Genomic analysis of early murine mammary gland development using novel probe-level algorithms

We describe a novel algorithm (ChipStat) for detecting gene-expression changes utilizing probe-level comparisons of replicate Affymetrix oligonucleotide microarray data. A combined detection approach is shown to yield greater sensitivity than a number of widely used methodologies including SAM, dChi...

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Detalles Bibliográficos
Autores principales: Master, Stephen R, Stoddard, Alexander J, Bailey, L Charles, Pan, Tien-Chi, Dugan, Katherine D, Chodosh, Lewis A
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2005
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC551540/
https://www.ncbi.nlm.nih.gov/pubmed/15693949
http://dx.doi.org/10.1186/gb-2005-6-2-r20
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author Master, Stephen R
Stoddard, Alexander J
Bailey, L Charles
Pan, Tien-Chi
Dugan, Katherine D
Chodosh, Lewis A
author_facet Master, Stephen R
Stoddard, Alexander J
Bailey, L Charles
Pan, Tien-Chi
Dugan, Katherine D
Chodosh, Lewis A
author_sort Master, Stephen R
collection PubMed
description We describe a novel algorithm (ChipStat) for detecting gene-expression changes utilizing probe-level comparisons of replicate Affymetrix oligonucleotide microarray data. A combined detection approach is shown to yield greater sensitivity than a number of widely used methodologies including SAM, dChip and logit-T. Using this approach, we identify alterations in functional pathways during murine neonatal-pubertal mammary development that include the coordinate upregulation of major urinary proteins and the downregulation of loci exhibiting reciprocal imprinting.
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spelling pubmed-5515402005-03-03 Genomic analysis of early murine mammary gland development using novel probe-level algorithms Master, Stephen R Stoddard, Alexander J Bailey, L Charles Pan, Tien-Chi Dugan, Katherine D Chodosh, Lewis A Genome Biol Method We describe a novel algorithm (ChipStat) for detecting gene-expression changes utilizing probe-level comparisons of replicate Affymetrix oligonucleotide microarray data. A combined detection approach is shown to yield greater sensitivity than a number of widely used methodologies including SAM, dChip and logit-T. Using this approach, we identify alterations in functional pathways during murine neonatal-pubertal mammary development that include the coordinate upregulation of major urinary proteins and the downregulation of loci exhibiting reciprocal imprinting. BioMed Central 2005 2005-02-01 /pmc/articles/PMC551540/ /pubmed/15693949 http://dx.doi.org/10.1186/gb-2005-6-2-r20 Text en Copyright © 2005 Master et al.; licensee BioMed Central Ltd.
spellingShingle Method
Master, Stephen R
Stoddard, Alexander J
Bailey, L Charles
Pan, Tien-Chi
Dugan, Katherine D
Chodosh, Lewis A
Genomic analysis of early murine mammary gland development using novel probe-level algorithms
title Genomic analysis of early murine mammary gland development using novel probe-level algorithms
title_full Genomic analysis of early murine mammary gland development using novel probe-level algorithms
title_fullStr Genomic analysis of early murine mammary gland development using novel probe-level algorithms
title_full_unstemmed Genomic analysis of early murine mammary gland development using novel probe-level algorithms
title_short Genomic analysis of early murine mammary gland development using novel probe-level algorithms
title_sort genomic analysis of early murine mammary gland development using novel probe-level algorithms
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC551540/
https://www.ncbi.nlm.nih.gov/pubmed/15693949
http://dx.doi.org/10.1186/gb-2005-6-2-r20
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