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De novo transcriptome assembly

De novo transcriptome assembly is the method of creating a transcriptome without the aid of a reference genome.
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Topic mentions per year

Topic mentions per year

2009-2017
051020092017

Related topics

Related topics

16 relations
BLASTBlast2GODe Bruijn graphHybrid genome assembly
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Broader (4)

BioinformaticsComputational biologyOmicsSystems biology

Related mentions per year

Related mentions per year

1954-2018
1960198020002020
De novo transcriptome assembly
Bioinformatics
Python
Systems biology
BLAST
Computational biology

Papers overview

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2016
2016
BinPacker: Packing-Based De Novo Transcriptome Assembly from RNA-seq Data
High-throughput RNA-seq technology has provided an unprecedented opportunity to reveal the very complex structures of… (More)
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2016
2016
Informed kmer selection for de novo transcriptome assembly
MOTIVATION De novo transcriptome assembly is an integral part for many RNA-seq workflows. Common applications include sequencing… (More)
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2016
2016
Sequence analysis Informed kmer selection for de novo transcriptome assembly
Motivation: De novo transcriptome assembly is an integral part for many RNA-seq workflows. Common applications include sequencing… (More)
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2016
2016
Comprehensive evaluation of de novo transcriptome assembly programs and their effects on differential gene expression analysis
Motivation With the decreased cost of RNA-Seq, an increasing number of non-model organisms have been sequenced. Due to the lack… (More)
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Highly Cited
2014
Highly Cited
2014
SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads
MOTIVATION Transcriptome sequencing has long been the favored method for quickly and inexpensively obtaining a large number of… (More)
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2014
2014
Parallelization of the Trinity Pipeline for De Novo Transcriptome Assembly
This paper details a distributed-memory implementation of Chrysalis, part of the popular Trinity workflow used for de novo… (More)
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2012
2012
Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms
The k-mer hash length is a key factor affecting the output of de novo transcriptome assembly packages using de Bruijn graph… (More)
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Highly Cited
2011
Highly Cited
2011
Optimizing de novo transcriptome assembly from short-read RNA-Seq data: a comparative study
With the fast advances in nextgen sequencing technology, high-throughput RNA sequencing has emerged as a powerful and cost… (More)
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2011
2011
SPATA: A seeding and patching algorithm for de novo transcriptome assembly
RNA-seq reads are sampled from the underlying human transcriptome sequence, consisting of hundreds of thousands of mRNA… (More)
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Highly Cited
2009
Highly Cited
2009
De novo transcriptome assembly with ABySS
MOTIVATION Whole transcriptome shotgun sequencing data from non-normalized samples offer unique opportunities to study the… (More)
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