Jue Ruan
Jue Ruan
Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences
Verified email at
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The sequence alignment/map format and SAMtools
H Li, B Handsaker, A Wysoker, T Fennell, J Ruan, N Homer, G Marth, ...
bioinformatics 25 (16), 2078-2079, 2009
1000 Genome Project Data Processing Subgroup. 2009. The sequence alignment/map format and samtools
H Li, B Handsaker, A Wysoker, T Fennell, J Ruan, N Homer, G Marth, ...
Bioinformatics 25 (16), 2078-2079, 2009
Mapping short DNA sequencing reads and calling variants using mapping quality scores
H Li, J Ruan, R Durbin
Genome research 18 (11), 1851-1858, 2008
De novo assembly of human genomes with massively parallel short read sequencing
R Li, H Zhu, J Ruan, W Qian, X Fang, Z Shi, Y Li, S Li, G Shan, ...
Genome research 20 (2), 265-272, 2010
The genome of the cucumber, Cucumis sativus L.
S Huang, R Li, Z Zhang, LI Li, X Gu, W Fan, WJ Lucas, X Wang, B Xie, ...
Nature genetics 41 (12), 1275-1281, 2009
The sequence and de novo assembly of the giant panda genome
R Li, W Fan, G Tian, H Zhu, L He, J Cai, Q Huang, Q Cai, B Li, Y Bai, ...
Nature 463 (7279), 311-317, 2010
Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome
AM Wenger, P Peluso, WJ Rowell, PC Chang, RJ Hall, GT Concepcion, ...
Nature biotechnology 37 (10), 1155-1162, 2019
Genomic variation in 3,010 diverse accessions of Asian cultivated rice
W Wang, R Mauleon, Z Hu, D Chebotarov, S Tai, Z Wu, M Li, T Zheng, ...
Nature 557 (7703), 43-49, 2018
The diploid genome sequence of an Asian individual
J Wang, W Wang, R Li, Y Li, G Tian, L Goodman, W Fan, J Zhang, J Li, ...
Nature 456 (7218), 60-65, 2008
Fast and accurate long-read assembly with wtdbg2
J Ruan, H Li
Nature methods 17 (2), 155-158, 2020
A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms
Genome sequence of red jungle fowl: Washington University School of Medicine ...
Nature 432 (7018), 717-722, 2004
TreeFam: a curated database of phylogenetic trees of animal gene families
H Li, A Coghlan, J Ruan, LJ Coin, JK Heriche, L Osmotherly, R Li, T Liu, ...
Nucleic acids research 34 (suppl_1), D572-D580, 2006
Subgroup 1000 Genome Project Data Processing. 2009. The Sequence Alignment/Map format and SAMtools
H Li, B Handsaker, A Wysoker, T Fennell, J Ruan, N Homer, G Marth, ...
Bioinformatics 25 (16), 2078-2079, 2009
TreeFam: 2008 update
J Ruan, H Li, Z Chen, A Coghlan, LJM Coin, Y Guo, JK Heriche, Y Hu, ...
Nucleic acids research 36 (suppl_1), D735-D740, 2007
DBG2OLC: efficient assembly of large genomes using long erroneous reads of the third generation sequencing technologies
C Ye, CM Hill, S Wu, J Ruan, Z Ma
Scientific reports 6 (1), 31900, 2016
SilkDB: a knowledgebase for silkworm biology and genomics
J Wang, Q Xia, X He, M Dai, J Ruan, J Chen, G Yu, H Yuan, Y Hu, R Li, ...
Nucleic acids research 33 (suppl_1), D399-D402, 2005
Population sequencing enhances understanding of tea plant evolution
X Wang, H Feng, Y Chang, C Ma, L Wang, X Hao, A Li, H Cheng, ...
Nature communications 11 (1), 4447, 2020
Rapid growth of a hepatocellular carcinoma and the driving mutations revealed by cell-population genetic analysis of whole-genome data
Y Tao, J Ruan, SH Yeh, X Lu, Y Wang, W Zhai, J Cai, S Ling, Q Gong, ...
Proceedings of the National Academy of Sciences 108 (29), 12042-12047, 2011
A chromosome-scale genome assembly of cucumber (Cucumis sativus L.)
Q Li, H Li, WU Huang, Y Xu, Q Zhou, S Wang, J Ruan, S Huang, Z Zhang
GigaScience 8 (6), giz072, 2019
SMARTdenovo: a de novo assembler using long noisy reads
H Liu, S Wu, A Li, J Ruan
Gigabyte 2021, 2021
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