Overview of available methods for diverse RNA-Seq data analyses (Q34121449)

31 July 2017

Overview of available methods for diverse RNA-Seq data analyses (English)

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31 July 2017

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Geng Chen

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31 July 2017

Charles Wang

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31 July 2017

Tieliu Shi

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31 July 2017

1 December 2011

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Science in China. Series C: Life Sciences

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31 July 2017

54

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12

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1121-1128

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https://scigraph.springernature.com/pub.10.1007/s11427-011-4255-x

31 July 2017

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A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome

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Dynamic regulation of alternative splicing and chromatin structure in Drosophila gonads revealed by RNA-seq

21 January 2018

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Mapping and quantifying mammalian transcriptomes by RNA-Seq

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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

21 January 2018

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Transcriptome sequencing to detect gene fusions in cancer

21 January 2018

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Discovery of non-ETS gene fusions in human prostate cancer using next-generation RNA sequencing

21 January 2018

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Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

21 January 2018

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Detection of single nucleotide variations in expressed exons of the human genome using RNA-Seq

21 January 2018

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Mapping short DNA sequencing reads and calling variants using mapping quality scores

21 January 2018

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ZOOM! Zillions of oligos mapped

21 January 2018

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Using quality scores and longer reads improves accuracy of Solexa read mapping

21 January 2018

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SeqMap: mapping massive amount of oligonucleotides to the genome

21 January 2018

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SOAP: short oligonucleotide alignment program

21 January 2018

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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

21 January 2018

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SOAP2: an improved ultrafast tool for short read alignment

21 January 2018

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Fast and accurate short read alignment with Burrows-Wheeler transform

21 January 2018

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SHRiMP: accurate mapping of short color-space reads

21 January 2018

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SSAHA: a fast search method for large DNA databases

21 January 2018

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How to map billions of short reads onto genomes

21 January 2018

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Sense from sequence reads: methods for alignment and assembly

21 January 2018

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A rescue strategy for multimapping short sequence tags refines surveys of transcriptional activity by CAGE.

21 January 2018

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RNA-Seq gene expression estimation with read mapping uncertainty

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Mechanisms of alternative pre-messenger RNA splicing

21 January 2018

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TopHat: discovering splice junctions with RNA-Seq

21 January 2018

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Detection of splice junctions from paired-end RNA-seq data by SpliceMap.

21 January 2018

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MapSplice: accurate mapping of RNA-seq reads for splice junction discovery.

21 January 2018

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SOAPsplice: Genome-Wide ab initio Detection of Splice Junctions from RNA-Seq Data

21 January 2018

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https://api.crossref.org/works/10.1007%2FS11427-011-4255-X

HMMSplicer: a tool for efficient and sensitive discovery of known and novel splice junctions in RNA-Seq data

21 January 2018

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Global and unbiased detection of splice junctions from RNA-seq data

21 January 2018

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Supersplat--spliced RNA-seq alignment

21 January 2018

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Comparative analysis of human protein-coding and noncoding RNAs between brain and 10 mixed cell lines by RNA-Seq.

21 January 2018

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Alternative expression analysis by RNA sequencing

21 January 2018

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Analysis and design of RNA sequencing experiments for identifying isoform regulation

21 January 2018

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Inference of isoforms from short sequence reads

21 January 2018

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Haplotype and isoform specific expression estimation using multi-mapping RNA-seq reads.

21 January 2018

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Statistical inferences for isoform expression in RNA-Seq

21 January 2018

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Differential expression in RNA-seq: a matter of depth

21 January 2018

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baySeq: empirical Bayesian methods for identifying differential expression in sequence count data

21 January 2018

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Differential expression analysis for sequence count data

21 January 2018

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

21 January 2018

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DEGseq: an R package for identifying differentially expressed genes from RNA-seq data

21 January 2018

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A two-parameter generalized Poisson model to improve the analysis of RNA-seq data

21 January 2018

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Cloud-scale RNA-sequencing differential expression analysis with Myrna

21 January 2018

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Empirical bayes analysis of sequencing-based transcriptional profiling without replicates

21 January 2018

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GENE-counter: a computational pipeline for the analysis of RNA-Seq data for gene expression differences.

21 January 2018

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Computational methods for transcriptome annotation and quantification using RNA-seq

21 January 2018

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Velvet: algorithms for de novo short read assembly using de Bruijn graphs

21 January 2018

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De novo assembly and analysis of RNA-seq data.

21 January 2018

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Full-length transcriptome assembly from RNA-Seq data without a reference genome

21 January 2018

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Rnnotator: an automated de novo transcriptome assembly pipeline from stranded RNA-Seq reads

21 January 2018

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Revealing the missing expressed genes beyond the human reference genome by RNA-Seq

21 January 2018

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10.1007/S11427-011-4255-X

21 January 2018

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31 July 2017

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