Dana-Farber Cancer Institute (DFCI) | | Dept of Cancer Biology (DFCI) | | Harvard Medical School (HMS) | | Dept of Genetics (HMS)     

International Consortiums

ORFeome Collaboration

Integrative Research Centers

Center for Cancer Genome Discovery (CCGD), Dana-Farber Cancer Institute. Directors: William Hahn, MD, PhD and Matthew Meyerson, MD, PhD.
Center for Functional Cancer Epigenetics (CFCE), Dana-Farber Cancer Institute. Directors: Myles Brown, MD and Shirley Liu, PhD.
Center for Molecular Oncologic Pathology (CMOP), Dana-Farber Cancer Institute & Brigham and Women's Hospital. Director: Massimo Loda, MD.
Belfer Institute for Applied Cancer Science, Dana-Farber Cancer Institute. Scientific Directors: Pasi Jänne, MD, PhD and Kwok-Kin Wong, MD.

Active Collaborations

Alan D'Andrea, MD, Dept of Hematology, Boston Children's Hospital. The D'Andrea lab investigates the molecular underpinnings of Fanconi anemia, a human autosomal recessive disease characterized by spontaneous chromosome breakage and cancer susceptibility. We are collaborating with the D'Andrea lab in mapping protein-protein interactomes for Fanconi anemia (FA) disease genes, and exploring how such interactomes are perturbed by FA disease mutations. (D'Andrea lab)

Javier De Las Rivas, PhD, Cancer Research Center, CSIC - University of Salamanca. The De Las Rivas group applies bioinformatics and computational biology analyses towards genomics and proteomics data, focusing on gene and protein networks related to cancer. We are collaborating with the De Las Rivas group in ascertaining the quality of literature curated protein-protein interactions in order to produce reference sets for diverse purposes. (Bioinformatics and Functional Genomics Research Group)

Anne-Claude Gingras, PhD, Samuel Lunenfeld Research Institute at Mount Sinai Hospital, Toronto. The Gingras lab uses quantitative proteomics approaches, as well as an array of biochemical and cell biological technologies, to shed light on protein phosphatases involved in signal transduction. We are collaborating with the Gingras lab in interpretation and quality assessment of protein-protein interactions determined by affinity purification / mass spectrometry (AP-MS) methodologies. (Gingras lab)

Lilia Iakoucheva, PhD, Dept of Psychiatry, University of California, San Diego. The Iakoucheva lab applies protein structure and protein-protein interaction analyses towards investigation of psychiatric diseases. We are collaborating with the Iakoucheva lab in mapping and analyzing protein-protein interactomes for autism and schizophrenia candidate disease genes. (Iakoucheva lab)

Yves Jacob, MD, PhD, Virus Interactomics group in the Molecular Genetics of RNA Viruses Unit, Pasteur Institute, Paris. Dr. Jacob is a pioneer in virhostomes, deciphering the interactions between viral and host proteins. CCSB is collaborating with his group not only to construct pathogen-host interactomes, but also to develop innovative technologies such as state-of-the-art yeast two-hybrid and orthogonal protein-protein or protein-nucleic acid interaction assays. (Jacob lab)

Susan Lindquist, PhD, Whitehead Institute, MIT. The broad range of research in the Lindquist lab is unified by the theme of protein folding. Through diverse biochemical and genetic approaches they investigate the mechanisms of protein folding and the consequences of misfolding in both simple and complex organisms. We are collaborating with the Lindquist lab on validating protein interactions by a LUMIER assay they developed, and on profiling edgetic disease alleles. (Lindquist lab)

David Livingston, MD, Dana-Farber Cancer Institute. Research in the Livingston lab is dedicated to understanding how the BRCA1 and BRCA2 breast and ovarian cancer tumor suppressor gene products function, using a diverse set of genetic, biochemical, and biological methods to get at the molecular mechanisms behind these cancers. We are collaborating with the Livingston lab on interactome profiling of breast cancer candidate genes, and on edgetic profiling of BRCA1 mutations. (Livingston lab)

Jarrod Marto, PhD, Blais Proteomics Center, Dana-Farber Cancer Institute. The Marto lab uses and develops proteomics-based methodologies for in-depth analysis of key molecular events in cellular development and disease. We are collaborating with the Marto lab in detecting and confirming protein-protein interactomes by mass spectrometry based technologies. (Blais Proteomics Center)

Norbert Perrimon, PhD, Dept of Genetics, Harvard Medical School. The Perrimon lab applies Drosophila functional genomics as a model system to characterize the responses of specific cells to extracellular signals. We are collaborating with the Perrimon lab in mapping and analyzing a large-scale high confidence binary interactome network for Drosphila. (Perrimon lab)

Todd Stukenberg, PhD, University of Virginia. The collaboration with the Stukenberg group aims to generate and distribute a Xenopus laevis ORFeome, a fully sequenced, validated set of cDNA clones containing one each of every open reading frame (ORF) encoded in the Xenopus genome. Production of a Xenopus ORFeome will greatly enhance the usefulness of the current genome information on Xenopus. (Stukenberg Lab)

Jan Tavernier, PhD, University of Ghent, Belgium. Dr. Tavernier’s research is focused on analyzing and understanding cytokine receptor signaling. His group developed the Mammalian Protein-Protein Interaction Trap (MAPPIT). MAPPIT is part of the interaction assay tool-kit used at CCSB for determining confidence scores of individual protein interactions at large-scale. We collaborate with them for confidence scoring of the human, worm and yeast interactomes. (Cytokine Receptor Lab)


Erstwhile collaborations

Huda Zhogbi, Baylor College of Medicine (Ataxia Disease Networks)
Joseph R. Nevins, Duke University (Oncogenic Networks)
Elliot Kieff, Brigham and Women's Hospital, Harvard medical School (Virhostome Networks)
Joseph P. Ecker, Salk Institute (Plant Interactomes)
Karl Munger,
Brigham and Women's Hospital, Harvard Medical School (Virhostome Networks)
James A. DeCaprio, Dana-Farber Cancer Institute (Virhostome Networks)
John Quackenbush,
Center for Cancer Computational Biology, DFCI (Virhostome Networks)
Jason Papin,
Computational Systems Biology Laboratory, Univ of Virginia (Chlamydomonas metabolic ORFeome)
Jeffrey Wrana, Samuel Lunenfeld Research Institute, Toronto
(Protein Interaction Assays)

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