4.7 Article

CANEapp: a user-friendly application for automated next generation transcriptomic data analysis

Related references

Note: Only part of the references are listed.
Letter Biotechnology & Applied Microbiology

Multi-omic data analysis using Galaxy

Jorrit Boekel et al.

NATURE BIOTECHNOLOGY (2015)

Article Genetics & Heredity

The landscape of long noncoding RNAs in the human transcriptome

Matthew K. Iyer et al.

NATURE GENETICS (2015)

Article Genetics & Heredity

JAFFA: High sensitivity transcriptome-focused fusion gene detection

Nadia M. Davidson et al.

GENOME MEDICINE (2015)

Article Biochemical Research Methods

HTSeq-a Python framework to work with high-throughput sequencing data

Simon Anders et al.

BIOINFORMATICS (2015)

Article Biochemical Research Methods

Comparison of software packages for detecting differential expression in RNA-seq studies

Fatemeh Seyednasrollah et al.

BRIEFINGS IN BIOINFORMATICS (2015)

Article Biochemistry & Molecular Biology

Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals

Stefan Washietl et al.

GENOME RESEARCH (2014)

Article Biotechnology & Applied Microbiology

The concordance between RNA-seq and microarray data depends on chemical treatment and transcript abundance

Charles Wang et al.

NATURE BIOTECHNOLOGY (2014)

Article Cell Biology

Regulation of the Apolipoprotein Gene Cluster by a Long Noncoding RNA

Paul Halley et al.

CELL REPORTS (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Article Biochemical Research Methods

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin et al.

BIOINFORMATICS (2013)

Review Genetics & Heredity

Long Noncoding RNAs: Past, Present, and Future

Johnny T. Y. Kung et al.

GENETICS (2013)

Article Biotechnology & Applied Microbiology

Differential analysis of gene regulation at transcript resolution with RNA-seq

Cole Trapnell et al.

NATURE BIOTECHNOLOGY (2013)

Article Biochemical Research Methods

Assessment of transcript reconstruction methods for RNA-seq

Tamara Steijger et al.

NATURE METHODS (2013)

Article Neurosciences

mRNA expression, splicing and editing in the embryonic and adult mouse cerebral cortex

Allissa A. Dillman et al.

NATURE NEUROSCIENCE (2013)

Article Biotechnology & Applied Microbiology

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Daehwan Kim et al.

GENOME BIOLOGY (2013)

Article Biotechnology & Applied Microbiology

Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data

Franck Rapaport et al.

GENOME BIOLOGY (2013)

Article Multidisciplinary Sciences

Landscape of transcription in human cells

Sarah Djebali et al.

NATURE (2012)

Article Biochemical Research Methods

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

Cole Trapnell et al.

NATURE PROTOCOLS (2012)

Letter Biotechnology & Applied Microbiology

Integrative genomics viewer

James T. Robinson et al.

NATURE BIOTECHNOLOGY (2011)

Review Genetics & Heredity

Next-generation transcriptome assembly

Jeffrey A. Martin et al.

NATURE REVIEWS GENETICS (2011)

Article Cell Biology

Single-molecule direct RNA sequencing without cDNA synthesis

Fatih Ozsolak et al.

WILEY INTERDISCIPLINARY REVIEWS-RNA (2011)

Article Biochemical Research Methods

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

Mark D. Robinson et al.

BIOINFORMATICS (2010)

Article Biotechnology & Applied Microbiology

Cloud-scale RNA-sequencing differential expression analysis with Myrna

Ben Langmead et al.

GENOME BIOLOGY (2010)

Article Biochemical Research Methods

TopHat: discovering splice junctions with RNA-Seq

Cole Trapnell et al.

BIOINFORMATICS (2009)

Review Genetics & Heredity

RNA-Seq: a revolutionary tool for transcriptomics

Zhong Wang et al.

NATURE REVIEWS GENETICS (2009)