2008:

• Big data: The future of biocuration | Nature, 455, 47-50, September 2008
  Doug Howe, Maria Costanzo, Petra Fey, Takashi Gojobori, Linda Hannick, Winston Hide, David P. Hill, Renate Kania, Mary Schaeffer, Susan St Pierre, Simon Twigger, Owen White, Seung Yon Rhee (full text)
  

• SYCAMORE - A SYstems biology Computational and
  Analysis MOdeling Research Environment | Bioinformatics 2008, 24(12):1463-1464
  Andreas Weidemann, Stefan Richter, Matthias Stein, Sven Sahle, Ralph Gauges, Razif Gabdoulline, Irina Surovtsova, Nils Semmelrock, Bruno Besson, Isabel Rojas, Rebecca Wade, Ursula Kummer (full text)
  

• Discovering biomedical knowledge from Literature | Functional Proteomics (Methods in Molecular Biology series), eds: JD Thompson, C Scheaffer, M Ueffing. (2008)
  Jasmin Saric, Henriette Engelken, Uwe Reyle
  
  

2007:

• SABIO-RK: Database for biochemical reactions and their kinetics | Journal of Inherited Metabolic Diseases (in press)
  Wittig U, Kania R, Golebiewski M, Krebs O, Mir S, Weidemann A, Engelken H, Rojas I

• SABIO-RK: A data warehouse for biochemical reactions and their kinetics | Journal of Integrative Bioinformatics, 4(1), p.365-373, (2007)
  Krebs O, Golebiewski M, Kania R, Mir S, Saric J, Weidemann A, Wittig U and Rojas I (Full Text)
  

• SABIO-RK: a database for biochemical reactions and their kinetics |
  Rojas I, Golebiewski M, Kania R, Krebs O, Mir S, Weidemann A, Wittig U
  BMC Systems Biology 2007, 1 (Suppl 1):S6, May (2007) (Full Text)

• Integration of SABIO-RK in workbenches for kinetic model design | BMC Systems Biology 2007, 1 (Suppl 1):P4, May (2007)
  Golebiewski M, Mir S, Kania R, Krebs O, Weidemann A, Wittig U, Rojas I (Full Text)

• Unsupervised Learning of Semantic Relations for Molecular Biology Ontologies | Bridging the Gap between Text and Knowledge - Selected Contributions to Ontology Learning and Population from Text, IOS Press (2007)
  Massimiliano Ciaramita, Aldo Gangemi, Esther Ratsch, Jasmin Saric, Isabel Rojas (Full Text)

• SABIO-RK (System for the Analysis of Biochemical Pathways Reaction Kinetics) | In Proceedings of the 2nd International Symposium on "Experimental Standard Conditions of Enzyme Characterizations". Ruedesheim am Rhein, Germany, (2007)
  Rojas-Muijca I., Golebiewski M., Kania R., Krebs, O., Mir, S., Weidemann, A. and Wittig, U. (Full Text)
  

• Storing and annotating of kinetic data | In Silico Biol.; 7 (Suppl 2): p.37-44, PMID: 17822389, (2007)
  Rojas I, Golebiewski M, Kania R, Krebs O, Mir S, Weidemann A, Wittig U (Full Text)
  
  

2006:

• A Curated Database for Reaction Kinetics | In Proceedings of the 1st International Symposium on Systems Biology (From genome to In Silico and back). Murcia, Spain, June 1-2 (2006)
  Kania, R., Wittig, U., Golebiewski, M., Krebs, O., Weidemann, A., Mir, S. and Rojas, I.

