Related references
Note: Only part of the references are listed.Revealing the missing expressed genes beyond the human reference genome by RNA-Seq
Geng Chen et al.
BMC GENOMICS (2011)
Discovery of non-ETS gene fusions in human prostate cancer using next-generation RNA sequencing
Dorothee Pflueger et al.
GENOME RESEARCH (2011)
Differential expression in RNA-seq: A matter of depth
Sonia Tarazona et al.
GENOME RESEARCH (2011)
Inference of Isoforms from Short Sequence Reads
Jianxing Feng et al.
JOURNAL OF COMPUTATIONAL BIOLOGY (2011)
Full-length transcriptome assembly from RNA-Seq data without a reference genome
Manfred G. Grabherr et al.
NATURE BIOTECHNOLOGY (2011)
Computational methods for transcriptome annotation and quantification using RNA-seq
Manuel Garber et al.
NATURE METHODS (2011)
RNA sequencing: advances, challenges and opportunities
Fatih Ozsolak et al.
NATURE REVIEWS GENETICS (2011)
GENE-Counter: A Computational Pipeline for the Analysis of RNA-Seq Data for Gene Expression Differences
Jason S. Cumbie et al.
PLOS ONE (2011)
Comparative Analysis of Human Protein-Coding and Noncoding RNAs between Brain and 10 Mixed Cell Lines by RNA-Seq
Geng Chen et al.
PLOS ONE (2011)
Haplotype and isoform specific expression estimation using multi-mapping RNA-seq reads
Ernest Turro et al.
GENOME BIOLOGY (2011)
SOAPsplice: Genome-Wide ab initio Detection of Splice Junctions from RNA-Seq Data
Songbo Huang et al.
Frontiers in Genetics (2011)
RNA-Seq gene expression estimation with read mapping uncertainty
Bo Li et al.
BIOINFORMATICS (2010)
DEGseq: an R package for identifying differentially expressed genes from RNA-seq data
Likun Wang et al.
BIOINFORMATICS (2010)
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
Mark D. Robinson et al.
BIOINFORMATICS (2010)
Supersplat-spliced RNA-seq alignment
Douglas W. Bryant et al.
BIOINFORMATICS (2010)
Empirical bayes analysis of sequencing-based transcriptional profiling without replicates
Zhijin Wu et al.
BMC BIOINFORMATICS (2010)
baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data
Thomas J. Hardcastle et al.
BMC BIOINFORMATICS (2010)
Rnnotator: an automated de novo transcriptome assembly pipeline from stranded RNA-Seq reads
Jeffrey Martin et al.
BMC GENOMICS (2010)
Dynamic regulation of alternative splicing and chromatin structure in Drosophila gonads revealed by RNA-seq
Qiang Gan et al.
CELL RESEARCH (2010)
RNA-seq: from technology to biology
Samuel Marguerat et al.
CELLULAR AND MOLECULAR LIFE SCIENCES (2010)
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
Cole Trapnell et al.
NATURE BIOTECHNOLOGY (2010)
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
Mitchell Guttman et al.
NATURE BIOTECHNOLOGY (2010)
De novo assembly and analysis of RNA-seq data
Gordon Robertson et al.
NATURE METHODS (2010)
Alternative expression analysis by RNA sequencing
Malachi Griffith et al.
NATURE METHODS (2010)
Analysis and design of RNA sequencing experiments for identifying isoform regulation
Yarden Katz et al.
NATURE METHODS (2010)
Detection of splice junctions from paired-end RNA-seq data by SpliceMap
Kin Fai Au et al.
NUCLEIC ACIDS RESEARCH (2010)
A two-parameter generalized Poisson model to improve the analysis of RNA-seq data
Sudeep Srivastava et al.
NUCLEIC ACIDS RESEARCH (2010)
MapSplice: Accurate mapping of RNA-seq reads for splice junction discovery
Kai Wang et al.
NUCLEIC ACIDS RESEARCH (2010)
HMMSplicer: A Tool for Efficient and Sensitive Discovery of Known and Novel Splice Junctions in RNA-Seq Data
Michelle T. Dimon et al.
PLOS ONE (2010)
Global and unbiased detection of splice junctions from RNA-seq data
Adam Ameur et al.
GENOME BIOLOGY (2010)
Cloud-scale RNA-sequencing differential expression analysis with Myrna
Ben Langmead et al.
GENOME BIOLOGY (2010)
Differential expression analysis for sequence count data
Simon Anders et al.
GENOME BIOLOGY (2010)
Statistical inferences for isoform expression in RNA-Seq
Hui Jiang et al.
BIOINFORMATICS (2009)
TopHat: discovering splice junctions with RNA-Seq
Cole Trapnell et al.
BIOINFORMATICS (2009)
SOAP2: an improved ultrafast tool for short read alignment
Ruiqiang Li et al.
BIOINFORMATICS (2009)
Fast and accurate short read alignment with Burrows-Wheeler transform
Heng Li et al.
BIOINFORMATICS (2009)
Transcriptome sequencing to detect gene fusions in cancer
Christopher A. Maher et al.
NATURE (2009)
How to map billions of short reads onto genomes
Cole Trapnell et al.
NATURE BIOTECHNOLOGY (2009)
Sense from sequence reads: methods for alignment and assembly
Paul Flicek et al.
NATURE METHODS (2009)
RNA-Seq: a revolutionary tool for transcriptomics
Zhong Wang et al.
NATURE REVIEWS GENETICS (2009)
Detection of single nucleotide variations in expressed exons of the human genome using RNA-Seq
Iouri Chepelev et al.
NUCLEIC ACIDS RESEARCH (2009)
SHRiMP: Accurate Mapping of Short Color-space Reads
Stephen M. Rumble et al.
PLOS COMPUTATIONAL BIOLOGY (2009)
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
Ben Langmead et al.
GENOME BIOLOGY (2009)
ZOOM! Zillions of oligos mapped
Hao Lin et al.
BIOINFORMATICS (2008)
SeqMap: mapping massive amount of oligonucleotides to the genome
Hui Jiang et al.
BIOINFORMATICS (2008)
SOAP: short oligonucleotide alignment program
Ruiqiang Li et al.
BIOINFORMATICS (2008)
Using quality scores and longer reads improves accuracy of Solexa read mapping
Andrew D. Smith et al.
BMC BIOINFORMATICS (2008)
Mapping short DNA sequencing reads and calling variants using mapping quality scores
Heng Li et al.
GENOME RESEARCH (2008)
Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
Daniel R. Zerbino et al.
GENOME RESEARCH (2008)
A rescue strategy for multimapping short sequence tags refines surveys of transcriptional activity by CAGE
Geoffrey J. Faulkner et al.
GENOMICS (2008)
Mapping and quantifying mammalian transcriptomes by RNA-Seq
Ali Mortazavi et al.
NATURE METHODS (2008)
A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome
Marc Sultan et al.
SCIENCE (2008)
SSAHA: A fast search method for large DNA databases
ZM Ning et al.
GENOME RESEARCH (2001)
Share Paper
