An information theoretic method of microarray probe design for genome classification

Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology"

Volumn , Issue , 2008, Pages 3779-3782

  Garbarine, Elaine ^a   Rosen, Gail ^a  

^a Drexel University   (United States)

Author keywords

DNA; Information theory; Microorganisms

Indexed keywords

BIOLOGY; CLASSIFICATION (OF INFORMATION); DIAGNOSIS; DNA; INFORMATION THEORY; MICROARRAYS; MICROORGANISMS; PATHOGENS; PROBES;

CROSS HYBRIDIZATION; DISEASE DIAGNOSIS; DRUG DISCOVERY; GENE IDENTIFICATION; GENE SEQUENCES; INFORMATION THEORETIC MEASURE; INFORMATION-THEORETIC METHODS; PATHOGEN SPECIES;

GENES;

COMPLEMENTARY DNA; DNA; OLIGONUCLEOTIDE;

ALGORITHM; ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; BIOLOGY; CHEMISTRY; DNA MICROARRAY; EQUIPMENT; EXPRESSED SEQUENCE TAG; GENETIC VARIABILITY; GENETICS; GENOME; GENOMICS; METHODOLOGY; NUCLEIC ACID HYBRIDIZATION; STATISTICAL MODEL; STATISTICS; THEORETICAL MODEL;

ALGORITHMS; COMPUTATIONAL BIOLOGY; DNA; DNA, COMPLEMENTARY; EXPRESSED SEQUENCE TAGS; GENES, BACTERIAL; GENETIC VARIATION; GENOME; GENOME, BACTERIAL; GENOMICS; MODELS, STATISTICAL; MODELS, THEORETICAL; NUCLEIC ACID HYBRIDIZATION; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; OLIGONUCLEOTIDES;

EID: 61849094846     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/iembs.2008.4650031     Document Type: Conference Paper

References (10)

1. http://www.genomesonline.org/, "Gold (genomes online database),".
2. Gardner et al., "Limitations of taqman per for detecting divergent viral pathogens illustrated by hepatitis a, b, c, and e viruses and human immunodeficiency virus," Journal of Clinical Microbiology, 2003.
3. Y. Y. et al. Belosludtsev, "Organism identification using a genome sequence-independent universal microarray probe set," Bio Techniques, 2004.
4. W-K Sung, "Fast and accurate probe selection algorithm for large genomes," in IEEE Proceedings of the Computational Systems Bioinformatics, 2003.
5. W. J. et al. Wilson, "Sequence-specific identification of 18 pathogenic microorganisms using microarray technology," Molecular and Cellular Probes, vol. 16, pp. 119-127, 2002.
6. P. et al. Hanus, "Information theoretic distance measuers in phylogenomics," in International Workshop on Information Theory and Applications (ITA), 2007.
7. J. Zhang, "Protein-length distributions for the three domains of life," Trends in Genetics, vol. 16, pp. 107-109, 2000.
8. Michael D. Kane, Timothy A. Jatkoe, Craig R. Stumpf, Jia Lu, Jeffrey D. Thomas, and Steven J. Madore, "Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays," Nucl. Acids Res., vol. 28, no. 22, pp. 4552-4557, 2000.
9. T.R. Hughes and et al., "Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer.," Nat Biotechnol, vol. 19, no. 4, pp. 342-7, 2001.
10. http://www.sanger.ac.uk/Projects/Microbes/, "Sanger institute sequencing project,".