon 1, Lyon F-69008, France Inserm, U590, Lyon F-69008, France Centre Léon Bérard, Lyon F-69008, France Département de Médecine, Centre René Huguenin, St-Cloud, France CNRS UMR 8125 Bioinformatics Unit, Institut Gustave-Roussy, Villejuif, France

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has provided new insights into the involvement of gene networks and regulatory pathways in various tumoral processes ( DeRisi et al. 1996 ). cDNA and oligonucleotide microarrays are used to test the expression pattern of thousands of genes at a time

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Fei Wu Department of Biochemistry and Biophysics, Department of Veterinary Physiology and Pharmacology, Institute of Biosciences and Technology, Texas A&M University, College Station, Texas 77843, USA

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Ivan Ivanov Department of Biochemistry and Biophysics, Department of Veterinary Physiology and Pharmacology, Institute of Biosciences and Technology, Texas A&M University, College Station, Texas 77843, USA

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Rui Xu Department of Biochemistry and Biophysics, Department of Veterinary Physiology and Pharmacology, Institute of Biosciences and Technology, Texas A&M University, College Station, Texas 77843, USA

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Stephen Safe Department of Biochemistry and Biophysics, Department of Veterinary Physiology and Pharmacology, Institute of Biosciences and Technology, Texas A&M University, College Station, Texas 77843, USA
Department of Biochemistry and Biophysics, Department of Veterinary Physiology and Pharmacology, Institute of Biosciences and Technology, Texas A&M University, College Station, Texas 77843, USA
Department of Biochemistry and Biophysics, Department of Veterinary Physiology and Pharmacology, Institute of Biosciences and Technology, Texas A&M University, College Station, Texas 77843, USA

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, Lobenhofer et al . 2002 , Coser et al . 2003 , Cunliffe et al . 2003 , Frasor et al . 2003 , 2004 , Scafoglio et al . 2006 ) and, in some microarray studies, E 2 decreased expression of more genes than it induced. In this study, we investigated the

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