Optimal assembly strategies of transcriptome related to ploidies of eukaryotic organisms
Published 2015 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Optimal assembly strategies of transcriptome related to ploidies of eukaryotic organisms
Authors
Keywords
Transcriptome assembly, RNA-Seq, Diploid, Polyploidy, Sweet potato, <em class=EmphasisTypeItalic >Oryza meyeriana</em>, <em class=EmphasisTypeItalic >Trametes gallica</em>
Journal
BMC GENOMICS
Volume 16, Issue 1, Pages 65
Publisher
Springer Nature
Online
2015-02-07
DOI
10.1186/s12864-014-1192-7
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Condition-specific target prediction from motifs and expression
- (2014) Guofeng Meng et al. BIOINFORMATICS
- Combining Transcriptome Assemblies from Multiple De Novo Assemblers in the Allo-Tetraploid Plant Nicotiana benthamiana
- (2014) Kenlee Nakasugi et al. PLoS One
- The Impacts of Read Length and Transcriptome Complexity for De Novo Assembly: A Simulation Study
- (2014) Zheng Chang et al. PLoS One
- De novo finished 2.8 Mbp Staphylococcus aureus genome assembly from 100 bp short and long range paired-end reads
- (2013) David Hernandez et al. BIOINFORMATICS
- IDBA-tran: a more robust de novo de Bruijn graph assembler for transcriptomes with uneven expression levels
- (2013) Yu Peng et al. BIOINFORMATICS
- De novo assembly and characterization of Camelina sativa transcriptome by paired-end sequencing
- (2013) Chao Liang et al. BMC GENOMICS
- Optimizing de novo assembly of short-read RNA-seq data for phylogenomics
- (2013) Ya Yang et al. BMC GENOMICS
- The importance of tissue specificity for RNA-seq: highlighting the errors of composite structure extractions
- (2013) Brian R Johnson et al. BMC GENOMICS
- Comparative analyses of two Geraniaceae transcriptomes using next-generation sequencing
- (2013) Jin Zhang et al. BMC PLANT BIOLOGY
- Assessment of transcript reconstruction methods for RNA-seq
- (2013) Tamara Steijger et al. NATURE METHODS
- 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
- Floral Transcriptome Sequencing for SSR Marker Development and Linkage Map Construction in the Tea Plant (Camellia sinensis)
- (2013) Li-Qiang Tan et al. PLoS One
- Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels
- (2012) Marcel H. Schulz et al. BIOINFORMATICS
- Optimizing de novo common wheat transcriptome assembly using short-read RNA-Seq data
- (2012) Jialei Duan et al. BMC GENOMICS
- Transcriptome-scale homoeolog-specific transcript assemblies of bread wheat
- (2012) Andreas W Schreiber et al. BMC GENOMICS
- Detecting differential usage of exons from RNA-seq data
- (2012) S. Anders et al. GENOME RESEARCH
- Digital Gene Expression Analysis Based on Integrated De Novo Transcriptome Assembly of Sweet Potato [Ipomoea batatas (L.) Lam.]
- (2012) Xiang Tao et al. PLoS One
- De novo Transcriptome Assembly and SNP Discovery in the Wing Polymorphic Salt Marsh Beetle Pogonus chalceus (Coleoptera, Carabidae)
- (2012) Steven M. Van Belleghem et al. PLoS One
- RNA-Seq Assembly – Are We There Yet?
- (2012) Simon Schliesky et al. Frontiers in Plant Science
- SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
- (2012) Ruibang Luo et al. GigaScience
- Comparative studies of de novo assembly tools for next-generation sequencing technologies
- (2011) Yong Lin et al. BIOINFORMATICS
- Quality control and preprocessing of metagenomic datasets
- (2011) R. Schmieder et al. BIOINFORMATICS
- De novo assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweetpotato (Ipomoea batatas)
- (2011) Zhangying Wang et al. BMC GENOMICS
- Effect of the down-regulation of the high Grain Protein Content (GPC) genes on the wheat transcriptome during monocarpic senescence
- (2011) Dario Cantu et al. BMC GENOMICS
- De novo assembly and characterization of a maternal and developmental transcriptome for the emerging model crustacean Parhyale hawaiensis
- (2011) Victor Zeng et al. BMC GENOMICS
- De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity
- (2011) Massimo Iorizzo et al. BMC GENOMICS
- De novo sequencing and characterization of floral transcriptome in two species of buckwheat (Fagopyrum)
- (2011) Maria D Logacheva et al. BMC GENOMICS
- De Novo Assembly of Chickpea Transcriptome Using Short Reads for Gene Discovery and Marker Identification
- (2011) R. Garg et al. DNA RESEARCH
- Full-length transcriptome assembly from RNA-Seq data without a reference genome
- (2011) Manfred G Grabherr et al. NATURE BIOTECHNOLOGY
- A Practical Comparison of De Novo Genome Assembly Software Tools for Next-Generation Sequencing Technologies
- (2011) Wenyu Zhang et al. PLoS One
- Transcriptome screen for fast evolving genes by Inter-Specific Selective Hybridization (ISSH)
- (2010) Juan I Montoya-Burgos et al. BMC GENOMICS
- Comparing de novo assemblers for 454 transcriptome data
- (2010) Sujai Kumar et al. BMC GENOMICS
- De novo assembly and analysis of RNA-seq data
- (2010) Gordon Robertson et al. NATURE METHODS
- RNA sequencing: advances, challenges and opportunities
- (2010) Fatih Ozsolak et al. NATURE REVIEWS GENETICS
- Gene discovery using massively parallel pyrosequencing to develop ESTs for the flesh fly Sarcophaga crassipalpis
- (2009) Daniel A Hahn et al. BMC GENOMICS
- Targeted next-generation sequencing of a cancer transcriptome enhances detection of sequence variants and novel fusion transcripts
- (2009) Joshua Z Levin et al. GENOME BIOLOGY
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 MoreAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started