An introduction to artificial neural networks in bioinformatics--application to complex microarray and mass spectrometry datasets in cancer studies.

2.50
Hdl Handle:
http://hdl.handle.net/10541/69776
Title:
An introduction to artificial neural networks in bioinformatics--application to complex microarray and mass spectrometry datasets in cancer studies.
Authors:
Lancashire, Lee J; Lemetre, Christophe; Ball, Graham R
Abstract:
Applications of genomic and proteomic technologies have seen a major increase, resulting in an explosion in the amount of highly dimensional and complex data being generated. Subsequently this has increased the effort by the bioinformatics community to develop novel computational approaches that allow for meaningful information to be extracted. This information must be of biological relevance and thus correlate to disease phenotypes of interest. Artificial neural networks are a form of machine learning from the field of artificial intelligence with proven pattern recognition capabilities and have been utilized in many areas of bioinformatics. This is due to their ability to cope with highly dimensional complex datasets such as those developed by protein mass spectrometry and DNA microarray experiments. As such, neural networks have been applied to problems such as disease classification and identification of biomarkers. This review introduces and describes the concepts related to neural networks, the advantages and caveats to their use, examples of their applications in mass spectrometry and microarray research (with a particular focus on cancer studies), and illustrations from recent literature showing where neural networks have performed well in comparison to other machine learning methods. This should form the necessary background knowledge and information enabling researchers with an interest in these methodologies, but not necessarily from a machine learning background, to apply the concepts to their own datasets, thus maximizing the information gain from these complex biological systems.
Affiliation:
Clinical and Experimental Pharmacology, Paterson Institute for Cancer Research, University of Manchester, Manchester M20 4BX, UK. llancashire@picr.man.ac.uk
Citation:
An introduction to artificial neural networks in bioinformatics--application to complex microarray and mass spectrometry datasets in cancer studies. 2009, 10 (3):315-29 Brief. Bioinformatics
Journal:
Briefings in Bioinformatics
Issue Date:
May-2009
URI:
http://hdl.handle.net/10541/69776
DOI:
10.1093/bib/bbp012
PubMed ID:
19307287
Type:
Article
Language:
en
ISSN:
1477-4054
Appears in Collections:
All Paterson Institute for Cancer Research; Clinical and Experimental Pharmacology Group

Full metadata record

DC FieldValue Language
dc.contributor.authorLancashire, Lee J-
dc.contributor.authorLemetre, Christophe-
dc.contributor.authorBall, Graham R-
dc.date.accessioned2009-06-05T10:01:59Z-
dc.date.available2009-06-05T10:01:59Z-
dc.date.issued2009-05-
dc.identifier.citationAn introduction to artificial neural networks in bioinformatics--application to complex microarray and mass spectrometry datasets in cancer studies. 2009, 10 (3):315-29 Brief. Bioinformaticsen
dc.identifier.issn1477-4054-
dc.identifier.pmid19307287-
dc.identifier.doi10.1093/bib/bbp012-
dc.identifier.urihttp://hdl.handle.net/10541/69776-
dc.description.abstractApplications of genomic and proteomic technologies have seen a major increase, resulting in an explosion in the amount of highly dimensional and complex data being generated. Subsequently this has increased the effort by the bioinformatics community to develop novel computational approaches that allow for meaningful information to be extracted. This information must be of biological relevance and thus correlate to disease phenotypes of interest. Artificial neural networks are a form of machine learning from the field of artificial intelligence with proven pattern recognition capabilities and have been utilized in many areas of bioinformatics. This is due to their ability to cope with highly dimensional complex datasets such as those developed by protein mass spectrometry and DNA microarray experiments. As such, neural networks have been applied to problems such as disease classification and identification of biomarkers. This review introduces and describes the concepts related to neural networks, the advantages and caveats to their use, examples of their applications in mass spectrometry and microarray research (with a particular focus on cancer studies), and illustrations from recent literature showing where neural networks have performed well in comparison to other machine learning methods. This should form the necessary background knowledge and information enabling researchers with an interest in these methodologies, but not necessarily from a machine learning background, to apply the concepts to their own datasets, thus maximizing the information gain from these complex biological systems.en
dc.language.isoenen
dc.subjectArtificial Neural Networksen
dc.subjectBioinformaticsen
dc.subjectGenomicsen
dc.subjectMass Spectrometryen
dc.subjectMicroarrayen
dc.titleAn introduction to artificial neural networks in bioinformatics--application to complex microarray and mass spectrometry datasets in cancer studies.en
dc.typeArticleen
dc.contributor.departmentClinical and Experimental Pharmacology, Paterson Institute for Cancer Research, University of Manchester, Manchester M20 4BX, UK. llancashire@picr.man.ac.uken
dc.identifier.journalBriefings in Bioinformaticsen

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