• Literature mining for the biologist: from information retrieval to biological discovery | Nat. Rev. Genet.; 7(2):119-29, Feb. (2006)
  L.J. Jensen, J. Saric and P. Bork

• Analysing and Classifying Names of Chemical Compounds with CHEMorph | In Proceedings of the Second International Symposium on Semantic Mining in Biomedicine (SMBM 2006), eds: Sophia Ananiadou and Juliane Fluck, pp. 37-43 JULIE Lab, Friedrich-Schiller-Universität Jena, Germany.
  Kremer, Gerhard; Anstein, Stefanie; Reyle, Uwe (Full Text)
  

• SABIO-RK: integration and curation of reaction kinetics data | Lecture Notes in Computer Science, 4075: 94-103, (2006)
  Wittig U, Golebiewski M, Kania R, Krebs O, Mir S, Weidemann A, Anstein S, Saric J, Rojas I
  
  

2003:

• Notes on the use of ontologies in the biochemical domain | In Silico Biol. 4, 0009 (2003)
  Isabel Rojas, Esther Ratsch, Jasmin Saric and Ulrike Wittig
• Web-based exchange of biochemical information | Bioinformatics. Sep 1;19(13):1730-1 (2003)
  Guler S, Eberhart A, Rojas I
• Developing a protein-interactions ontology | Comparative and Functional Genomics 4(1):85-89, Feb. (2003)
  Esther Ratch, Jörg Schultz, Jasmin Saric, Philipp Cimiano Lavin, Ulrike Wittig, Uwe Reyle and Isabel Rojas

2002:

• A database system for the analysis of biochemical pathways | In Silico Biol 2,0007 (2002)
  Rojas I, Bernardi L, Ratsch E, Kania R, Wittig U, Saric J
• Interdisciplinary Work: The Key to a Functional Genomics | IEEE Intelligent Systems (2002)
  Luca Bernardi, Esther Ratsch, Renate Kania, Jasmin Saric and Isabel Rojas
• Corpus Driven Information Extraction | Proccedings of the EFMI Workshop on Natural Languages Processing in Biomedical Applications, 87-91, (2002)
  Reyle, Uwe and Saric, Jasmin
• Integration and Visualisation of Experimental Data (Poster) | European Conference on Computational Biology, Saarbrücken, Germany, October 6-9 (2002)
  Hella Knäble, Esther Ratsch, Renate Kania, Ulrike Wittig, Isabel Rojas

2001:

• Ontology Driven Information Extraction | Proceedings of the nineteenth Twente Workshop on Language Technology, University of Twente, Enschede, Netherlands (2001)
  Reyle, Uwe and Saric, Jasmin
• Analysis and comparison of metabolic pathway databases | Briefings in Bioinformatics , 2, 126-142, (2001)
  Wittig, Ulrike and De Beuckelaer, Ann
• Meeting the Spirit of History | In Proceedings of the International Symposium on Virtual Reality, Archaeology and Cultural Heritage, VAST 2001, Glyfada, Nr Athens, Greece. 28-30 November (2001)
  Ursula Kretschmer, Volker Coors, Ulrike Spierling, Dieter Grasbon, Rainer Malaka, Isabel Rojas
• A graph layout algorithm for drawing metabolic pathways | Bioinformatics, 17, 461-467 (2001)
  Moritz Y. Becker, Isabel Rojas

2000:

• Integrating Biomolecular Databases - XML and ORB approaches | In Proceedings of the 1st Workshop on XML and Object Technology of the 14th European Conference on Object-Oriented Programming, Sophia Antipolis, France, June 12 (2000)
  Michael Baumhackl, Isabel Rojas and Thomas Mueck
• Modellierung und Visualisierung von biochemischen Stoffwechselwegen | Bioinformatik-Industrietag, Bielefeld, February 2 (2000)
  Isabel Rojas, Ulrike Wittig, Andreas Kohlbecker, Michael Baumhackl
• A database system for biochemical pathway analysis | German Conference on Bioinformatics - GCB 2000, Heidelberg, October 5-7 (2000)
  Andreas Kohlbecker, Ulrike Wittig, Ralph Gauges, Moritz Becker, Michael Baumhackl, Ann De Beuckelaer, Erich Bornberg-Bauer, Isabel Rojas

1999:

• A Comprehensible Database Model for the Computation of Biochemical Pathways | In Proceedings of the Workshop on Computation of Biochemical Pathways and Genetic Networks (Bornberg-Bauer, DeBeuckelaer, Kummer, Rost, eds.), Logos, Berlin, 97-103, (1999)
  Isabel Rojas, Erich Bornberg-Bauer