Abstract |
There is a need for statistical methods to identify genes that have minimal variation in expression across a variety of experimental conditions. These 'housekeeper' genes are widely employed as controls for quantification of test genes using gel analysis and real-time RT-PCR. Using real-time quantitative RT-PCR, we analyzed 80 primary breast tumors for variation in expression of six putative housekeeper genes (MRPL19 (mitochondrial ribosomal protein L19), PSMC4 ( proteasome ( prosome, macropain) 26S subunit, ATPase, 4), SF3A1 ( splicing factor 3a, subunit 1, 120 kDa), PUM1 (pumilio homolog 1 (Drosophila)), ACTB (actin, beta) and GAPD ( glyceraldehyde-3-phosphate dehydrogenase)). We present appropriate models for selecting the best housekeepers to normalize quantitative data within a given tissue type (for example, breast cancer) and across different types of tissue samples.
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Authors | Aniko Szabo, Charles M Perou, Mehmet Karaca, Laurent Perreard, Robert Palais, John F Quackenbush, Philip S Bernard |
Journal | Genome biology
(Genome Biol)
Vol. 5
Issue 8
Pg. R59
( 2004)
ISSN: 1474-760X [Electronic] England |
PMID | 15287981
(Publication Type: Journal Article, Research Support, U.S. Gov't, P.H.S.)
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Chemical References |
- DNA, Complementary
- DNA-Binding Proteins
- MRPL19 protein, human
- Mitochondrial Proteins
- PUM1 protein, human
- RNA Splicing Factors
- RNA, Messenger
- RNA-Binding Proteins
- Ribonucleoprotein, U2 Small Nuclear
- Ribosomal Proteins
- SF3A1 protein, human
- Transcription Factors
- PSMC4 protein, human
- Proteasome Endopeptidase Complex
- Adenosine Triphosphatases
- ATPases Associated with Diverse Cellular Activities
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Topics |
- ATPases Associated with Diverse Cellular Activities
- Adenosine Triphosphatases
(genetics)
- Algorithms
- Breast
(metabolism)
- Breast Neoplasms
(genetics, pathology)
- Cell Line, Tumor
- DNA, Complementary
(genetics)
- DNA-Binding Proteins
(genetics)
- Gene Dosage
- Gene Expression
- Gene Expression Profiling
(methods, standards)
- Genes, Essential
(genetics)
- Humans
- Mitochondrial Proteins
- Models, Genetic
- Oligonucleotide Array Sequence Analysis
(methods, standards)
- Proteasome Endopeptidase Complex
- RNA Splicing Factors
- RNA, Messenger
(genetics, metabolism)
- RNA-Binding Proteins
(genetics)
- Reference Standards
- Reverse Transcriptase Polymerase Chain Reaction
- Ribonucleoprotein, U2 Small Nuclear
(genetics)
- Ribosomal Proteins
(genetics)
- Transcription Factors
(genetics)
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