Now showing items 1-6 of 6
OLego: Fast and Sensitive Mapping of Spliced mRNA-Seq Reads Using Small Seeds
(Oxford University Press, 2013-04)
A crucial step in analyzing mRNA-Seq data is to accurately and efficiently map hundreds of millions of reads to the reference genome and exon junctions. Here we present OLego, an algorithm specifically designed for de novo ...
ModuleRole: A Tool for Modulization, Role Determination and Visualization in Protein-Protein Interaction Networks
(Public Library of Science, 2014-05-01)
Rapidly increasing amounts of (physical and genetic) protein-protein interaction (PPI) data are produced by various high-throughput techniques, and interpretation of these data remains a major challenge. In order to gain ...
Nucleosome Eviction and Multiple Co-Factor Binding Predict Estrogen-Receptor-Alpha-Asociated Long-Range Interactions
(Oxford University Press, 2014-04-29)
Many enhancers regulate their target genes via long-distance interactions. High-throughput experiments like ChIA-PET have been developed to map such largely cell-type-specific interactions between cis-regulatory elements ...
FastDMA: An Infinium Humanmethylation450 Beadchip Analyzer
DNA methylation is vital for many essential biological processes and human diseases. Illumina Infinium HumanMethylation450 Beadchip is a recently developed platform studying genome-wide DNA methylation state on more than ...
Miror: A Method for Cell-Type Specific MicroRNA Occupancy Rate Prediction
(Royal Soc Chemistry, 2014-03-13)
MicroRNA (miRNA) regulation is highly cell-type specific. It is sensitive to both the miRNA-mRNA relative abundance and the competitive endogenous RNA (ceRNA) effect. However, almost all existing miRNA target prediction ...
Integrated Omics Study Delineates the Dynamics of Lipid Droplets in Rhodococcus Opacus PD630
(Oxford University Press, 2013-10-22)
Rhodococcus opacus strain PD630 (R. opacus PD630), is an oleaginous bacterium, and also is one of few prokaryotic organisms that contain lipid droplets (LDs). LD is an important organelle for lipid storage but also ...