Aberrant RNA splicing in cancer; expression changes and driver mutations of splicing factor genes
A Sveen, S Kilpinen, A Ruusulehto, RA Lothe… - Oncogene, 2016 - nature.com
Alternative splicing is a widespread process contributing to structural transcript variation and
proteome diversity. In cancer, the splicing process is commonly disrupted, resulting in both …
proteome diversity. In cancer, the splicing process is commonly disrupted, resulting in both …
Molecular mechanisms of eukaryotic pre-mRNA 3′ end processing regulation
S Millevoi, S Vagner - Nucleic acids research, 2010 - academic.oup.com
ABSTRACT Messenger RNA (mRNA) 3′ end formation is a nuclear process through which
all eukaryotic primary transcripts are endonucleolytically cleaved and most of them acquire a …
all eukaryotic primary transcripts are endonucleolytically cleaved and most of them acquire a …
MapSplice: accurate mapping of RNA-seq reads for splice junction discovery
K Wang, D Singh, Z Zeng, SJ Coleman… - Nucleic acids …, 2010 - academic.oup.com
The accurate mapping of reads that span splice junctions is a critical component of all
analytic techniques that work with RNA-seq data. We introduce a second generation splice …
analytic techniques that work with RNA-seq data. We introduce a second generation splice …
De novo assembly and analysis of RNA-seq data
Abstract We describe Trans-ABySS, a de novo short-read transcriptome assembly and
analysis pipeline that addresses variation in local read densities by assembling read …
analysis pipeline that addresses variation in local read densities by assembling read …
Methylomic trajectories across human fetal brain development
Epigenetic processes play a key role in orchestrating transcriptional regulation during
development. The importance of DNA methylation in fetal brain development is highlighted …
development. The importance of DNA methylation in fetal brain development is highlighted …
Identification and systematic annotation of tissue-specific differentially methylated regions using the Illumina 450k array
Background DNA methylation has been recognized as a key mechanism in cell
differentiation. Various studies have compared tissues to characterize epigenetically …
differentiation. Various studies have compared tissues to characterize epigenetically …
A multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection
Numerous high-throughput sequencing studies have focused on detecting conventionally
spliced mRNAs in RNA-seq data. However, non-standard RNAs arising through gene …
spliced mRNAs in RNA-seq data. However, non-standard RNAs arising through gene …
Ensembl's 10th year
ABSTRACT Ensembl (http://www. ensembl. org) integrates genomic information for a
comprehensive set of chordate genomes with a particular focus on resources for human …
comprehensive set of chordate genomes with a particular focus on resources for human …
miRTar: an integrated system for identifying miRNA-target interactions in human
JBK Hsu, CM Chiu, SD Hsu, WY Huang, CH Chien… - BMC …, 2011 - Springer
Background MicroRNAs (miRNAs) are small non-coding RNA molecules that are~ 22-nt-
long sequences capable of suppressing protein synthesis. Previous research has suggested …
long sequences capable of suppressing protein synthesis. Previous research has suggested …
Heart failure–associated changes in RNA splicing of sarcomere genes
Background—Alternative mRNA splicing is an important mechanism for regulation of gene
expression. Altered mRNA splicing occurs in association with several types of cancer, and a …
expression. Altered mRNA splicing occurs in association with several types of cancer, and a …