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Volume 4(1);  February 2003
Research Articles
On the MIAME Standards and Central Repositories of Microarray Data
Steve Oliver
Comp Funct Genomics. 2003 February; 4(1): 1. doi: 10.1002/cfg.238.
PMCID: PMC2447402
In This Issue
Comp Funct Genomics. 2003 February; 4(1): 2–3. doi: 10.1002/cfg.257.
PMCID: PMC2447386
A Relational Database for the Discovery of Genes Encoding Amino Acid Biosynthetic Enzymes in Pathogenic Fungi
Peter F. Giles, Darren M. Soanes, and Nicholas J. Talbot
Comp Funct Genomics. 2003 February; 4(1): 4–15. doi: 10.1002/cfg.236.
PMCID: PMC2447380
The HUPO Proteomics Standards Initiative Meeting: Towards Common Standards for Exchanging Proteomics Data
Sandra Orchard, Paul Kersey, Henning Hermjakob, and Rolf Apweiler
Comp Funct Genomics. 2003 February; 4(1): 16–19. doi: 10.1002/cfg.232.
PMCID: PMC2447389
The European Conference on Computational Biology 2002
Clare Sansom
Comp Funct Genomics. 2003 February; 4(1): 20–24. doi: 10.1002/cfg.256.
PMCID: PMC2447376
Genomics and Ethics: The Case of Cloned and/or Transgenic Animals
Béatrice de Montera
Comp Funct Genomics. 2003 February; 4(1): 26–30. doi: 10.1002/cfg.243.
PMCID: PMC2447398
Why Chloroplasts and Mitochondria Contain Genomes
John F. Allen
Comp Funct Genomics. 2003 February; 4(1): 31–36. doi: 10.1002/cfg.245.
PMCID: PMC2447392
The S. Cerevisiae HAP Complex, a Key Regulator of Mitochondrial Function, Coordinates Nuclear and Mitochondrial Gene Expression
S. Buschlen, J-M Amillet, B. Guiard, A. Fournier, C. Marcireau, and M. Bolotin-Fukuhara
Comp Funct Genomics. 2003 February; 4(1): 37–46. doi: 10.1002/cfg.254.
PMCID: PMC2447382
Early Gene Expression in Wounded Human Keratinocytes Revealed by DNA Microarray Analysis
Manal A. Dayem, Chimène Moreilhon, Laurent Turchi, Virginie Magnone, Richard Christen, Gilles Ponzio, and Pascal Barbry
Comp Funct Genomics. 2003 February; 4(1): 47–55. doi: 10.1002/cfg.239.
PMCID: PMC2447387
Pressures in Archaeal Protein Coding Genes: A Comparative Study
Sujay Chattopadhyay, Satyabrata Sahoo, William A. Kanner, and Jayprokas Chakrabarti
Comp Funct Genomics. 2003 February; 4(1): 56–65. doi: 10.1002/cfg.246.
PMCID: PMC2447400
The ESF Programme on ‘Integrated Approaches to Functional Genomics’. Workshop on ‘Ontology for Biology’
Luca Bernardi, Isabel Rojas, and Paul van der Vet
Comp Funct Genomics. 2003 February; 4(1): 68–70. doi: 10.1002/cfg.252.
PMCID: PMC2447391
The Gene Ontology Annotation (GOA) Project—Application of GO in SWISS-PROT, TrEMBL and InterPro
Evelyn Camon, Daniel Barrell, Catherine Brooksbank, Michele Magrane, and Rolf Apweiler
Comp Funct Genomics. 2003 February; 4(1): 71–74. doi: 10.1002/cfg.235.
PMCID: PMC2447390
Automatic Classification of Protein Functions From the Literature
Christian Blaschke and Alfonso Valencia
Comp Funct Genomics. 2003 February; 4(1): 75–79. doi: 10.1002/cfg.241.
PMCID: PMC2447397
An Upper-Level Ontology for the Biomedical Domain
Alexa T. McCray
Comp Funct Genomics. 2003 February; 4(1): 80–84. doi: 10.1002/cfg.255.
