作者
Dent Earl, Keith Bradnam, John St John, Aaron Darling, Dawei Lin, Joseph Fass, Hung On Ken Yu, Vince Buffalo, Daniel R Zerbino, Mark Diekhans, Ngan Nguyen, Pramila Nuwantha Ariyaratne, Wing-Kin Sung, Zemin Ning, Matthias Haimel, Jared T Simpson, Nuno A Fonseca, İnanç Birol, T Roderick Docking, Isaac Y Ho, Daniel S Rokhsar, Rayan Chikhi, Dominique Lavenier, Guillaume Chapuis, Delphine Naquin, Nicolas Maillet, Michael C Schatz, David R Kelley, Adam M Phillippy, Sergey Koren, Shiaw-Pyng Yang, Wei Wu, Wen-Chi Chou, Anuj Srivastava, Timothy I Shaw, J Graham Ruby, Peter Skewes-Cox, Miguel Betegon, Michelle T Dimon, Victor Solovyev, Igor Seledtsov, Petr Kosarev, Denis Vorobyev, Ricardo Ramirez-Gonzalez, Richard Leggett, Dan MacLean, Fangfang Xia, Ruibang Luo, Zhenyu Li, Yinlong Xie, Binghang Liu, Sante Gnerre, Iain MacCallum, Dariusz Przybylski, Filipe J Ribeiro, Shuangye Yin, Ted Sharpe, Giles Hall, Paul J Kersey, Richard Durbin, Shaun D Jackman, Jarrod A Chapman, Xiaoqiu Huang, Joseph L DeRisi, Mario Caccamo, Yingrui Li, David B Jaffe, Richard E Green, David Haussler, Ian Korf, Benedict Paten
发表日期
2011/12/1
期刊
Genome research
卷号
21
期号
12
页码范围
2224-2241
出版商
Cold Spring Harbor Lab
简介
Low-cost short read sequencing technology has revolutionized genomics, though it is only just becoming practical for the high-quality de novo assembly of a novel large genome. We describe the Assemblathon 1 competition, which aimed to comprehensively assess the state of the art in de novo assembly methods when applied to current sequencing technologies. In a collaborative effort, teams were asked to assemble a simulated Illumina HiSeq data set of an unknown, simulated diploid genome. A total of 41 assemblies from 17 different groups were received. Novel haplotype aware assessments of coverage, contiguity, structure, base calling, and copy number were made. We establish that within this benchmark: (1) It is possible to assemble the genome to a high level of coverage and accuracy, and that (2) large differences exist between the assemblies, suggesting room for further improvements in current …
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D Earl, K Bradnam, JS John, A Darling, D Lin, J Fass… - Genome research, 2011