Cecilia N Arighi

Summary

Affiliation: University of Delaware
Country: USA

Publications

  1. pmc TGF-beta signaling proteins and the Protein Ontology
    Cecilia N Arighi
    Delaware Biotechnology Institute, University of Delaware, Newark, DE, USA
    BMC Bioinformatics 10:S3. 2009
  2. doi request reprint eFIP: a tool for mining functional impact of phosphorylation from literature
    Cecilia N Arighi
    Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA
    Methods Mol Biol 694:63-75. 2011
  3. pmc Overview of the BioCreative III Workshop
    Cecilia N Arighi
    Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE, USA
    BMC Bioinformatics 12:S1. 2011
  4. pmc An overview of the BioCreative 2012 Workshop Track III: interactive text mining task
    Cecilia N Arighi
    Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19711, USA
    Database (Oxford) 2013:bas056. 2013
  5. pmc The representation of protein complexes in the Protein Ontology (PRO)
    Carol J Bult
    The Jackson Laboratory, Bar Harbor, ME 04609, USA
    BMC Bioinformatics 12:371. 2011
  6. pmc BioCreative III interactive task: an overview
    Cecilia N Arighi
    Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE, USA
    BMC Bioinformatics 12:S4. 2011
  7. pmc Construction of protein phosphorylation networks by data mining, text mining and ontology integration: analysis of the spindle checkpoint
    Karen E Ross
    Center for Bioinformatics and Computational Biology, 15 Innovation Way, Suite 205, University of Delaware, Newark, DE 19711, USA
    Database (Oxford) 2013:bat038. 2013
  8. pmc The eFIP system for text mining of protein interaction networks of phosphorylated proteins
    Catalina O Tudor
    Department of Computer and Information Sciences, University of Delaware, Newark, USA
    Database (Oxford) 2012:bas044. 2012
  9. doi request reprint 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
  10. pmc Use of the protein ontology for multi-faceted analysis of biological processes: a case study of the spindle checkpoint
    Karen E Ross
    Center for Bioinformatics and Computational Biology, University of Delaware Newark, DE, USA
    Front Genet 4:62. 2013

Detail Information

Publications12

  1. pmc TGF-beta signaling proteins and the Protein Ontology
    Cecilia N Arighi
    Delaware Biotechnology Institute, University of Delaware, Newark, DE, USA
    BMC Bioinformatics 10:S3. 2009
    ..Focusing specifically on the TGF-beta signaling proteins, we describe the building, curation, usage and dissemination of PRO...
  2. doi request reprint eFIP: a tool for mining functional impact of phosphorylation from literature
    Cecilia N Arighi
    Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA
    Methods Mol Biol 694:63-75. 2011
    ..In this chapter, we present a case study of results returned by eFIP for the protein BAD, which is a key regulator of apoptosis that is posttranslationally modified by phosphorylation...
  3. pmc Overview of the BioCreative III Workshop
    Cecilia N Arighi
    Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE, USA
    BMC Bioinformatics 12:S1. 2011
    ..This special issue contains overview papers for the three tasks of BioCreative III...
  4. pmc An overview of the BioCreative 2012 Workshop Track III: interactive text mining task
    Cecilia N Arighi
    Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19711, USA
    Database (Oxford) 2013:bas056. 2013
    ..This analysis will help to plan for a more intense study in BioCreative IV...
  5. pmc The representation of protein complexes in the Protein Ontology (PRO)
    Carol J Bult
    The Jackson Laboratory, Bar Harbor, ME 04609, USA
    BMC Bioinformatics 12:371. 2011
    ....
  6. pmc BioCreative III interactive task: an overview
    Cecilia N Arighi
    Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE, USA
    BMC Bioinformatics 12:S4. 2011
    ..To support the aims of the IAT in BC-III, involvement of both developers and end users was solicited, and the development of a user interface to address the tasks interactively was requested...
  7. pmc Construction of protein phosphorylation networks by data mining, text mining and ontology integration: analysis of the spindle checkpoint
    Karen E Ross
    Center for Bioinformatics and Computational Biology, 15 Innovation Way, Suite 205, University of Delaware, Newark, DE 19711, USA
    Database (Oxford) 2013:bat038. 2013
    ..Our approach for constructing protein phosphorylation networks can be applied to any biological process that is affected by phosphorylation. Database URL: http://www.yeastgenome.org/..
  8. pmc The eFIP system for text mining of protein interaction networks of phosphorylated proteins
    Catalina O Tudor
    Department of Computer and Information Sciences, University of Delaware, Newark, USA
    Database (Oxford) 2012:bas044. 2012
    ..5-fold) for time to completion of the curation task. Additionally, eFIP significantly simplifies the task of finding relevant articles on PPI involving phosphorylated forms of a given protein...
  9. doi request reprint 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. ..
  10. pmc Use of the protein ontology for multi-faceted analysis of biological processes: a case study of the spindle checkpoint
    Karen E Ross
    Center for Bioinformatics and Computational Biology, University of Delaware Newark, DE, USA
    Front Genet 4:62. 2013
    ..Our approach can be generalized to any biological process of interest...
  11. pmc Community annotation and bioinformatics workforce development in concert--Little Skate Genome Annotation Workshops and Jamborees
    Qinghua Wang
    Department of Computer and Information Sciences, Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19711, USA
    Database (Oxford) 2012:bar064. 2012
    ..erinacea genome...
  12. doi request reprint A tutorial on protein ontology resources for proteomic studies
    Cecilia N Arighi
    Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA
    Methods Mol Biol 694:77-90. 2011
    ..In addition, it will provide some details on how you can contribute to the ontology via the rapid annotation interface RACE-PRO...