

@InProceedings{horridge07:_ignit_owl,
  author = 	 {Matthew Horridge and Sean Bechhofer and Olaf Noppens},
  title = 	 {{Igniting the OWL 1.1 Touch Paper: The OWL API}},
  booktitle = {Proc. of the OWL Experiences and Directions Workshop (OWLED)},
  year = 	 2007}

@InProceedings{berkley09:_improv_data_discov_metad_repos_seman_searc,
  author = 	 {Chad Berkley and Shawn Bowers and Matthew Jones and Joshua Madin and Mark Schildhauer},
  title = 	 {Improving Data Discovery for Metadata Repositories through Semantic Search},
  booktitle = {Proc. of the Intl. Workshop on Intelligent Systems for Environmental (Knowledge) Engineering and EcoInformatics (iSEEK)},
  year = 	 2009}

@Article{bada04:_short_study_succes_of_gene_ontol,
  author =       {Bada, Michael and Robert Stevens and Carol Goble and
                  A. Gil and Michael Ashburner and Blake, Judith A. and
                  Cherry, J. Michael and Midori Harris and Suzanna Lewis},
  title =        {A short study on the success of the gene ontology},
  journal =      {J. of Web Sem.},
  year =         2004,
  volume =    1,
  pages =     {235--240}}

@InProceedings{hayes05:_collab_knowl_captur_in_ontol,
  author =       {Pat Hayes and Eskridge, Thomas C. and Raul Saavedra
                  and Thomas Reichherzer and Mala Mehrotra and Dmitri
                  Bobrovnikoff},
  title =        {Collaborative knowledge capture in ontologies},
  booktitle = {Proc. of the Intl. Conference on Knowledge Capture
                  (K-CAP)},
  pages =     {99--106},
  year =      2005}

@Article{thau07:_reason_about_taxon_in_first_order_logi,
  author = 	 {David Thau and Bertram Lud\"{a}scher},
  title = 	 {Reasoning about taxonomies in first-order logic},
  journal = 	 {Ecological Informatics},
  year = 	 2007,
  volume = 	 2,
  number = 	 3,
  pages = 	 {195--209}}

@article{an06:_discov_seman_of_relat_tables_throug_mappin,
  author    = {Yuan An and
               Alexander Borgida and
               John Mylopoulos},
  title     = {Discovering the Semantics of Relational Tables Through Mappings},
  journal = {J. Data Semantics VII},
  year      = 2006,
  pages     = {1-32},
  series    = {Lecture Notes in Computer Science},
  volume    = 4244,
}

@InProceedings{bizer03:_d2r_map,
  author = 	 {C. Bizer},
  title = 	 {{D2R MAP---A database to RDF mapping language}},
  booktitle = {Proc. of the Intl. World Wide Web Conference (WWW)},
  pages = 	 {20--24},
  year = 	 2003}

@inproceedings{han08:_rdf12,
  author    = {Lushan Han and
               Tim Finin and
               Cynthia Sims Parr and
               Joel Sachs and
               Anupam Joshi},
  title     = {{RDF123}: From Spreadsheets to {RDF}},
  booktitle = {Proc. of the Intl. Semantic Web Conference (ISWC)},
  year      = 2008,
  pages     = {451-466},
}

@Article{madin07:_ontol_for_descr_and_synth,
  author = 	 {Joshua Madin and Shawn Bowers and Mark Schildhauer
                  and Sergeui Krivov and Deana Pennington and
                  Ferdinando Villa},
  title = 	 {An ontology for describing and synthesizing
                  ecological observation data},
  journal = 	 {Ecological Informatics},
  year = 	 2007,
  volume = 	 2,
  number = 	 3,
  pages = 	 {279-296}}

@InProceedings{kola07:_impor_spread_data_into_proteg,
  author = 	 {Jay Kola and Alan Rector},
  title = 	 {Importing spreadsheet data into {Protege}: Spreadsheet
                  plug-in},
  booktitle = {Proc. of the Intl. Protege Conference},
  year = 	 2007}

