Brian J Stevenson
Affiliation: Ludwig Institute for Cancer Research
- AssociationViewer: a scalable and integrated software tool for visualization of large-scale variation data in genomic contextOlivier Martin
Swiss Institute of Bioinformatics, Switzerland
Bioinformatics 25:662-3. 2009..AssociationViewer integrates functionalities that enable the aggregation or intersection of data tracks. It implements an efficient cache system and allows the display of several, very large-scale genomic datasets...
- Establishment of the epithelial-specific transcriptome of normal and malignant human breast cells based on MPSS and array expression dataAnita Grigoriadis
Ludwig Institute for Cancer Research University College London Breast Cancer Laboratory, 91 Riding House Street, London, W1W 7BS, UK
Breast Cancer Res 8:R56. 2006....
- Rapid evolution of cancer/testis genes on the X chromosomeBrian J Stevenson
Ludwig Institute for Cancer Research and Swiss Institute of Bioinformatics, Lausanne, Switzerland
BMC Genomics 8:129. 2007..While it has been shown that some CT genes are under diversifying selection, this question has not been addressed before for the class as a whole...
- An atlas of human gene expression from massively parallel signature sequencing (MPSS)C Victor Jongeneel
Office of Information Technology, Ludwig Institute for Cancer Research, and Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland
Genome Res 15:1007-14. 2005..The data are available on the Web at http://mpss.licr.org and http://sgb.lynxgen.com...
- Identification of cancer/testis-antigen genes by massively parallel signature sequencingYao Tseng Chen
Weill Medical College of Cornell University, New York, NY 10021, USA
Proc Natl Acad Sci U S A 102:7940-5. 2005..Thus, MPSS analysis has resulted in a significant extension of our knowledge of CT antigens, leading to the discovery of a distinctive X-linked CT-antigen gene family...
- Comprehensive sampling of gene expression in human cell lines with massively parallel signature sequencingC Victor Jongeneel
Office of Information Technology, Ludwig Institute for Cancer Research, and Swiss Institute of Bioinformatics, 1066 Epalinges, Switzerland
Proc Natl Acad Sci U S A 100:4702-5. 2003....
- Nineteen additional unpredicted transcripts from human chromosome 21Alexandre Reymond
Division of Medical Genetics, University of Geneva Medical School, 1211 Geneva, Switzerland
Genomics 79:824-32. 2002....
- The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tagsHelena Brentani
Laboratório de Genética Molecular do Câncer, Departmento de Radiologia, Universidade de Sao Paulo, Travessa da Rua Dr Ovídeo Pires de Campos S N, 4deg, Brazil
Proc Natl Acad Sci U S A 100:13418-23. 2003....
- trome, trEST and trGEN: databases of predicted protein sequencesPeter Sperisen
Swiss Institute of Bioinformatics, Ludwig Institute for Cancer Research, Chemin des Boveresses 155, 1066 Epalinges s Lausanne, Switzerland
Nucleic Acids Res 32:D509-11. 2004..These new databases are in a Swiss-Prot-like format and are updated on a weekly basis (trEST and trGEN) or every 3 months (trome). They can be downloaded by anonymous ftp from ftp://ftp.isrec.isb-sib.ch/pub/databases...
- Identification of 9 novel transcripts and two RGSL genes within the hereditary prostate cancer region (HPC1) at 1q25Ana Paula M Silva
Ludwig Institute for Cancer Research, Rua Antonio Prudente 109, 4th Floor, 01509 010, Sao Paulo, SP, Brazil
Gene 310:49-57. 2003..RGSL1 and RGLS2 expression was detected by real-time polymerase chain reaction in normal prostate tissue, but could not be detected in prostate tumor cell lines, suggesting they might have a role in prostate cancer...
- Use of transcriptome data to unravel the fine structure of genes involved in sepsisBrian J Stevenson
Office of Information Technology, Ludwig Institute for Cancer Research, and Swiss Institute of Bioinformatics, Epalinges, Switzerland
J Infect Dis 187:S308-14. 2003..These findings have implications for the analysis of TLR gene expression and for the diversity of the proteins encoded by these genes...
- Identification of CT46/HORMAD1, an immunogenic cancer/testis antigen encoding a putative meiosis-related proteinYao Tseng Chen
Weill Medical College, Cornell University, New York, NY 10021, USA
Cancer Immun 5:9. 2005..The CT46/HORMAD1 protein was found to be homologous to the prototype HORMA domain-containing protein, Hop1, a yeast meiosis-specific protein, as well as to asy1, a meiotic synaptic mutant protein in Arabidopsis thaliana...
- Numerous potentially functional but non-genic conserved sequences on human chromosome 21Emmanouil T Dermitzakis
Division of Medical Genetics, 1 rue Michel Servet, University of Geneva Medical School and University Hospitals of Geneva, CH 1211 Geneva, Switzerland
Nature 420:578-82. 2002....
- Identification of tumor-associated antigens by large-scale analysis of genes expressed in human colorectal cancerPedro M S Alves
National Center of Competence in Research, Molecular Oncology, ISREC, Ch des Boveresses 155, 1066 Epalinges, Switzerland
Cancer Immun 8:11. 2008..Our data suggest that this sequence should be considered as a target of immunological interventions against colorectal cancer...