Peter D'Eustachio

Summary

Affiliation: New York University
Country: USA

Publications

  1. pmc Reactome knowledgebase of human biological pathways and processes
    Lisa Matthews
    Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA
    Nucleic Acids Res 37:D619-22. 2009
  2. pmc The systematic annotation of the three main GPCR families in Reactome
    Bijay Jassal
    European Bioinformatics Institute, Hinxton, Cambridge CB101SD, UK
    Database (Oxford) 2010:baq018. 2010
  3. pmc Pathway databases: making chemical and biological sense of the genomic data flood
    Peter D'Eustachio
    Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, 550 First Avenue, MSB 390, New York, NY 10016, USA
    Chem Biol 20:629-35. 2013
  4. pmc Reactome: a database of reactions, pathways and biological processes
    David Croft
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 39:D691-7. 2011
  5. pmc Reactome: a knowledge base of biologic pathways and processes
    Imre Vastrik
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Genome Biol 8:R39. 2007
  6. pmc The Reactome pathway knowledgebase
    David Croft
    European Bioinformatics Institute EMBL EBI, European Molecular Biology Laboratory, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK, Ontario Institute for Cancer Research, Toronto, ON M5G0A3, Canada, College of Pharmacy and Health Sciences, St John s University, Queens, NY 11439, USA, NYU School of Medicine, New York, NY 10016, USA, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA and Department of Molecular Genetics, University of Toronto, Toronto, ON M5S 1A1, Canada
    Nucleic Acids Res 42:D472-7. 2014
  7. pmc The BioPAX community standard for pathway data sharing
    Emek Demir
    Computational Biology, Memorial Sloan Kettering Cancer Center, New York, New York, USA
    Nat Biotechnol 28:935-42. 2010
  8. pmc Critical amino acid residues in proteins: a BioMart integration of Reactome protein annotations with PRIDE mass spectrometry data and COSMIC somatic mutations
    Nelson Ndegwa
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Database (Oxford) 2011:bar047. 2011
  9. doi Reactome knowledgebase of human biological pathways and processes
    Peter D'Eustachio
    Department of Biochemistry, New York University School of Medicine, New York, NY, USA
    Methods Mol Biol 694:49-61. 2011
  10. pmc Protein Ontology: a controlled structured network of protein entities
    Darren A Natale
    Protein Information Resource, Georgetown University Medical Center, WA 20007, USA, Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19711, USA, Department of Bioinformatics and Computational Biology, The Jackson Laboratory, Bar Harbor, ME 04609, USA, Department of Biochemistry and Molecular Pharmacology, NYU School of Medicine, NY 10016, USA, Department of Neurology, University at Buffalo School of Medicine and Biomedical Sciences, Buffalo, NY 14203, USA, Center of Excellence in Bioinformatics and Life Sciences, University at Buffalo, Buffalo, NY 14203, USA, Department of Immunology, Duke University Medical Center, Durham, NC 27705, USA and Department of Oral Diagnostic Sciences, University at Buffalo School of Dental Medicine, Buffalo, NY 14214, USA
    Nucleic Acids Res 42:D415-21. 2014

