ISVASE: identification of sequence variant associated with splicing event using RNA-seq data
BMC Bioinformatics, 2017 Background Exon recognition and splicing precisely and efficiently by spliceosome is the key to generate mature mRNAs. About one third or a half of disease-related mutations affect RNA splicing.
Hasan Awad Aljohi +4 more
doaj +1 more source
Complete Genome Sequence of Mulberry Vein Banding Associated Virus, a New Tospovirus Infecting Mulberry. [PDF]
PLoS ONE, 2015 Mulberry vein banding associated virus (MVBaV) that infects mulberry plants with typical vein banding symptoms had been identified as a tentative species of the genus Tospovirus based on the homology of N gene sequence to those of tospoviruses.
Jiaorong Meng +5 more
doaj +1 more source
Virtual Environment for Next Generation Sequencing Analysis [PDF]
, 2012 Next Generation Sequencing technology, on the one hand, allows a more accurate analysis, and, on the other hand, increases the amount of data to process.
Abate, Francesco +4 more
core
Statistical Design and Analysis of RNA Sequencing Data [PDF]
Genetics, 2010 Abstract Next-generation sequencing technologies are quickly becoming the preferred approach for characterizing and quantifying entire genomes. Even though data produced from these technologies are proving to be the most informative of any thus far, very little attention has been paid to fundamental design aspects of data collection ...
Paul L, Auer, R W, Doerge
openaire +2 more sources
TRAPR: R Package for Statistical Analysis and Visualization of RNA-Seq Data [PDF]
Genomics & Informatics, 2017 High-throughput transcriptome sequencing, also known as RNA sequencing (RNA-Seq), is a standard technology for measuring gene expression with unprecedented accuracy.
Jae Hyun Lim, Soo Youn Lee, Ju Han Kim
doaj +1 more source
A computational method for estimating the PCR duplication rate in DNA and RNA-seq experiments. [PDF]
, 2017 BackgroundPCR amplification is an important step in the preparation of DNA sequencing libraries prior to high-throughput sequencing. PCR amplification introduces redundant reads in the sequence data and estimating the PCR duplication rate is important to
Bansal, Vikas
core +2 more sources
High-throughput detection of RNA processing in bacteria
BMC Genomics, 2018 Background Understanding the RNA processing of an organism’s transcriptome is an essential but challenging step in understanding its biology. Here we investigate with unprecedented detail the transcriptome of Pseudomonas aeruginosa PAO1, a medically ...
Erin E. Gill +12 more
doaj +1 more source
Influence of viral genes on the cell-to-cell spread of RNA silencing [PDF]
The turnip crinkle virus-based vector TCV–GFPDCP had been devised previously to study cell-to-cell and long-distance spread of virus-induced RNA silencing.
Hong, Yiguo +3 more
core +1 more source
Whole-transcriptome, high-throughput RNA sequence analysis of the bovine macrophage response to Mycobacterium bovis infection in vitro [PDF]
, 2013 BACKGROUND: Mycobacterium bovis, the causative agent of bovine tuberculosis, is an intracellular pathogen that can persist inside host macrophages during infection via a diverse range of mechanisms that subvert the host immune response.
Browne, JA +13 more
core +2 more sources
Exome-based analysis for RNA epigenome sequencing data [PDF]
Bioinformatics, 2013 Abstract Motivation: Fragmented RNA immunoprecipitation combined with RNA sequencing enabled the unbiased study of RNA epigenome at a near single-base resolution; however, unique features of this new type of data call for novel computational techniques.
Jia, Meng +4 more
openaire +2 more sources