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Bioinformatics and Systems Biology
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Seeing is believing
Dr. Dorit Hanein’s laboratory is developing an imaging technique that allows them to peer into a cell and see what’s going on—which proteins are doing what, when and with whom – in real time.
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Some like it sweet
Dr. Andrei Osterman and his team use computer models to reconstruct and predict metabolic pathways in the bacteria T. maritime and S. oneidensis, which may have potential industrial applications to produce biohydrogen or clean up nuclear waste.
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Systems Biology: anatomy of a network
Dr. Adam Godzik, who directs the Bioinformatics and Systems Biology Program, is one of several researchers leading the way towards a “big picture” understanding of biology and medicine.
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Studying bioinformatics and systems biology
The Bioinformatics and Systems Biology Program is helping to develop a new paradigm of research—one that shifts focus from traditional studies of single genes or processes to unified systems views on biological processes. This approach combines data-mining from large-scale, technology-driven projects, such as human genome or structural genomics projects, with traditional hypothesis-driven experimental work.
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The explosive growth of biological research in the last decade has led to an exponential increase in the amount of information available about important biological systems. With new developments, such as sequencing entire genomes of many organisms, this increase is likely to continue. Not only the amount of data will increase, but also new types of data—such as exact timing of various steps in regulatory pathways—will become available. These developments necessitate a system-wide appreciation of what’s happening in a cell or organism and the computing and organizational power to make sense of it all. The Bioinformatics and Systems Biology Program is helping to develop this new paradigm both by creating new bioinformatics tools and at the same time, in collaboration with other research groups at the Institute, applying new tools and new ways of thinking to specific research projects.
How our research helps improve health
With the genome now completed, the sequences of all ~20-25,000 human genes are now known. The function or even the speculated function of more than half of these genes, however, is still unknown, leaving a large gaps in our understanding of human genetics, development, health, and disease. The next phase of genomics will be dedicated to deciphering gene function, from which will come the targets for future drug discovery.
Research - Infectious and Inflammatory Disease - Bioinformatics and
Systems Biology: How Our Research Helps |
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FFAS server: novel features and applications.
Jaroszewski L, Li Z, Cai XH, Weber C, Godzik A.
Nucleic Acids Res. 2011 Jul;39(Web Server issue):W38-44.
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Structural determinants of limited proteolysis.
Kazanov MD, Igarashi Y, Eroshkin AM, Cieplak P, Ratnikov B, Zhang Y, Li Z, Godzik A, Osterman AL, Smith JW.
J Proteome Res. 2011 Aug 5;10(8):3642-51. Epub 2011 Jul 8.
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Comparative Metabolic Flux Profiling of Melanoma Cell Lines: BEYOND THE WARBURG EFFECT.
Scott DA, Richardson AD, Filipp FV, Knutzen CA, Chiang GG, Ronai ZA, Osterman AL, Smith JW.
J Biol Chem. 2011 Dec 9;286(49):42626-34. Epub 2011 Oct 13.
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Three-dimensional reconstructions of Arp2/3 complex with bound nucleation promoting factors.
Xu XP, Rouiller I, Slaughter BD, Egile C, Kim E, Unruh JR, Fan X, Pollard TD, Li R, Hanein D, Volkmann N.
EMBO J. 2011 Sep 20. doi: 10.1038/emboj.2011.343. [Epub ahead of print]
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Correlative light-electron microscopy.
Hanein D, Volkmann N.
Adv Protein Chem Struct Biol. 2011;82:91-9.
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Methods for segmentation and interpretation of electron tomographic reconstructions.
Volkmann N.
Methods Enzymol. 2010;483:31-46.
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Research - Infectious and Inflammatory Disease - Bioinformatics and
Systems Biology: Recent Publications |
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