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MM-ChIP enables integrative analysis of cross-platform and between-laboratory ChIP-chip or ChIP-seq data Chen Y; Meyer CA; Liu T; Li W; Liu JS; Liu XSGenome Biol 2011[]; 12 (2): R11The ChIP-chip and ChIP-seq techniques enable genome-wide mapping of in vivo protein-DNA interactions and chromatin states. The cross-platform and between-laboratory variation poses a challenge to the comparison and integration of results from different ChIP experiments. We describe a novel method, MM-ChIP, which integrates information from cross-platform and between-laboratory ChIP-chip or ChIP-seq datasets. It improves both the sensitivity and the specificity of detecting ChIP-enriched regions, and is a useful meta-analysis tool for driving discoveries from multiple data sources.|*Genome, Human[MESH]|Algorithms[MESH]|Chromatin Immunoprecipitation/*methods[MESH]|Chromatin/genetics[MESH]|Chromosome Mapping/*methods[MESH]|DNA-Binding Proteins/*analysis/genetics[MESH]|Genomics/*methods[MESH]|Humans[MESH]|Oligonucleotide Array Sequence Analysis[MESH]|Sensitivity and Specificity[MESH]|Software[MESH] |