Detecting genetic variation in microarray expression data (2007)
Greenhall, Jennifer A., Zapala, Matthew A., Cáceres, Mario, Libiger, Ondrej, Barlow, Carrolee, Schork, Nicholas J., ...
The use of high-density oligonucleotide arrays to measure the expression levels of thousands of genes in parallel has become commonplace. To take further advantage of the growing body of data, we...
Hovatta, Iiris, Zapala, Matthew A, Broide, Ron S, Schadt, Eric E, Libiger, Ondrej, Schork, Nicholas J, ...
Abstract Background Expression quantitative trait locus (eQTL) mapping is used to find loci that are responsible for the transcriptional activity of a particular gene. In recent eQTL studies,...
Software and methods for oligonucleotide and cDNA array data analysis (2002)
Zapala, Matthew A, Lockhart, Daniel J, Pankratz, Daniel G, Garcia, Anthony J, Barlow, Carrolee, Lockhart, David J
Abstract Two HTML-based programs were developed to analyze and filter gene-expression data: 'Bullfrog' for Affymetrix oligonucleotide arrays and 'Spot' for custom cDNA arrays. The programs provide...
Software and methods for oligonucleotide and cDNA array data analysis
Zapala, Matthew A, Lockhart, Daniel J, Pankratz, Daniel G, Garcia, Anthony J, Barlow, Carrolee, Lockhart, David J
Two HTML-based programs were developed to analyze and filter gene-expression data. A background subtraction and normalization program for cDNA arrays was also built that provides an informative...
Elevated gene expression levels distinguish human from non-human primate brains
Cáceres, Mario, Lachuer, Joel, Zapala, Matthew A., Redmond, John C., Kudo, Lili, Geschwind, Daniel H., ...
Little is known about how the human brain differs from that of our closest relatives. To investigate the genetic basis of human specializations in brain organization and cognition, we compared gene...
Adult mouse brain gene expression patterns bear an embryologic imprint
Zapala, Matthew A., Hovatta, Iiris, Ellison, Julie A., Wodicka, Lisa, Del Rio, Jo A., Tennant, Richard, ...
The current model to explain the organization of the mammalian nervous system is based on studies of anatomy, embryology, and evolution. To further investigate the molecular organization of the adult...
Software and methods for oligonucleotide and cDNA array data analysis
Zapala, Matthew A, Lockhart, Daniel J, Pankratz, Daniel G, Garcia, Anthony J, Barlow, Carrolee, Lockhart, David J
Two HTML-based programs were developed to analyze and filter gene-expression data. A background subtraction and normalization program for cDNA arrays was also built that provides an informative...
Elevated gene expression levels distinguish human from non-human primate brains
Cáceres, Mario, Lachuer, Joel, Zapala, Matthew A., Redmond, John C., Kudo, Lili, Geschwind, Daniel H., ...
Little is known about how the human brain differs from that of our closest relatives. To investigate the genetic basis of human specializations in brain organization and cognition, we compared gene...
Adult mouse brain gene expression patterns bear an embryologic imprint
Zapala, Matthew A., Hovatta, Iiris, Ellison, Julie A., Wodicka, Lisa, Del Rio, Jo A., Tennant, Richard, ...
The current model to explain the organization of the mammalian nervous system is based on studies of anatomy, embryology, and evolution. To further investigate the molecular organization of the adult...
Hovatta, Iiris, Zapala, Matthew A, Broide, Ron S, Schadt, Eric E, Libiger, Ondrej, Schork, Nicholas J, ...
Gene expression profiles of five brain regions from six inbred mouse strains suggest that many regulatory networks are highly specific to particular brain regions.
Zapala, Matthew A., Schork, Nicholas J.
A fundamental step in the analysis of gene expression and other high-dimensional genomic data is the calculation of the similarity or distance between pairs of individual samples in a study. If one...
Detecting genetic variation in microarray expression data
Greenhall, Jennifer A., Zapala, Matthew A., Cáceres, Mario, Libiger, Ondrej, Barlow, Carrolee, Schork, Nicholas J., ...
The use of high-density oligonucleotide arrays to measure the expression levels of thousands of genes in parallel has become commonplace. To take further advantage of the growing body of data, we...