Systematically evaluating interfaces for RNA-seq analysis from a life scientist perspective
出版年份 2015 全文链接
标题
Systematically evaluating interfaces for RNA-seq analysis from a life scientist perspective
作者
关键词
-
出版物
BRIEFINGS IN BIOINFORMATICS
Volume 17, Issue 2, Pages 213-223
出版商
Oxford University Press (OUP)
发表日期
2015-06-25
DOI
10.1093/bib/bbv036
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- RNASeqGUI: a GUI for analysing RNA-Seq data
- (2014) Francesco Russo et al. BIOINFORMATICS
- PRADA: pipeline for RNA sequencing data analysis
- (2014) Wandaliz Torres-García et al. BIOINFORMATICS
- piPipes: a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing
- (2014) Bo W. Han et al. BIOINFORMATICS
- SeqAssist: a novel toolkit for preliminary analysis of next-generation sequencing data
- (2014) Yan Peng et al. BMC BIOINFORMATICS
- SMITH: a LIMS for handling next-generation sequencing workflows
- (2014) Francesco Venco et al. BMC BIOINFORMATICS
- MAP-RSeq: Mayo Analysis Pipeline for RNA sequencing
- (2014) Krishna R Kalari et al. BMC BIOINFORMATICS
- Time-series RNA-seq analysis package (TRAP) and its application to the analysis of rice, Oryza sativa L. ssp. Japonica, upon drought stress
- (2014) Kyuri Jo et al. METHODS
- RNA CoMPASS: A Dual Approach for Pathogen and Host Transcriptome Analysis of RNA-Seq Datasets
- (2014) Guorong Xu et al. PLoS One
- Grape RNA-Seq analysis pipeline environment
- (2013) D. G. Knowles et al. BIOINFORMATICS
- NGSUtils: a software suite for analyzing and manipulating next-generation sequencing datasets
- (2013) Marcus R. Breese et al. BIOINFORMATICS
- Finishing bacterial genome assemblies with Mix
- (2013) Hayssam Soueidan et al. BMC BIOINFORMATICS
- Count-based differential expression analysis of RNA sequencing data using R and Bioconductor
- (2013) Simon Anders et al. Nature Protocols
- TCW: Transcriptome Computational Workbench
- (2013) Carol Soderlund et al. PLoS One
- TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
- (2013) Daehwan Kim et al. GENOME BIOLOGY
- Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data
- (2013) Franck Rapaport et al. GENOME BIOLOGY
- Cell-Cycle Control of Developmentally Regulated Transcription Factors Accounts for Heterogeneity in Human Pluripotent Cells
- (2013) Amar M. Singh et al. Stem Cell Reports
- FX: an RNA-Seq analysis tool on the cloud
- (2012) Dongwan Hong et al. BIOINFORMATICS
- easyRNASeq: a bioconductor package for processing RNA-Seq data
- (2012) N. Delhomme et al. BIOINFORMATICS
- RNA-SeQC: RNA-seq metrics for quality control and process optimization
- (2012) David S. DeLuca et al. BIOINFORMATICS
- Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
- (2012) Cole Trapnell et al. Nature Protocols
- R-SAP: a multi-threading computational pipeline for the characterization of high-throughput RNA-sequencing data
- (2012) Vinay K. Mittal et al. NUCLEIC ACIDS RESEARCH
- RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics
- (2012) M. Lohse et al. NUCLEIC ACIDS RESEARCH
- RseqFlow: workflows for RNA-Seq data analysis
- (2011) Ying Wang et al. BIOINFORMATICS
- wapRNA: a web-based application for the processing of RNA sequences
- (2011) Wenming Zhao et al. BIOINFORMATICS
- A pipeline for RNA-seq data processing and quality assessment
- (2011) Angela Goncalves et al. BIOINFORMATICS
- RNA-Seq analysis in MeV
- (2011) E. A. Howe et al. BIOINFORMATICS
- Chipster: user-friendly analysis software for microarray and other high-throughput data
- (2011) M Aleksi Kallio et al. BMC GENOMICS
- Differential expression in RNA-seq: A matter of depth
- (2011) S. Tarazona et al. GENOME RESEARCH
- GENE-Counter: A Computational Pipeline for the Analysis of RNA-Seq Data for Gene Expression Differences
- (2011) Jason S. Cumbie et al. PLoS One
- S-MART, A Software Toolbox to Aid RNA-seq Data Analysis
- (2011) Matthias Zytnicki et al. PLoS One
- ExpressionPlot: a web-based framework for analysis of RNA-Seq and microarray gene expression data
- (2011) Brad A Friedman et al. GENOME BIOLOGY
- Haplotype and isoform specific expression estimation using multi-mapping RNA-seq reads
- (2011) Ernest Turro et al. GENOME BIOLOGY
- RSEQtools: a modular framework to analyze RNA-Seq data using compact, anonymized data summaries
- (2010) Lukas Habegger et al. BIOINFORMATICS
- baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data
- (2010) Thomas J Hardcastle et al. BMC BIOINFORMATICS
- The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
- (2010) A. McKenna et al. GENOME RESEARCH
- Understanding the pathogenesis of Alzheimer’s disease: will RNA-Seq realize the promise of transcriptomics?
- (2010) Greg T. Sutherland et al. JOURNAL OF NEUROCHEMISTRY
- Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
- (2010) Cole Trapnell et al. NATURE BIOTECHNOLOGY
- The Sequence Read Archive
- (2010) R. Leinonen et al. NUCLEIC ACIDS RESEARCH
- Cloud-scale RNA-sequencing differential expression analysis with Myrna
- (2010) Ben Langmead et al. GENOME BIOLOGY
- Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
- (2010) Jeremy Goecks et al. GENOME BIOLOGY
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- Fast and accurate short read alignment with Burrows-Wheeler transform
- (2009) H. Li et al. BIOINFORMATICS
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- Massively parallel sequencing of the polyadenylated transcriptome of C. elegans
- (2009) L. W. Hillier et al. GENOME RESEARCH
- Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt
- (2009) Steffen Durinck et al. Nature Protocols
- Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
- (2009) Ben Langmead et al. GENOME BIOLOGY
- Mapping and quantifying mammalian transcriptomes by RNA-Seq
- (2008) Ali Mortazavi et al. NATURE METHODS
- RNA-Seq: a revolutionary tool for transcriptomics
- (2008) Zhong Wang et al. NATURE REVIEWS GENETICS
Publish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn MoreAdd your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload Now