David J. Lipman

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David J. Lipman
Paul Ginsparg and David Lipman.jpg
David Lipman (right) with Paul Ginsparg in June 2013
Fields Bioinformatics
Computational biology
Sequence comparison methods
Comparative genomics
Molecular evolution
Institutions National Center for Biotechnology Information
Brown University
University at Buffalo, The State University of New York
Alma mater Brown University
University at Buffalo, The State University of New York
Notable students Stephen Altschul[citation needed]
Mark Boguski[citation needed]
Notable awards Accomplishment by a Senior Scientist Award
Member of the U.S. National Academy of Sciences
Website
www.ncbi.nlm.nih.gov/research/staff/lipman

David J. Lipman is an American biologist who since 1989 has been the Director of the National Center for Biotechnology Information (NCBI) at the National Institutes of Health.[1][2] NCBI is the home of GenBank,[3] the U.S. node of the International Sequence Database Consortium, and PubMed, one of the most heavily used sites in the world for the search and retrieval of biomedical information. Lipman is one of the original authors of the BLAST sequence alignment program, and a respected figure in bioinformatics.[4][5][6]

Education[edit]

Dr. Lipman received his undergraduate degree from Brown University[citation needed] and his M.D. in 1980[citation needed] from the University at Buffalo, The State University of New York.

Career[edit]

Lipman leads an intramural research program, including groups led by Stephen Altschul (another BLAST co-author), David Landsman, Eugene Koonin[7] (a prolific author on comparative genomics), and L. Aravind.

He is most well known for his work on a series of sequence similarity algorithm, starting from the Wilbur-Lipman[8] algorithm in 1983, FASTA search[9][10] search in 1985, BLAST[11] in 1990, and Gapped BLAST and PSI-BLAST[12] in 1997.

Lipman also works with Dennis A. Benson and others at NCBI, contributing to the maintenance and improvement of GenBank and annually publishes a paper on their progress. The improvements include specification of data format, curation of data, integration of protein information with DNA sequences and scientific literature.[13][14][15]

He was one of the originators of the Influenza Genome Sequencing Project, a project to sequence and make available the genomes of thousands of influenza virus isolates[citation needed].

He is also the Editor-in-Chief for an open access, peer-reviewed online journal Biology Direct.[16]

Awards and honors[edit]

Dr. Lipman received the Association of Biomolecular Resource Facilities Award for outstanding contributions to Biomolecular Technologies in 1996.

In 2004, he was awarded the Accomplishment by a Senior Scientist Award from the International Society for Computational Biology.[17]

In 2005, Dr. Lipman was elected to the U.S. National Academy of Sciences.

In 2013, he received the award of a White House "Open Science" Champion of Change. [18]

References[edit]

  1. ^ "David J. Lipman, MD, Director, National Center for Biotechnology Information". Archived from the original on 2013-06-10. 
  2. ^ "Open Access Now | Conversation with David Lipman". Retrieved 2 July 2011. 
  3. ^ Benson, D. A.; Karsch-Mizrachi, I.; Lipman, D. J.; Ostell, J.; Wheeler, D. L. (2007). "GenBank". Nucleic Acids Research. 36 (Database issue): D25–D30. doi:10.1093/nar/gkm929. PMC 2238942free to read. PMID 18073190. 
  4. ^ http://scholar.google.com/scholar?q=david+lipman David Lipman publications in Google Scholar
  5. ^ List of publications from Microsoft Academic Search
  6. ^ David J. Lipman at DBLP Bibliography Server
  7. ^ Tatusov, R. L.; Koonin, E. V.; Lipman, D. J. (1997). "A Genomic Perspective on Protein Families". Science. 278 (5338): 631–637. doi:10.1126/science.278.5338.631. PMID 9381173. 
  8. ^ Wilbur, W. J.; Lipman, D. J. (1983). "Rapid similarity searches of nucleic acid and protein data banks". Proceedings of the National Academy of Sciences of the United States of America. 80 (3): 726–730. doi:10.1073/pnas.80.3.726. PMC 393452free to read. PMID 6572363. 
  9. ^ Lipman, D.; Pearson, W. (1985). "Rapid and sensitive protein similarity searches". Science. 227 (4693): 1435–1441. doi:10.1126/science.2983426. PMID 2983426. 
  10. ^ Pearson, W. R.; Lipman, D. J. (1988). "Improved tools for biological sequence comparison". Proceedings of the National Academy of Sciences of the United States of America. 85 (8): 2444–2448. doi:10.1073/pnas.85.8.2444. PMC 280013free to read. PMID 3162770. 
  11. ^ Altschul, Stephen; Gish, Warren; Miller, Webb; Myers, Eugene; Lipman, David (1990). "Basic local alignment search tool". Journal of Molecular Biology. 215 (3): 403–410. doi:10.1016/S0022-2836(05)80360-2. PMID 2231712. 
  12. ^ Altschul, S.; Madden, T. L.; Schäffer, A. A.; Zhang, J.; Zhang, Z.; Miller, W.; Lipman, D. J. (1997). "Gapped BLAST and PSI-BLAST: A new generation of protein database search programs". Nucleic Acids Research. 25 (17): 3389–3402. doi:10.1093/nar/25.17.3389. PMC 146917free to read. PMID 9254694. 
  13. ^ Benson, D. A.; Cavanaugh, M.; Clark, K.; Karsch-Mizrachi, I.; Lipman, D. J.; Ostell, J.; Sayers, E. W. (2012). "GenBank". Nucleic Acids Research. 41 (Database issue): D36–D42. doi:10.1093/nar/gks1195. PMC 3531190free to read. PMID 23193287. 
  14. ^ Benson, D. A.; Karsch-Mizrachi, I.; Clark, K.; Lipman, D. J.; Ostell, J.; Sayers, E. W. (2011). "GenBank". Nucleic Acids Research. 40 (Database issue): D48–D53. doi:10.1093/nar/gkr1202. PMC 3245039free to read. PMID 22144687. 
  15. ^ Benson, D. A.; Karsch-Mizrachi, I.; Lipman, D. J.; Ostell, J.; Sayers, E. W. (2010). "GenBank". Nucleic Acids Research. 39 (Database issue): D32–D37. doi:10.1093/nar/gkq1079. PMC 3013681free to read. PMID 21071399. 
  16. ^ http://www.biology-direct.com/about/edboard Editorial Board of Biology Direct. Retrieved on 28 October 2011.
  17. ^ "ISCB Names 2004 Senior Scientist Accomplishment Award Winner, Dr. David Lipman ISCB Newsletter 7-3". Retrieved 2 July 2011. 
  18. ^ "Dr. David Lipman Receives White House "Open Science" Champions of Change Award on Behalf of NCBI". www.ncbi.nlm.nih.gov. Retrieved 2 April 2016.