@inproceedings{bowers08:_concep_model_framew_for_expres,
  author    = {Shawn Bowers and
               Joshua S. Madin and
               Mark P. Schildhauer},
  title     = {A Conceptual Modeling Framework for Expressing Observational
               Data Semantics},
  booktitle = {Proc. of the Intl. Conference on Conceptual Modeling (ER)},
  year      = 2008,
  pages     = {41-54},
  series    = {Lecture Notes in Computer Science},
  volume    = 5231,
}




@Article{grau08:_owl,
  author = 	 {B. Cuenca Grau and I. Horrocks and B. Motik and
                  B. Parsia and P. Patel-Schneider and U. Sattler},
  title = 	 {{OWL 2: The next step for OWL}},
  journal = 	 {J. of Web Sem.},
  year = 	 2008,
  volume = {6}, 
  number = {4}, 
  pages = {309--322}, 
}

@book{smith04:_owl_web_ontol_languag_guide,
  editor       = {Michael K. Smith and Chris Welty and Deborah L. McGuinness},
  title        = {{OWL} Web Ontology Language Guide}, 
  publisher    = {World Wide Web Consortium (W3C)},
  series       = {W3C}, 
  month        = {February}, 
  year         = 2004,
}



@book{prudhommeaux08:_sparq_query_languag_for_rdf,
  editor       = {Eric Prudhommeaux and Andy Seaborne},
  title        = {{SPARQL} Query Language for {RDF}},
  publisher    = {World Wide Web Consortium (W3C)},
  series       = {W3C}, 
  month        = {January}, 
  year         = 2008,
}


@article{motik05:_query_answer_for_owl_dl_with_rules,
  author    = {Boris Motik and
               Ulrike Sattler and
               Rudi Studer},
  title     = {Query Answering for {OWL-DL} with rules},
  journal   = {J. Web Sem.},
  volume    = 3,
  number    = 1,
  year      = 2005,
  pages     = {41-60},
}



@InProceedings{raskin05, 
  author =       {Raskin, R. and Pan, M.J.},
  title =        {Knowledge representation in the semantic web for
                  Earth and environmental terminology ({SWEET})},
  booktitle = {Computers \& Geosciences, Special Issue on
                  Applications of XML in Geosciences},
  pages =     {1119--1125},
  year =      2005,
  editor =    {Babaie, H.A. and Ramachandran, R.},
  volume =    31}

@Unpublished{raskin:_seman_web_for_earth_and,
  author = 	 {Rob Raskin},
  title = 	 {Semantic Web for Earth and Environmental Terminology
                  (SWEET)},
  note = 	 {http://sweet.jpl.nasa.gov/}}



@inproceedings{rector04:_owl_pizzas,
  author    = {Alan L. Rector and
               Nick Drummond and
               Matthew Horridge and
               Jeremy Rogers and
               Holger Knublauch and
               Robert Stevens and
               Hai Wang and
               Chris Wroe},
  title     = {{OWL Pizzas}: Practical Experience of Teaching {OWL-DL}: Common
               Errors {\&} Common Patterns},
  booktitle = {Proc. of the Intl. Conference on Knowledge Engineering and
                  Knowledge Managment (EKAW)},
  year      = 2004,
  pages     = {63-81},
}

@inproceedings{wang06:_knowl_elicit_plug_in_for_proteg,
  author    = {Yimin Wang and
               York Sure and
               Robert Stevens and
               Alan L. Rector},
  title     = {Knowledge Elicitation Plug-In for Prot{\'e}g{\'e}:
               Card Sorting and Laddering},
  booktitle = {Proc. of the Asian Semantic Web Conference (ASWC)},
  year      = 2006,
  pages     = {552-565},
}


