Heng Li Explained

Heng Li
Workplaces:Wellcome Trust Sanger Institute
Broad Institute
Beijing Genomics Institute
Thesis Title:Constructing the TreeFam database
Thesis Url:http://lh3lh3.users.sourceforge.net/download/PhD-thesis-liheng-2006-English.pdf
Thesis Year:2006
Doctoral Advisor:Wei-Mou Zheng
Known For:Bioinformatics
Burrows–Wheeler transform
Samtools
TreeFam
Awards:Benjamin Franklin Award (Bioinformatics) (2012)

Heng Li is a Chinese bioinformatics scientist. He is an associate professor at the department of Biomedical Informatics of Harvard Medical School and the department of Data Science of Dana-Farber Cancer Institute.[1] [2] [3] He was previously a research scientist working at the Broad Institute in Cambridge, Massachusetts with David Reich and David Altshuler.[4] Li's work has made several important contributions in the field of next generation sequencing.

Education

Li majored in physics at Nanjing University from 1997 to 2001.[5] He received his PhD from the Institute of Theoretical Physics at the Chinese Academy of Sciences in 2006. His thesis, titled "Constructing the TreeFam database", was supervised by Wei-Mou Zheng.[6]

Research

Li was involved in a number of projects while working at the Beijing Genomics Institute from 2002 to 2006. These included studying rice finishing,[7] silkworm sequencing,[8] and genetic variation in chickens.[9]

From 2006 to 2009, Li worked on a postdoctoral research fellowship with Richard M. Durbin at the Wellcome Trust Sanger Institute.[10] During this time, Li made several important contributions to the field of next generation sequencing (NGS) through the development of software such as the SAMtools NGS utilities,[11] the Burrows–Wheeler aligner (BWA),[12] MAQ,[13] TreeSoft and TreeFam.[14]

Li joined the Broad Institute in 2009, working in the core faculty lab of David Altshuler,[15] which investigates the discovery and understanding of the genetic causes of disease.

As of December 2018, Li's papers on SAMtools and BWA (sequence alignment using the Burrows–Wheeler transform) have both been cited over 16,000 times.[16]

Awards

In 2012, Li won the Benjamin Franklin award[17] in bioinformatics. Li became the fourth former member of Richard Durbin's lab to win the award, following Sean Eddy, Ewan Birney and Alex Bateman.[18]

Personal

Li lives in Boston with his wife, daughter, and fish.

