Ziv Bar-Joseph

Ziv Bar-Joseph

Ziv Bar-Joseph speaking at ISMB in 2012

Ziv Bar-Joseph speaking at ISMB in 2012
Born 1971 (age 44–45)[1]
Fields
Institutions
Alma mater
Thesis Inferring Interactions, Expression Programs and Regulatory Networks from High Throughput Biological Data (2003)
Doctoral advisor
  • David K. Gifford
  • Tommi S. Jaakkola[1]
Doctoral students
  • Jason Ernst[2]
  • Anthony Gitter[3]
Notable awards Overton Prize (2012)
Website
www.cs.cmu.edu/~zivbj/

Ziv Bar-Joseph is an Israeli computational biologist and Associate Professor in the Computational Biology Department and the Machine Learning Department at the Carnegie Mellon School of Computer Science.[4][5][6][7][8][9][10][11][12]

Education

Bar-Joseph studied computer science at Bachelor of Science (1997) and Master of Science (1999) level, both at the Hebrew University of Jerusalem. He gained his PhD from the Massachusetts Institute of Technology in computer science in 2003, under the supervision of David K. Gifford and Tommi S. Jaakkola.[1] Following this, he was a postdoctoral associate at the MIT Computer Science and Artificial Intelligence Laboratory (CSAIL) and the Whitehead Institute.[13]

Research

Bar-Joseph's research at Carnegie Mellon is primarily focused on developing computational methods to allow greater understanding of the interactions and dynamics of complex biological systems, particularly systems that change with time, such as the cell cycle.[5][14]

At MIT, Bar-Joseph's group developed a novel algorithm to discover regulatory networks of gene modules in yeast. These modules are groups of genes that work together to perform tasks such as respiration, protein synthesis and response to external stress.[14][15]

He is also interested in how insights from both computer science and biology can be used to affect the other field, in particular how algorithms from nature can be used in order to improve algorithms in distributed computing.[5][16]

Awards and honours

Bar-Joseph has been awarded the DIMACS-Celera Genomics Graduate Student Award in Computational Molecular Biology and the NSF CAREER award.[17] He was awarded the ISCB Overton Prize in 2012 in recognition of his significant and lasting impact in computational biology.[18]

He co-chaired the Research in Computational Molecular Biology (RECOMB) conference in 2009 and 2010 and joined the board of the journal Bioinformatics as an Associate Editor in 2013.[19]

Personal life

Bar-Joseph is a keen runner and has run several sub-3 hour marathons.[5][14][18] He lives in Pittsburgh and Shoham with his wife and three children.[14]

References

  1. 1 2 3 Bar-Joseph, Ziv (2003). Inferring interactions, expression programs and regulatory networks from high throughput biological data (PhD thesis). Massachusetts Institute of Technology.
  2. ↑ Ernst, Jason (2008). Computational methods for analyzing and modeling gene regulation dynamics (PhD thesis). Carnegie Mellon University.
  3. ↑ Gitter, Anthony (2012). Identifying the Signaling Cascades and Regulatory Mechanisms that Control Stress Responses (PhD thesis). Carnegie Mellon University.
  4. ↑ "Have Israeli scientists discovered the fountain of youth?". www.israel21c.org. Retrieved 13 February 2014.
  5. 1 2 3 4 "Ziv Bar-Joseph". www.cs.cmu.edu. Retrieved 13 February 2014.
  6. ↑ Lee, T. I. (2002). "Transcriptional Regulatory Networks in Saccharomyces cerevisiae". Science 298 (5594): 799–804. doi:10.1126/science.1075090. PMID 12399584.
  7. ↑ Bar-Joseph, Z. (2004). "Analyzing time series gene expression data". Bioinformatics 20 (16): 2493. doi:10.1093/bioinformatics/bth283.
  8. ↑ Ziv Bar-Joseph's publications indexed by the Scopus bibliographic database, a service provided by Elsevier.
  9. ↑ Ziv Bar-Joseph's publications indexed by the DBLP Bibliography Server at the University of Trier
  10. ↑ List of publications from Microsoft Academic Search
  11. ↑ Ziv Bar-Joseph from the Association for Computing Machinery (ACM) Digital Library
  12. ↑ Bar-Joseph, Z.; El-Yaniv, R.; Lischinski, D.; Werman, M. (2001). "Texture mixing and texture movie synthesis using statistical learning". IEEE Transactions on Visualization and Computer Graphics 7 (2): 120. doi:10.1109/2945.928165.
  13. ↑ "Ziv Bar-Joseph CV" (PDF). Retrieved 16 February 2014.
  14. 1 2 3 4 "Running Man - Carnegie Mellon School of Computer Science". http://www.cs.cmu.edu. Retrieved 13 February 2014. External link in |work= (help)
  15. ↑ Bar-Joseph, Z.; Gerber, G. K.; Lee, T. I.; Rinaldi, N. J.; Yoo, J. Y.; Robert, F. O.; Gordon, D. B.; Fraenkel, E.; Jaakkola, T. S.; Young, R. A.; Gifford, D. K. (2003). "Computational discovery of gene modules and regulatory networks". Nature Biotechnology 21 (11): 1337. doi:10.1038/nbt890.
  16. ↑ "Algorithms in Nature". Retrieved 21 February 2014.
  17. ↑ "Keynote Speakers Abstracts & Biographies". www.iscb.org. ISCB. Retrieved 16 February 2014.
  18. 1 2 Mullins, J.; Morrison Mckay, B. J. (2012). "International Society for Computational Biology Honours Gunnar von Heijne and Ziv Bar-Joseph with Top Bioinformatics/Computational Biology Awards for 2012". PLoS Computational Biology 8 (5): e1002535. doi:10.1371/journal.pcbi.1002535.
  19. ↑ "2013 ISCB Annual Report". www.iscb.org. ISCB. Retrieved 15 February 2014.
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