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Title
De novo assembly of bacterial transcriptomes from RNA-seq data
Authors
Keywords
Transcriptome Assembly, Candidate Transcript, Express Reference Gene, Trinity Assembler, Differential Transcript Expression
Journal
GENOME BIOLOGY
Volume 16, Issue 1, Pages 1
Publisher
Springer Nature
Online
2015-01-12
DOI
10.1186/s13059-014-0572-2
References
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Note: Only part of the references are listed.- De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
- (2013) Brian J Haas et al. Nature Protocols
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- (2012) Marcel H. Schulz et al. BIOINFORMATICS
- SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
- (2012) Ruibang Luo et al. GigaScience
- Optimizing de novo transcriptome assembly from short-read RNA-Seq data: a comparative study
- (2011) Qiong-Yi Zhao et al. BMC BIOINFORMATICS
- How to apply de Bruijn graphs to genome assembly
- (2011) Phillip E C Compeau et al. NATURE BIOTECHNOLOGY
- Full-length transcriptome assembly from RNA-Seq data without a reference genome
- (2011) Manfred G Grabherr et al. NATURE BIOTECHNOLOGY
- Computational methods for transcriptome annotation and quantification using RNA-seq
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- (2011) Jeffrey A. Martin et al. NATURE REVIEWS GENETICS
- The sequence read archive: explosive growth of sequencing data
- (2011) Y. Kodama et al. NUCLEIC ACIDS RESEARCH
- Comparative Functional Genomics of the Fission Yeasts
- (2011) N. Rhind et al. SCIENCE
- Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments
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- Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
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- Differential expression analysis for sequence count data
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- (2009) I. Birol et al. BIOINFORMATICS
- The Sequence Alignment/Map format and SAMtools
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- De novo assembly of human genomes with massively parallel short read sequencing
- (2009) R. Li et al. GENOME RESEARCH
- Sense from sequence reads: methods for alignment and assembly
- (2009) Paul Flicek et al. NATURE METHODS
- 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
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