Notes and References

  1. Web site: Heng Li Department of Biomedical Informatics. dbmi.hms.harvard.edu. en. 2018-10-30.
  2. News: Noted computational biologist Heng Li joins faculty . en-gb . harvard.edu . 2018-10-30.
  3. Web site: HLi Lab - Home. hlilab.github.io. 2018-10-30.
  4. Web site: Heng Li's Homepage . dead . https://web.archive.org/web/20120419031958/http://lh3lh3.users.sourceforge.net/ . 2012-04-19 . sourceforge.net.
  5. https://www.linkedin.com/in/lh3lh3
  6. PhD . Heng. Li . Constructing the TreeFam database . Chinese Academy of Sciences . 2006 .
  7. 1. Yu. Jun. Wang. Jun. Lin. Wei. Li. Songgang. Li. Heng. Zhou. Jun. Ni. Peixiang. Dong. Wei. Hu. Songnian. Zeng. Changqing. Zhang. Jianguo. Zhang. Yong. Li. Ruiqiang. Xu. Zuyuan. Li. Shengting. Li. Xianran. Zheng. Hongkun. Cong. Lijuan. Lin. Liang. Yin. Jianning. Geng. Jianing. Li. Guangyuan. Shi. Jianping. Liu. Juan. Lv. Hong. Li. Jun. Wang. Jing. Deng. Yajun. Ran. Longhua. Shi. Xiaoli. Wang. Xiyin. Wu. Qingfa. Li. Changfeng. Ren. Xiaoyu. Wang. Jingqiang. Wang. Xiaoling. Li. Dawei. Liu. Dongyuan. Zhang. Xiaowei. Ji. Zhendong. Zhao. Wenming. Sun. Yongqiao. Zhang. Zhenpeng. Bao. Jingyue. Han. Yujun. Dong. Lingli. Ji. Jia. Chen. Peng. Wu. Shuming. Liu. Jinsong. Xiao. Ying. Bu. Dongbo. Tan. Jianlong. Yang. Li. Ye. Chen. Zhang. Jingfen. Xu. Jingyi. Zhou. Yan. Yu. Yingpu. Zhang. Bing. Zhuang. Shulin. Wei. Haibin. Liu. Bin. Lei. Meng. Yu. Hong. Li. Yuanzhe. Xu. Hao. Wei. Shulin. He. Ximiao. Fang. Lijun. Zhang. Zengjin. Zhang. Yunze. Huang. Xiangang. Su. Zhixi. Tong. Wei. Li. Jinhong. Tong. Zongzhong. Li. Shuangli. Ye. Jia. Wang. Lishun. Fang. Lin. Lei. Tingting. Chen. Chen. Chen. Huan. Xu. Zhao. Li. Haihong. Huang. Haiyan. Zhang. Feng. Xu. Huayong. Li. Na. Zhao. Caifeng. Li. Shuting. Dong. Lijun. Huang. Yanqing. Li. Long. Xi. Yan. Qi. Qiuhui. Li. Wenjie. Zhang. Bo. Hu. Wei. Zhang. Yanling. Tian. Xiangjun. Jiao. Yongzhi. Liang. Xiaohu. Jin. Jiao. Gao. Lei. Zheng. Weimou. Hao. Bailin. Liu. Siqi. Wang. Wen. Yuan. Longping. Cao. Mengliang. McDermott. Jason. Samudrala. Ram. Wang. Jian. Wong. Gane Ka-Shu. Yang. Huanming. The Genomes of Oryza sativa: A History of Duplications. PLOS Biology. 3. 2. e38. 10.1371/journal.pbio.0030038. 15685292. 546038. 2005 . free .
  8. 1. Xia. Q. Zhou. Z. Lu. C. Cheng. D. Dai. F. Li. B. Zhao. P. Zha. X. Cheng. T. Chai. C. Pan. G. Xu. J. Liu. C. Lin. Y. Qian. J. Hou. Y. Wu. Z. Li. G. Pan. M. Li. C. Shen. Y. Lan. X. Yuan. L. Li. T. Xu. H. Yang. G. Wan. Y. Zhu. Y. Yu. M. Shen. W. Wu. D. Xiang. Z. Yu. J. Wang. J. Li. R. Shi. J. Li. H. Li. G. Su. J. Wang. X. Li. G. Zhang. Z. Wu. Q. Li. J. Zhang. Q. Wei. N. Xu. J. Sun. H. Dong. L. Liu. D. Zhao. S. Zhao. X. Meng. Q. Lan. F. Huang. X. Li. Y. Fang. L. Li. C. Li. D. Sun. Y. Zhang. Z. Yang. Z. Huang. Y. Xi. Y. Qi. Q. He. D. Huang. H. Zhang. X. Wang. Z. Li. W. Cao. Y. Yu. Y. Yu. H. Li. J. Ye. J. Chen. H. Zhou. Y. Liu. B. Wang. J. Ye. J. Ji. H. Li. S. Ni. P. Zhang. J. Zhang. Y. Zheng. H. Mao. B. Wang. W. Ye. C. Li. S. Wang. J. Wong. GK. Yang. H. Biology Analysis. Group. A draft sequence for the genome of the domesticated silkworm (Bombyx mori).. Science. Dec 10, 2004. 306. 5703. 1937–40. 15591204. 10.1126/science.1102210. 2004Sci...306.1937X. 7227719.