@Article{ashburner00:_gene_ontol,
  author = 	 {{Ashburner,~\emph{et al}}, M.},
  title = 	 {Gene ontology: tool for the unification of biology},
  journal = 	 {Nat. Genet.},
  year = 	 2000,
  volume = 	 25,
  pages = 	 {25--29}}

@Article{bard04:_ontol_in_biolog,
  author = 	 {Bard, J.B.L. and Rhee, S.Y.},
  title = 	 {Ontologies in biology: design, applications, and
                  future challenges},
  journal = 	 {Nat. Rev. Genet.},
  year = 	 2004,
  volume = 	 5,
  pages = 	 {213--221}}

@Article{parr20:_data_sharin_in_ecolog_and_evolut,
  author = 	 {Parr, C.S. and Cummings, M.},
  title = 	 {Data sharing in ecology and evolution},
  journal = 	 {Trends Ecol. Evol.},
  volume = 	 20,
  year =         2004,
  pages = 	 {362--363}}

@Article{madin08:_advan_ecolog_resear_with_ontol,
  author = 	 {Madin, J. and Bowers, S. and Schildhauer, M. and Jones, M.},
  title = 	 {Advancing ecological research with ontologies},
  journal = 	 {Trends in Eco. and Evol.},
  year = 	 2008,
  volume = 	 23,
  number = 	 3,
  pages = 	 {159--168}}

@inproceedings{knublauch04:_editin_descr_logic_ontol_with,
  author    = {Holger Knublauch and
               Mark A. Musen and
               Alan L. Rector},
  title     = {Editing Description Logic Ontologies with the {Prot{\'e}g{\'e}
               OWL Plugin}},
  booktitle = {Proc. of the Intl. Workshop on Description Logics (DL)},
  series    = {CEUR Workshop Proceedings},
  volume    = 104,
  year      = 2004,
}

@Article{kalyanpur05:_swoop,
  author = 	 {Aditya Kalyanpur and Bijan Parsia and Evren Sirin and
                  Bernardo Cuenca-Grau and James Hendler},
  title = 	 {Swoop: A `Web' Ontology Editing Browser},
  journal = 	 {J. of Web Sem.},
  year = 	 2005,
  volume = 	 4,
  number = 	 2}


@InProceedings{tsarkov06:_fact_descr_logic_reason,
  author = 	 {Dmitry Tsarkov and Ian Horrocks},
  title = 	 {{FaCT++} Description Logic Reasoner: System Description},
  booktitle = {Proc. of the Intl. Joint Conference on Automated Reasoning
                  (IJCAR)},
  pages = 	 {292--297},
  year = 	 2006,
  volume = 	 4130,
  series = 	 {Lecture Notes in Artificial Intelligence}}

@article{sirin07:_pellet,
  author    = {Evren Sirin and
               Bijan Parsia and
               Bernardo Cuenca Grau and
               Aditya Kalyanpur and
               Yarden Katz},
  title     = {Pellet: A practical {OWL-DL} reasoner},
  journal   = {J. Web Sem.},
  volume    = 5,
  number    = 2,
  year      = 2007,
  pages     = {51-53},
}

@inproceedings{carroll04:_jena,
  author    = {Jeremy J. Carroll and
               Ian Dickinson and
               Chris Dollin and
               Dave Reynolds and
               Andy Seaborne and
               Kevin Wilkinson},
  title     = {Jena: implementing the semantic web recommendations},
  booktitle = {Proc. of the Intl. World Wide Web Conference (WWW)}, 
  year      = 2004,
  pages     = {74-83},
}



@inproceedings{broekstra02:_sesam,
  author    = {Jeen Broekstra and
               Arjohn Kampman and
               Frank van Harmelen},
  title     = {Sesame: A Generic Architecture for Storing and Querying
               {RDF} and {RDF Schema}},
  booktitle = {Proc. of the Intl. Semantic Web Conference (ISWC)},
  year      = 2002,
  pages     = {54-68},
  publisher = {Springer},
  series    = {Lecture Notes in Computer Science},
  volume    = 2342,
}