Utilization of AFFX spike-in control probes to monitor sample identity throughout Affymetrix GeneChip Array processing

ABSTRACT Escherichia coli MelR protein is a transcription activator that is essential for melibiose-dependent expression of the melAB genes. We have used chromatin immunoprecipitation to study the binding of MelR and RNA polymerase to the melAB promoter in vivo. Our results show that MelR is associated with promoter DNA, both in the absence and presence of the inducer melibiose. In contrast, RNA polymerase is recruited to the melAB promoter only in the presence of inducer. The MelR DK261 positive control mutant binds to the melAB promoter but cannot recruit RNA polymerase. Further analysis of immunoprecipitated DNA, by using an Affymetrix GeneChip array, showed that the melAB promoter is the major, if not the sole, target in E. coli for MelR. This was confirmed by a transcriptomics experiment to analyze RNA in cells either with or without melR.

Download Full-text

Custom microarray for glycobiologists: considerations for glycosyltransferase gene expression profiling

Biochemical Society Symposium ◽

10.1042/bss0690135 ◽

2002 ◽

Vol 69 ◽

pp. 135-142 ◽

Cited By ~ 12

Author(s):

Elena M. Comelli ◽

Margarida Amado ◽

Steven R. Head ◽

James C. Paulson

Keyword(s):

Gene Expression ◽

Gene Expression Profiling ◽

Expression Profiling ◽

Affymetrix Genechip ◽

Microarray Technology ◽

Gene Arrays ◽

Glycosyltransferase Gene

The development of microarray technology offers the unprecedented possibility of studying the expression of thousands of genes in one experiment. Its exploitation in the glycobiology field will eventually allow the parallel investigation of the expression of many glycosyltransferases, which will ultimately lead to an understanding of the regulation of glycoconjugate synthesis. While numerous gene arrays are available on the market, e.g. the Affymetrix GeneChip® arrays, glycosyltransferases are not adequately represented, which makes comprehensive surveys of their gene expression difficult. This chapter describes the main issues related to the establishment of a custom glycogenes array.

Download Full-text

Array Processing for a Multiple-Rank Signal

10.21236/ada197954 ◽

1988 ◽

Author(s):

David J. Edelblute

Keyword(s):

Array Processing

Download Full-text

Hyperbolic Transforms in Array Processing

10.21236/ada247061 ◽

1991 ◽

Author(s):

Allan O. Steinhardt

Keyword(s):

Array Processing

Download Full-text

Array Processing for Discrete and Distributed Sources

10.21236/ada428940 ◽

2004 ◽

Author(s):

Benjamin Friedlander

Keyword(s):

Array Processing

Download Full-text

Array features

10.1093/oso/9780198811893.003.0007 ◽

2018 ◽

Author(s):

Michael Metcalf ◽

John Reid ◽

Malcolm Cohen

Keyword(s):

Array Processing ◽

Performance Enhancing

A complete description of the use of array processing is offered. Assumed-shape and automatic arrays are described, and the concept of elemental is introduced for operations, assignments, and procedures. Array-valued functions and the where construct are described, along with the notion of pure procedures. Array subobjects, aliasing, and array constructors are considered. The performance-enhancing features of the do concurrent construct and the contiguous property are included.

Download Full-text