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Genomic functional annotation using co-evolution profiles of gene clusters
Yu Zheng, Richard J Roberts, Simon Kasif
Genome Biol. 2002; 3(11): research0060.1–research0060.9. Published online 2002 October 10.
PMCID:
PMC133444
Abstract Full Text PDF–369K
 Is Cited by the Following 13 Articles in this Archive:
YibK is the 2′-O-methyltransferase TrmL that modifies the wobble nucleotide in Escherichia coli tRNALeu isoacceptors
Alfonso Benítez-Páez, Magda Villarroya, Stephen Douthwaite, Toni Gabaldón, M.-Eugenia Armengod
RNA. 2010 November; 16(11): 2131–2143. doi: 10.1261/rna.2245910
PMCID:
PMC2957053
Abstract Full Text PDF–766K
Rapid pair-wise synteny analysis of large bacterial genomes using web-based GeneOrder4.0
Padmanabhan Mahadevan, Donald Seto
BMC Res Notes. 2010; 3: 41. Published online 2010 February 23. doi: 10.1186/1756-0500-3-41
PMCID:
PMC2844394
Abstract Full Text PDF–958K
The topology of the bacterial co-conserved protein network and its implications for predicting protein function
Anis Karimpour-Fard, Sonia M Leach, Lawrence E Hunter, Ryan T Gill
BMC Genomics. 2008; 9: 313. Published online 2008 June 30. doi: 10.1186/1471-2164-9-313
PMCID:
PMC2488357
Abstract Full Text PDF–687K Supplementary Material
Functional annotations in bacterial genomes based on small RNA signatures
Jayavel Sridhar, Ziauddin Ahamed Rafi
Bioinformation. 2008; 2(7): 284–295. Published online 2008 April 4.
PMCID:
PMC2374372
Abstract Full Text PDF–332K Supplementary Material
Why Should We Care About Molecular Coevolution?
Francisco M. Codoñer, Mario A. Fares
Evol Bioinform Online. 2008; 4: 29–38. Published online 2008 February 14.
PMCID:
PMC2614197
Abstract Full Text PDF–853K
Investigation of factors affecting prediction of protein-protein interaction networks by phylogenetic profiling
Anis Karimpour-Fard, Lawrence Hunter, Ryan T Gill
BMC Genomics. 2007; 8: 393. Published online 2007 October 29. doi: 10.1186/1471-2164-8-393
PMCID:
PMC2204017
Abstract Full Text PDF–797K Supplementary Material
Cross-species cluster co-conservation: a new method for generating protein interaction networks
Anis Karimpour-Fard, Corrella S Detweiler, Kimberly D Erickson, Lawrence Hunter, Ryan T Gill
Genome Biol. 2007; 8(9): R185. Published online 2007 September 5. doi: 10.1186/gb-2007-8-9-r185
PMCID:
PMC2375023
Abstract Full Text PDF–1.9M Supplementary Material
Discovering functional linkages and uncharacterized cellular pathways using phylogenetic profile comparisons: a comprehensive assessment
Raja Jothi, Teresa M Przytycka, L Aravind
BMC Bioinformatics. 2007; 8: 173. Published online 2007 May 23. doi: 10.1186/1471-2105-8-173
PMCID:
PMC1904249
Abstract Full Text PDF–2.9M Supplementary Material
A Regression-based K nearest neighbor algorithm for gene function prediction from heterogeneous data
Zizhen Yao, Walter L Ruzzo
BMC Bioinformatics. 2006; 7(Suppl 1): S11. Published online 2006 March 20. doi: 10.1186/1471-2105-7-S1-S11
PMCID:
PMC1810312
Abstract Full Text PDF–343K Supplementary Material
Call for an enzyme genomics initiative
Peter D Karp
Genome Biol. 2004; 5(8): 401. Published online 2004 July 30. doi: 10.1186/gb-2004-5-8-401
PMCID:
PMC507876
Abstract Full Text PDF–65K Supplementary Material
Detection of evolutionarily stable fragments of cellular pathways by hierarchical clustering of phyletic patterns
Galina V Glazko, Arcady R Mushegian
Genome Biol. 2004; 5(5): R32. Published online 2004 April 27.
PMCID:
PMC416468
Abstract Full Text PDF–609K Supplementary Material
Inference of protein function and protein linkages in Mycobacterium tuberculosis based on prokaryotic genome organization: a combined computational approach
Michael Strong, Parag Mallick, Matteo Pellegrini, Michael J Thompson, David Eisenberg
Genome Biol. 2003; 4(9): R59. Published online 2003 August 29.
PMCID:
PMC193659
Abstract Full Text PDF–302K
Phydbac (phylogenomic display of bacterial genes): an interactive resource for the annotation of bacterial genomes
François Enault, Karsten Suhre, Olivier Poirot, Chantal Abergel, Jean-Michel Claverie
Nucleic Acids Res. 2003 July 1; 31(13): 3720–3722.
PMCID:
PMC169009
Abstract Full Text PDF–447K
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