Classification of unknown primary tumors with a data-driven method based on a large microarray reference database

K. A. Ojala; S. K. Kilpinen; Olli Kallioniemi

doi:10.1186/gm279

Classification of unknown primary tumors with a data-driven method based on a large microarray reference database

K. A. Ojala, S. K. Kilpinen, Olli Kallioniemi

Institute for Molecular Medicine Finland

Research output: Contribution to journal › Article › Scientific › peer-review

Abstract

We present a new method to analyze cancer of unknown primary origin (CUP) samples. Our method achieves good results with classification accuracy (88% leave-one-out cross validation for primary tumors from 56 categories, 78% for CUP samples), and can also be used to study CUP samples on a gene-by-gene basis. It is not tied to any a priori defined gene set as many previous methods, and is adaptable to emerging new information.

Translated title of the contribution	Classification of unknown primary tumors with a data-driven method based on a large microarray reference database
Original language	English
Journal	Genome medicine
Volume	3
Issue number	9
Pages (from-to)	63
Number of pages	12
ISSN	1756-994X
DOIs	https://doi.org/10.1186/gm279
Publication status	Published - 2011
MoE publication type	A1 Journal article-refereed

Fields of Science

3111 Biomedicine

Access to Document

10.1186/gm279

Cite this

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title = "Classification of unknown primary tumors with a data-driven method based on a large microarray reference database",

abstract = "We present a new method to analyze cancer of unknown primary origin (CUP) samples. Our method achieves good results with classification accuracy (88\% leave-one-out cross validation for primary tumors from 56 categories, 78\% for CUP samples), and can also be used to study CUP samples on a gene-by-gene basis. It is not tied to any a priori defined gene set as many previous methods, and is adaptable to emerging new information.",

keywords = "3111 Biomedicine",

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note = "Classification of unknown primary tumors with a data-driven method based on a large microarray reference database Ojala, Kalle A Kilpinen, Sami K Kallioniemi, Olli P England Genome medicine Genome Med. 2011 Oct 17;3(9):63. eng ",

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AU - Kilpinen, S. K.

AU - Kallioniemi, Olli

N1 - Classification of unknown primary tumors with a data-driven method based on a large microarray reference database Ojala, Kalle A Kilpinen, Sami K Kallioniemi, Olli P England Genome medicine Genome Med. 2011 Oct 17;3(9):63. eng

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N2 - We present a new method to analyze cancer of unknown primary origin (CUP) samples. Our method achieves good results with classification accuracy (88% leave-one-out cross validation for primary tumors from 56 categories, 78% for CUP samples), and can also be used to study CUP samples on a gene-by-gene basis. It is not tied to any a priori defined gene set as many previous methods, and is adaptable to emerging new information.

AB - We present a new method to analyze cancer of unknown primary origin (CUP) samples. Our method achieves good results with classification accuracy (88% leave-one-out cross validation for primary tumors from 56 categories, 78% for CUP samples), and can also be used to study CUP samples on a gene-by-gene basis. It is not tied to any a priori defined gene set as many previous methods, and is adaptable to emerging new information.

KW - 3111 Biomedicine

U2 - 10.1186/gm279

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