Tools
Sorted by:
Try your query at:
 |
 |
 |
 |
 |
 |
Results 1 - 10
of
556
Detecting differential usage of exons from RNA-Seq data
, 2012
"... RNA-Seq is a powerful tool for the study of alternative splicing and other forms of alternative isoform expression. Understanding the regulation of these processes requires sensitive and specific detection of differential iso-form abundance in comparisons between conditions, cell types or tissues. W ..."
Abstract
-
Cited by 108 (9 self)
- Add to MetaCart
RNA-Seq is a powerful tool for the study of alternative splicing and other forms of alternative isoform expression. Understanding the regulation of these processes requires sensitive and specific detection of differential iso-form abundance in comparisons between conditions, cell types or tissues
Statistical modeling of RNA-Seq data
- Stat Sci
, 2011
"... Summary. In mammalian cells, RNAs can have highly similar sequences yet can encode proteins with different functional roles. Isoforms of a gene are an example of a collection of such RNAs. Accumulating evidence suggests that a key factor charactering cell function in mammals is differential isoform ..."
Abstract
-
Cited by 11 (1 self)
- Add to MetaCart
gene expression, particu-larly at the level of isoforms. Yet, statistical methods for performing such estimation are not well developed. This paper introduces a statistical model for estimating isoform abundance from UHTS data. The model is analyzed in detail, including derivation of minimal sufficient
Splice event detection and quantification from RNA-seq data
, 2015
"... RNA-seq data can be used for transcript isoform discovery and transcript-level expression studies. Most computational tools for genome-guided transcript isoform analysis (methods that work with RNA-seq data aligned against a reference genome) fall into one of two categories: Methods for the analysis ..."
Abstract
- Add to MetaCart
for the analysis of splice events, which often rely on transcript annotation, and methods for reconstructing and quantifying full-length transcripts. SGSeq implements a method for the annotation-free detection and quantification of splice events from RNA-seq data. 2
Network Coding for Distributed Storage Systems
, 2008
"... Distributed storage systems provide reliable access to data through redundancy spread over individually unreliable nodes. Application scenarios include data centers, peer-to-peer storage systems, and storage in wireless networks. Storing data using an erasure code, in fragments spread across nodes, ..."
Abstract
-
Cited by 338 (13 self)
- Add to MetaCart
coded system, a common practice to repair from a node failure is for a new node to download subsets of data stored at a number of surviving nodes, reconstruct a lost coded block using the downloaded data, and store it at the new node. We show that this procedure is sub-optimal. We introduce the notion
Event-level prediction and quantification of transcript isoforms from RNA-seq data
, 2014
"... RNA-seq data are informative for the analysis of known and novel transcript isoforms. While the short length of RNA-seq reads limits the ability to predict and quantify full-length transcripts, short read data are well suited for the analysis of individual alternative transcript events (e.g. inclusi ..."
Abstract
- Add to MetaCart
RNA-seq data are informative for the analysis of known and novel transcript isoforms. While the short length of RNA-seq reads limits the ability to predict and quantify full-length transcripts, short read data are well suited for the analysis of individual alternative transcript events (e
eQTL Mapping Using RNA-seq Data
- Stat. Biosci
, 2013
"... Abstract As RNA-seq is replacing gene expression microarrays to assess genome-wide transcription abundance, gene expression Quantitative Trait Locus (eQTL) studies using RNA-seq have emerged. RNA-seq delivers two novel features that are important for eQTL studies. First, it provides information on ..."
Abstract
-
Cited by 2 (1 self)
- Add to MetaCart
that use RNA-seq data to study RNA isoform expression and we discuss the gaps between these works and isoform-specific eQTL mapping.
Edgebreaker: Connectivity compression for triangle meshes
- IEEE Transactions on Visualization and Computer Graphics
, 1999
"... Edgebreaker is a simple scheme for compressing the triangle/vertex incidence graphs (sometimes called connectivity or topology) of three-dimensional triangle meshes. Edgebreaker improves upon the worst case storage required by previously reported schemes, most of which require O(nlogn) bits to store ..."
Abstract
-
Cited by 298 (24 self)
- Add to MetaCart
to store the incidence graph of a mesh of n triangles. Edgebreaker requires only 2n bits or less for simple meshes and can also support fully general meshes by using additional storage per handle and hole. Edgebreaker’s compression and decompression processes perform the same traversal of the mesh from one
Computational methods for transcriptome annotation and quantification using RNA-seq
"... Defining a precise map of all genes along with their alternative isoforms and expression across diverse cell types is critical for understanding biology. Until recently, production of such data was prohibitively expensive and experimentally laborious. The major method for annotating a transcriptome ..."
Abstract
- Add to MetaCart
and transcription Recent advances in DNA sequencing technology have made it possible to sequence cDNA derived from cellular RNA by massively parallel sequencing technologies, a process termed RNA-seq Here we focus on the computational methods needed to address RNA-seq analysis core challenges. First, we describe
Learning Probabilistic Splice Graphs from RNA-Seq data
, 2010
"... RNA-Seq technology provides the foundation for accurately measuring gene expression levels when paired with a model for mapping the produced sequencing reads to a reference genome. Because of the shorter length of RNA-Seq reads, a single read is not uniquely mapped to a single location in the genome ..."
Abstract
-
Cited by 1 (0 self)
- Add to MetaCart
in the genome and requires probabilistic treatment to accurately measure relative expression levels. We present a directed acyclic graph with edge weights learned using the EM algorithm from a collection of RNA-Seq where reads mapping to multiple locations are distributed according to their probability. 1
Results 1 - 10
of
556
