Towards a complete map of the human long non-coding RNA transcriptome
B Uszczynska-Ratajczak, J Lagarde… - Nature Reviews …, 2018 - nature.com
Gene maps, or annotations, enable us to navigate the functional landscape of our genome.
They are a resource upon which virtually all studies depend, from single-gene to genome …
They are a resource upon which virtually all studies depend, from single-gene to genome …
Computational methods for transcriptome annotation and quantification using RNA-seq
High-throughput RNA sequencing (RNA-seq) promises a comprehensive picture of the
transcriptome, allowing for the complete annotation and quantification of all genes and their …
transcriptome, allowing for the complete annotation and quantification of all genes and their …
Diversity and dynamics of the Drosophila transcriptome
Animal transcriptomes are dynamic, with each cell type, tissue and organ system expressing
an ensemble of transcript isoforms that give rise to substantial diversity. Here we have …
an ensemble of transcript isoforms that give rise to substantial diversity. Here we have …
CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine
Recent transcriptome studies have revealed that a large number of transcripts in mammals
and other organisms do not encode proteins but function as noncoding RNAs (ncRNAs) …
and other organisms do not encode proteins but function as noncoding RNAs (ncRNAs) …
The transcriptional landscape of the mammalian genome
This study describes comprehensive polling of transcription start and termination sites and
analysis of previously unidentified full-length complementary DNAs derived from the mouse …
analysis of previously unidentified full-length complementary DNAs derived from the mouse …
Antisense transcription in the mammalian transcriptome
S Katayama, Y Tomaru, T Kasukawa, K Waki… - Science, 2005 - science.org
Antisense transcription (transcription from the opposite strand to a protein-coding or sense
strand) has been ascribed roles in gene regulation involving degradation of the …
strand) has been ascribed roles in gene regulation involving degradation of the …
Genome-wide analysis of mammalian promoter architecture and evolution
Mammalian promoters can be separated into two classes, conserved TATA box–enriched
promoters, which initiate at a well-defined site, and more plastic, broad and evolvable CpG …
promoters, which initiate at a well-defined site, and more plastic, broad and evolvable CpG …
Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage
T Shiraki, S Kondo, S Katayama… - Proceedings of the …, 2003 - National Acad Sciences
We introduce cap analysis gene expression (CAGE), which is based on preparation and
sequencing of concatamers of DNA tags deriving from the initial 20 nucleotides from 5′ end …
sequencing of concatamers of DNA tags deriving from the initial 20 nucleotides from 5′ end …
The reality of pervasive transcription
The Reality of Pervasive Transcription | PLOS Biology Skip to main content Advertisement
PLOS Biology Browse Current Issue Journal Archive Collections Find and Read Articles Publish …
PLOS Biology Browse Current Issue Journal Archive Collections Find and Read Articles Publish …
Mammalian RNA polymerase II core promoters: insights from genome-wide studies
The identification and characterization of mammalian core promoters and transcription start
sites is a prerequisite to understanding how RNA polymerase II transcription is controlled …
sites is a prerequisite to understanding how RNA polymerase II transcription is controlled …