title: Reducing spatial flaws in oligonucleotide arrays by using neighborhood information.
abstract: We address the problem of detection and correction of spatial flaws in oligonucleotide microarrays. We present two similar procedures, of which one is intended solely for use with replicates and the other has wider applicability. By constructing a set of replicates, with one realistically flawed, we are able to examine the extent to which our procedures are capable of repairing the flaw. We find that, for this purpose, our procedures are superior to the existing 'Harshlight' procedure.
authors.affiliation: University of Essex. jmarte@essex.ac.uk
authors.forename: Jose Manuel
authors.initials: JM
authors.lastname: Arteaga-Salas
authors.forename: Andrew P
authors.initials: AP
authors.lastname: Harrison
authors.forename: Graham J G
authors.initials: GJ
authors.lastname: Upton
mesh_terms: D000465:Algorithms; D004271:DNA, Fungal / Q000737:chemistry; D003627:Data Interpretation, Statistical; D020869:Gene Expression Profiling / Q000379:methods*; D015894:Genome, Human; D006801:Humans; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D015345:Oligonucleotide Probes; D009841:Oligonucleotides / Q000737:chemistry*; D012441:Saccharomyces cerevisiae / Q000235:genetics; D012984:Software
chemical_list: D004271:DNA, Fungal; D015345:Oligonucleotide Probes; D009841:Oligonucleotides