Efficient de novo assembly of single-cell bacterial genomes from short-read data sets

Keywords

GenomeContigBiologySequence assemblyBacterial genome sizeMetagenomicsComputational biologyWhole genome sequencingGeneticsDNA sequencingGeneHybrid genome assemblyTranscriptome

Affiliated Institutions

Related Publications

De novo assembly of human genomes with massively parallel short read sequencing

Ruiqiang Li , Hongmei Zhu , Jue Ruan +11 more

Next-generation massively parallel DNA sequencing technologies provide ultrahigh throughput at a substantially lower unit data cost; however, the data are very short read length...

2009 Genome Research 2939 citations

Whole-Genome Sequencing and Assembly with High-Throughput, Short-Read Technologies

Andreas Sundquist , Mostafa Ronaghi , Haixu Tang +2 more

While recently developed short-read sequencing technologies may dramatically reduce the sequencing cost and eventually achieve the $1000 goal for re-sequencing, their limitation...

2007 PLoS ONE 126 citations

Assembling millions of short DNA sequences using SSAKE

Robin M. Warren , Granger G. Sutton , Steven J.M. Jones +1 more

Abstract Summary: Novel DNA sequencing technologies with the potential for up to three orders magnitude more sequence throughput than conventional Sanger sequencing are emerging...

2006 Bioinformatics 500 citations

SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing

Juliane C. Dohm , Claudio Lottaz , Tatiana Borodina +1 more

The latest revolution in the DNA sequencing field has been brought about by the development of automated sequencers that are capable of generating giga base pair data sets quick...

2007 Genome Research 281 citations

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

Anton Bankevich , Sergey Nurk , Dmitry Antipov +13 more

The lion's share of bacteria in various environments cannot be cloned in the laboratory and thus cannot be sequenced using existing technologies. A major goal of single-cell gen...

2012 Journal of Computational Biology 25356 citations

Publication Info

Year: 2011
Type: article
Volume: 29
Issue: 10
Pages: 915-921
Citations: 222
Access: Closed

External Links

View on DOI.org

Social Impact

Altmetric

Efficient de novo assembly of single-cell bacterial genomes from short-read data sets

PlumX Metrics

Social media, news, blog, policy document mentions

Citation Metrics

222

OpenAlex

Cite This

APA Style

                            
                                
                                    Hamidreza Chitsaz, 
                                
                                    Joyclyn Yee-Greenbaum, 
                                
                                    Glenn Tesler
                                
                                et al.
                            
                            (2011). 
                            Efficient de novo assembly of single-cell bacterial genomes from short-read data sets. 
                            Nature Biotechnology
                            , 29
                            (10)
                            , 915-921.
                            https://doi.org/10.1038/nbt.1966
                        

Identifiers

DOI: 10.1038/nbt.1966