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» Comparing Relations with a Multi-holed Region
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BMCBI
2011
13 years 2 months ago
Statistical Test of Expression Pattern (STEPath): a new strategy to integrate gene expression data with genomic information in i
Background: In the last decades, microarray technology has spread, leading to a dramatic increase of publicly available datasets. The first statistical tools developed were focuse...
Paolo G. V. Martini, Davide Risso, Gabriele Sales,...
RECOMB
2006
Springer
14 years 7 months ago
Phylogenetic Profiling of Insertions and Deletions in Vertebrate Genomes
Micro-indels are small insertion or deletion events (indels) that occur during genome evolution. The study of micro-indels is important, both in order to better understand the unde...
Sagi Snir, Lior Pachter
BMCBI
2007
173views more  BMCBI 2007»
13 years 7 months ago
Ringo - an R/Bioconductor package for analyzing ChIP-chip readouts
Background: Chromatin immunoprecipitation combined with DNA microarrays (ChIP-chip) is a high-throughput assay for DNA-protein-binding or post-translational chromatin/histone modi...
Joern Toedling, Oleg Sklyar, Tammo Krueger, Jenny ...
BMCBI
2004
94views more  BMCBI 2004»
13 years 7 months ago
Caryoscope: An Open Source Java application for viewing microarray data in a genomic context
Background: Microarray-based comparative genome hybridization experiments generate data that can be mapped onto the genome. These data are interpreted more easily when represented...
Ihab A. B. Awad, Christian A. Rees, Tina Hernandez...
BMCBI
2008
138views more  BMCBI 2008»
13 years 7 months ago
Application of nonnegative matrix factorization to improve profile-profile alignment features for fold recognition and remote ho
Background: Nonnegative matrix factorization (NMF) is a feature extraction method that has the property of intuitive part-based representation of the original features. This uniqu...
Inkyung Jung, Jaehyung Lee, Soo-Young Lee, Dongsup...