Extracting and explaining biological knowledge in microarray data

Paul J. Kennedy; Simeon J. Simoff; David Skillicorn; Daniel Catchpoole

doi:10.1007/978-3-540-24775-3_82

Extracting and explaining biological knowledge in microarray data

Paul J. Kennedy, Simeon J. Simoff, David Skillicorn, Daniel Catchpoole

Research output: Chapter in Book / Conference Paper › Conference Paper › peer-review

8 Citations (Scopus)

Abstract

This paper describes a method of clustering lists of genes mined from a microarray dataset using functional information from the Gene Ontology. The method uses relationships between terms in the ontology both to build clusters and to extract meaningful cluster descriptions. The approach is general and may be applied to assist explanation of other datasets associated with ontologies.

Original language	English
Title of host publication	Advances in Knowledge Discovery and Data Mining - 8th Pacific-Asia Conference, PAKDD 2004, Proceedings
Editors	Honghua Dai, Ramakrishnan Srikant, Chengqi Zhang
Publisher	Springer Verlag
Pages	699-703
Number of pages	5
ISBN (Print)	354022064X, 9783540220640
DOIs	https://doi.org/10.1007/978-3-540-24775-3_82
Publication status	Published - 2004
Externally published	Yes
Event	8th Pacific-Asia Conference on Knowledge Discovery and Data Mining, PAKDD 2004 - Sydney, Australia Duration: 26 May 2004 → 28 May 2004

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	3056
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Conference

Conference	8th Pacific-Asia Conference on Knowledge Discovery and Data Mining, PAKDD 2004
Country/Territory	Australia
City	Sydney
Period	26/05/04 → 28/05/04

Bibliographical note

Publisher Copyright:
© Springer-Verlag Berlin Heidelberg 2004.

Keywords

Bioinformatics
Cluster analysis
cDNA microarray

Access to Document

10.1007/978-3-540-24775-3_82

Cite this

Kennedy, P. J., Simoff, S. J., Skillicorn, D., & Catchpoole, D. (2004). Extracting and explaining biological knowledge in microarray data. In H. Dai, R. Srikant, & C. Zhang (Eds.), Advances in Knowledge Discovery and Data Mining - 8th Pacific-Asia Conference, PAKDD 2004, Proceedings (pp. 699-703). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3056). Springer Verlag. https://doi.org/10.1007/978-3-540-24775-3_82

Kennedy, Paul J. ; Simoff, Simeon J. ; Skillicorn, David et al. / Extracting and explaining biological knowledge in microarray data. Advances in Knowledge Discovery and Data Mining - 8th Pacific-Asia Conference, PAKDD 2004, Proceedings. editor / Honghua Dai ; Ramakrishnan Srikant ; Chengqi Zhang. Springer Verlag, 2004. pp. 699-703 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).

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title = "Extracting and explaining biological knowledge in microarray data",

abstract = "This paper describes a method of clustering lists of genes mined from a microarray dataset using functional information from the Gene Ontology. The method uses relationships between terms in the ontology both to build clusters and to extract meaningful cluster descriptions. The approach is general and may be applied to assist explanation of other datasets associated with ontologies.",

keywords = "Bioinformatics, Cluster analysis, cDNA microarray",

author = "Kennedy, {Paul J.} and Simoff, {Simeon J.} and David Skillicorn and Daniel Catchpoole",

note = "Publisher Copyright: {\textcopyright} Springer-Verlag Berlin Heidelberg 2004.; 8th Pacific-Asia Conference on Knowledge Discovery and Data Mining, PAKDD 2004 ; Conference date: 26-05-2004 Through 28-05-2004",

year = "2004",

doi = "10.1007/978-3-540-24775-3_82",

language = "English",

isbn = "354022064X",

series = "Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)",

publisher = "Springer Verlag",

pages = "699--703",

editor = "Honghua Dai and Ramakrishnan Srikant and Chengqi Zhang",

booktitle = "Advances in Knowledge Discovery and Data Mining - 8th Pacific-Asia Conference, PAKDD 2004, Proceedings",

}

Kennedy, PJ, Simoff, SJ, Skillicorn, D & Catchpoole, D 2004, Extracting and explaining biological knowledge in microarray data. in H Dai, R Srikant & C Zhang (eds), Advances in Knowledge Discovery and Data Mining - 8th Pacific-Asia Conference, PAKDD 2004, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 3056, Springer Verlag, pp. 699-703, 8th Pacific-Asia Conference on Knowledge Discovery and Data Mining, PAKDD 2004, Sydney, Australia, 26/05/04. https://doi.org/10.1007/978-3-540-24775-3_82

Extracting and explaining biological knowledge in microarray data. / Kennedy, Paul J.; Simoff, Simeon J.; Skillicorn, David et al.
Advances in Knowledge Discovery and Data Mining - 8th Pacific-Asia Conference, PAKDD 2004, Proceedings. ed. / Honghua Dai; Ramakrishnan Srikant; Chengqi Zhang. Springer Verlag, 2004. p. 699-703 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3056).

Research output: Chapter in Book / Conference Paper › Conference Paper › peer-review

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AU - Catchpoole, Daniel

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PY - 2004

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AB - This paper describes a method of clustering lists of genes mined from a microarray dataset using functional information from the Gene Ontology. The method uses relationships between terms in the ontology both to build clusters and to extract meaningful cluster descriptions. The approach is general and may be applied to assist explanation of other datasets associated with ontologies.

KW - Bioinformatics

KW - Cluster analysis

KW - cDNA microarray

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DO - 10.1007/978-3-540-24775-3_82

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SN - 354022064X

SN - 9783540220640

T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

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PB - Springer Verlag

T2 - 8th Pacific-Asia Conference on Knowledge Discovery and Data Mining, PAKDD 2004

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Kennedy PJ, Simoff SJ, Skillicorn D, Catchpoole D. Extracting and explaining biological knowledge in microarray data. In Dai H, Srikant R, Zhang C, editors, Advances in Knowledge Discovery and Data Mining - 8th Pacific-Asia Conference, PAKDD 2004, Proceedings. Springer Verlag. 2004. p. 699-703. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). doi: 10.1007/978-3-540-24775-3_82

Extracting and explaining biological knowledge in microarray data

Abstract

Publication series

Conference

Bibliographical note

Keywords

Access to Document

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Cite this