Collaborators

Detail Information

Publications13

  1. pmc Reactome knowledgebase of human biological pathways and processes
    Lisa Matthews
    Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA
    Nucleic Acids Res 37:D619-22. 2009
    ..Reactome's data content and software can all be freely used and redistributed under open source terms...
  2. pmc The systematic annotation of the three main GPCR families in Reactome
    Bijay Jassal
    European Bioinformatics Institute, Hinxton, Cambridge CB101SD, UK
    Database (Oxford) 2010:baq018. 2010
    ..Database URL: http://www.reactome.org...
  3. pmc Pathway databases: making chemical and biological sense of the genomic data flood
    Peter D'Eustachio
    Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, 550 First Avenue, MSB 390, New York, NY 10016, USA
    Chem Biol 20:629-35. 2013
    ....
  4. pmc Reactome: a database of reactions, pathways and biological processes
    David Croft
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 39:D691-7. 2011
    ..The resulting inferred pathway sets can be browsed and analyzed with our Species Comparison tool. Collaborations are also underway to create manually curated data sets on the Reactome framework for chicken, Drosophila and rice...
  5. pmc Reactome: a knowledge base of biologic pathways and processes
    Imre Vastrik
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Genome Biol 8:R39. 2007
    ..Finally, we describe the use of Reactome both as a learning resource and as a computational tool to aid in the interpretation of microarrays and similar large-scale datasets...
  6. pmc The Reactome pathway knowledgebase
    David Croft
    European Bioinformatics Institute EMBL EBI, European Molecular Biology Laboratory, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK, Ontario Institute for Cancer Research, Toronto, ON M5G0A3, Canada, College of Pharmacy and Health Sciences, St John s University, Queens, NY 11439, USA, NYU School of Medicine, New York, NY 10016, USA, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA and Department of Molecular Genetics, University of Toronto, Toronto, ON M5S 1A1, Canada
    Nucleic Acids Res 42:D472-7. 2014
    ..The data model has been extended to support annotation of disease processes due to infectious agents and to mutation. ..
  7. pmc The BioPAX community standard for pathway data sharing
    Emek Demir
    Computational Biology, Memorial Sloan Kettering Cancer Center, New York, New York, USA
    Nat Biotechnol 28:935-42. 2010
    ..This large amount of pathway data in a computable form will support visualization, analysis and biological discovery...
  8. pmc Critical amino acid residues in proteins: a BioMart integration of Reactome protein annotations with PRIDE mass spectrometry data and COSMIC somatic mutations
    Nelson Ndegwa
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Database (Oxford) 2011:bar047. 2011
    ....
  9. doi Reactome knowledgebase of human biological pathways and processes
    Peter D'Eustachio
    Department of Biochemistry, New York University School of Medicine, New York, NY, USA
    Methods Mol Biol 694:49-61. 2011
    ....
  10. pmc Protein Ontology: a controlled structured network of protein entities
    Darren A Natale
    Protein Information Resource, Georgetown University Medical Center, WA 20007, USA, Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19711, USA, Department of Bioinformatics and Computational Biology, The Jackson Laboratory, Bar Harbor, ME 04609, USA, Department of Biochemistry and Molecular Pharmacology, NYU School of Medicine, NY 10016, USA, Department of Neurology, University at Buffalo School of Medicine and Biomedical Sciences, Buffalo, NY 14203, USA, Center of Excellence in Bioinformatics and Life Sciences, University at Buffalo, Buffalo, NY 14203, USA, Department of Immunology, Duke University Medical Center, Durham, NC 27705, USA and Department of Oral Diagnostic Sciences, University at Buffalo School of Dental Medicine, Buffalo, NY 14214, USA
    Nucleic Acids Res 42:D415-21. 2014
    ..The past few years have seen growth and changes to the PRO, as well as new points of access to the data and new applications of PRO in immunology and proteomics. Here we describe some of these developments. ..
  11. ncbi An interaction between genetic factors and gender determines the magnitude of the inflammatory response in the mouse air pouch model of acute inflammation
    David L Delano
    New York University Medical Center, New York, New York 10016, USA
    Inflammation 29:1-7. 2005
    ..The loci identified by in silico mapping likely contain genes with differential roles in determining this phenotype between genders...
  12. pmc Gramene 2013: comparative plant genomics resources
    Marcela K Monaco
    Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA, Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USA, EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SD, UK, Informatics and Bio computing Program, Ontario Institute of Cancer Research, Toronto M5G 1L7, Canada, Department of Biochemistry and Molecular Pharmacology, NYU School of Medicine, New York, NY 10016, USA and NAA Plant, Soil and Nutrition Laboratory Research Unit, USDA ARS, Ithaca, NY 14853, USA
    Nucleic Acids Res 42:D1193-9. 2014
    ..The project provides a unique community platform to support scientific research in plant genomics including studies in evolution, genetics, plant breeding, molecular biology, biochemistry and systems biology. ..
  13. pmc The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics
    Lincoln D Stein
    Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA
    PLoS Biol 1:E45. 2003
    ..elegans genome. Based on similarity to C. briggsae, we found strong evidence for 1,300 new C. elegans genes. In addition, comparisons of the two genomes will help to understand the evolutionary forces that mold nematode genomes...