  9. 1. Ka-Shu Wong. Gane. Liu. Bin. Wang. Jun. Zhang. Yong. Yang. Xu. Zhang. Zengjin. Meng. Qingshun. Zhou. Jun. Li. Dawei. Zhang. Jingjing. Ni. Peixiang. Li. Songgang. Ran. Longhua. Li. Heng. Zhang. Jianguo. Li. Ruiqiang. Li. Shengting. Zheng. Hongkun. Lin. Wei. Li. Guangyuan. Wang. Xiaoling. Zhao. Wenming. Li. Jun. Ye. Chen. Dai. Mingtao. Ruan. Jue. Zhou. Yan. Li. Yuanzhe. He. Ximiao. Zhang. Yunze. Wang. Jing. Huang. Xiangang. Tong. Wei. Chen. Jie. Ye. Jia. Chen. Chen. Wei. Ning. Li. Guoqing. Dong. Le. Lan. Fengdi. Sun. Yongqiao. Zhang. Zhenpeng. Yang. Zheng. Yu. Yingpu. Huang. Yanqing. He. Dandan. Xi. Yan. Wei. Dong. Qi. Qiuhui. Li. Wenjie. Shi. Jianping. Wang. Miaoheng. Xie. Fei. Wang. Jianjun. Zhang. Xiaowei. Wang. Pei. Zhao. Yiqiang. Li. Ning. Yang. Ning. Dong. Wei. Hu. Songnian. Zeng. Changqing. Zheng. Weimou. Hao. Bailin. Hillier. LaDeana W.. Yang. Shiaw-Pyng. Warren. Wesley C.. Wilson. Richard K.. Brandström. Mikael. Ellegren. Hans. Crooijmans. Richard P. M. A.. van der Poel. Jan J.. Bovenhuis. Henk. Groenen. Martien A. M.. Ovcharenko. Ivan. Gordon. Laurie. Stubbs. Lisa. Lucas. Susan. Glavina. Tijana. Aerts. Andrea. Kaiser. Pete. Rothwell. Lisa. Young. John R.. Rogers. Sally. Walker. Brian A.. van Hateren. Andy. Kaufman. Jim. Bumstead. Nat. Lamont. Susan J.. Zhou. Huaijun. Hocking. Paul M.. Morrice. David. de Koning. Dirk-Jan. Law. Andy. Bartley. Neil. Burt. David W.. Hunt. Henry. Cheng. Hans H.. Gunnarsson. Ulrika. Wahlberg. Per. Andersson. Leif. Kindlund. Ellen. Tammi. Martti T.. Andersson. Björn. Webber. Caleb. Ponting. Chris P.. Overton. Ian M.. Boardman. Paul E. Tang. Haizhou. Hubbard. Simon J.. Wilson. Stuart A.. Yu. Jun. Wang. Jian. Yang. HuanMing. A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature. 9 December 2004. 432. 7018. 717–722. 10.1038/nature03156. 15592405. 2263125. 2004Natur.432..717B.
  10. Web site: ResearcherID: Heng Li. researcherid.com. 11 September 2014.
  11. Li . H. . Heng Li. Handsaker . B. . Wysoker . A. . Fennell . T. . Ruan . J. . Homer . N. . Marth . G. . Abecasis . G. . Gonçalo Abecasis. Durbin . R. . Richard M. Durbin. 10.1093/bioinformatics/btp352 . 1000 Genome Project Data Processing Subgroup . The Sequence Alignment/Map format and SAMtools . Bioinformatics . 25 . 16 . 2078–2079 . 2009 . 19505943 . 2723002 .
  12. Li . H. . Heng Li. Durbin . R. . Richard M. Durbin. 10.1093/bioinformatics/btp324 . Fast and accurate short read alignment with Burrows–Wheeler transform. Bioinformatics . 25 . 14 . 1754–1760 . 2009 . 19451168. 2705234 .
  13. Li . H. . Heng Li. Ruan . J. . Durbin . R. . Richard M. Durbin. 10.1101/gr.078212.108 . Mapping short DNA sequencing reads and calling variants using mapping quality scores . Genome Research . 18 . 11 . 1851–1858 . 2008 . 18714091 . 2577856 .
  14. Li . H. . Heng Li. Coghlan . A. . Ruan . J. . Coin . L. J. . Hériché . J. K. . Osmotherly . L. . Li . R. . Liu . T. . Zhang . Z. . Bolund . L. . Wong . G. K. . Zheng . W. . Dehal . P. . Wang . J. . Durbin . R. . TreeFam: A curated database of phylogenetic trees of animal gene families . 10.1093/nar/gkj118 . Nucleic Acids Research . 34 . 90001 . D572–D580 . 2006 . 16381935 . 1347480 .
  15. Web site: Current Lab Members - Altshuler Lab. broadinstitute.org. 11 September 2014. 2010-05-25.
  16. Web site: Heng Li - Google Scholar Citations. scholar.google.co.uk. 16 April 2015.
  17. Web site: Broad's Heng Li Wins 2012 Benjamin Franklin Award - Bio-IT World . 2012-04-01 . https://web.archive.org/web/20120401213327/http://www.bio-itworld.com/2012/03/14/broads-heng-li-wins-2012-benjamin-franklin-award.html . dead .
  18. Web site: Heng Li Credits Durbin Pedigree in Accepting Franklin Award. bio-itworld.com. 11 September 2014.

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