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Cross-Genome Search/Comparison
of IBM Bio-Dictionary-based Annotations
Using Keywords

Annotations for 76 genomes available as of: Thu Jan 31 09:47:42 EST 2002

12 Archaea  /  57 Bacteria  /  13 Eukaryotes

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Archaeal genomes

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Aeropyrum pernix K1
Halobacterium sp. NRC-1
Methanococcus jannaschii DSM 2661
Pyrococcus abyssi GE5
Sulfolobus sulfataricus P2
Thermoplasma acidophilum
Archaeoglobus fulgidus DSM 4304
Methanobact. thermoautotroph. Delta H
Pyrobacterium aerophilum
Pyrococcus horikoshii OT3
Sulfolobus tokodaii 7
Thermoplasma volcanium GSS1

Bacterial genomes

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Agrobacterium tumefaciens C58
Bacillus halodurans C-125
Borrelia burgdorferi B31
Buchnera sp. APS
Caulobacter crescentus
Chlamydia trachomatis Mo Pn Nigg
Chlamydophila pneumoniae AR39
Clostridium acetobutylicum ATCC 824D
Deinococcus radiodurans R1
Escherichia coli O157:H7 EDL933
Haemophilus influenzae KW20
Helicobacter pylori 26695
Listeria innocua Clip11262, rhamnose-negative
Mesorhizobium loti MAFF303099
Mycobacterium tuberculosis CDC 1551
Mycoplasma genitalium G-37
Mycoplasma pulmonis
Neisseria meningitidis Z2491 (sergrp A)
Pasteurella multocida Pm70
Ralstonia solanacearum GMI1000
Rickettsia conorii Malish 7
Salmonella enterica (serovar typhi)
Sinorhizobium meliloti 1021
Staphylococcus aureus N315
Streptococcus pneumoniae TIGR4
Synechocystis sp. PCC 6803
Treponema pallidum Nichols
Vibrio cholerae serotype O1, Biotype El Tor, strain N16961
Yersinia pestis CO92
Aquifex aeolicus VF5
Baccilus subtilis 168
Brucella melitensis
Campylobacter jejuni NCTC11168
Chlamydia pneumoniae J138
Chlamydia trachomatis serovar D
Chlamydophila pneumoniae CWL029
Clostridium perfringens
Escherichia coli K12-MG165
Escherichia coli O157:H7 Sakai
Helicobacter pylori J99
Lactococcus lactis IL1403
Listeria monocytogenes EGD-e
Mycobacterium leprae TN
Mycobacterium tuberculosis H37Rv
Mycoplasma pneumoniae M129
Neisseria meningitidis MC58 (sergrp B)
Nostoc sp. PCC 7120
Pseudomonas aeruginosa PAO1
Rhizobium sp. NGR234
Rickettsia prowazekii Madrit E
Salmonella typhimurium LT2 SGSC1412
Staphylococcus aureus Mu50
Streptococcus pneumoniae R6
Streptococcus pyogenes SF370 (M1)
Thermotoga maritima MSB8
Ureaplasma urealyticum serovar 3
Xylella fastidiosa CVC 8.1.b clone 9.a.5.c

Eukaryotic genomes

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Arabidopsis thaliana
Caenorhabditis elegans
Drosophila melanogaster
Fugu rubripes
Homo sapiens (non-singletons)
Homo sapiens (singletons)
Saccharomyces cerevisiae S288C
Mus musculus (non-singletons)
Mus musculus (singletons)
P. falciparum (PlasmoDB-GeneFinder)
P. falciparum (PlasmoDB-Glimmer)
P. falciparum (PlasmoDB-PHAT)
P. falciparum (TIGR)
P. falciparum (SANGER)

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References:
  • Rigoutsos, I., T. Huynh, A. Floratos, L. Parida and D. Platt, Dictionary-driven Protein Annotation. IBM TJ Watson Research Center Technical Report, RC 22262. November 2001.
  • Rigoutsos, I., A. Floratos, C. Ouzounis, Y. Gao and L. Parida, Dictionary Building Via Unsupervised Hierarchical Motif Discovery in the Sequence Space of Natural Proteins. Journal of Proteins: Structure, Function and Genetics, 37(2), November 1999.
  • Rigoutsos, I., Y. Gao, A. Floratos and L. Parida, Building Dictionaries Of 1D and 3D Motifs by Mining the Unaligned 1D Sequence of 17 Archaeal and Bacterial Genomes. Proceedings Seventh International Conference on Intelligent Systems for Molecular Biology (ISMB '99), pp. 223-233, Heidelberg, Germany. August 1999.
  • Floratos, A., I. Rigoutsos, L. Parida, G. Stolovitzky and Y. Gao, Sequence Homology Detection Through Large-Scale Pattern Discovery. Proceedings 3rd Annual ACM International Conference on Computational Molecular (RECOMB '99), Lyon, France. March 1999.



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    Last modification to this page: Thursday, March 19, 2002