PMCID: PMC2447396
Developing a Protein-Interactions Ontology
Esther Ratsch, Jörg Schultz, Jasmin Saric, Philipp Cimiano Lavin, Ulrike Wittig, Uwe Reyle, and Isabel Rojas
Comp Funct Genomics. 2003 February; 4(1): 85–89. doi: 10.1002/cfg.244.
PMCID: PMC2447378
Bringing Ontology to the Gene Ontology
Jennifer Williams and William Andersen
Comp Funct Genomics. 2003 February; 4(1): 90–93. doi: 10.1002/cfg.253.
PMCID: PMC2447385
Turning Informal Thesauri Into Formal Ontologies: A Feasibility Study on Biomedical Knowledge re-Use
Udo Hahn
Comp Funct Genomics. 2003 February; 4(1): 94–97. doi: 10.1002/cfg.247.
PMCID: PMC2447399
The Semantic Web—New Ways to Present and Integrate Information
Steffen Staab
Comp Funct Genomics. 2003 February; 4(1): 98–103. doi: 10.1002/cfg.240.
PMCID: PMC2447388
Some Tools and Methodologies for Domain Ontology Building
Aldo Gangemi
Comp Funct Genomics. 2003 February; 4(1): 104–110. doi: 10.1002/cfg.242.
PMCID: PMC2447375
How a Philosophical Theory of Causation May Help in Ontological Engineering
Daniel von Wachter
Comp Funct Genomics. 2003 February; 4(1): 111–114. doi: 10.1002/cfg.258.
PMCID: PMC2447394
Standards and Ontologies for Functional Genomics: Towards Unified Ontologies for Biology and Biomedicine
Midori A. Harris and Helen Parkinson
Comp Funct Genomics. 2003 February; 4(1): 116–120. doi: 10.1002/cfg.249.
PMCID: PMC2447377
Building a Cell and Anatomy Ontology of Caenorhabditis Elegans
Raymond Y. N. Lee and Paul W. Sternberg
Comp Funct Genomics. 2003 February; 4(1): 121–126. doi: 10.1002/cfg.248.
PMCID: PMC2447384
The MGED Ontology: A Framework for Describing Functional Genomics Experiments
Christian J. Stoeckert, Jr. and Helen Parkinson
Comp Funct Genomics. 2003 February; 4(1): 127–132. doi: 10.1002/cfg.234.
PMCID: PMC2447379
Building Ontologies in DAML + OIL
Robert Stevens, Chris Wroe, Sean Bechhofer, Phillip Lord, Alan Rector, and Carole Goble
Comp Funct Genomics. 2003 February; 4(1): 133–141. doi: 10.1002/cfg.233.
PMCID: PMC2447401
ESF Programme on ‘Integrated Approaches for Functional Genomics’ Workshop on ‘Modelling of Molecular Networks’
Paulino Gomez-Puertas and Alfonso Valencia
Comp Funct Genomics. 2003 February; 4(1): 144–147. doi: 10.1002/cfg.224.
PMCID: PMC2447393
An Approach to Inferring Transcriptional Regulation Among Genes From Large-Scale Expression Data
Javier Herrero, Ramón Díaz-Uriarte, and Joaquín Dopazo
Comp Funct Genomics. 2003 February; 4(1): 148–154. doi: 10.1002/cfg.237.
PMCID: PMC2447383
Attractive Models: How to Make the Silicon Cell Relevant and Dynamic
Hans V. Westerhoff, Frank Bruggeman, Jan-Hendrik S. Hofmeyr, and Jacky L. Snoep
Comp Funct Genomics. 2003 February; 4(1): 155–158. doi: 10.1002/cfg.205.
PMCID: PMC2447395
Current Awareness on Comparative and Functional Genomics
Comp Funct Genomics. 2003 February; 4(1): 161–168. doi: 10.1002/cfg.226.
PMCID: PMC2447381
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