Gil Alterovitz

 

Harvard / MIT

 

 

 
 

   Publications

Refereed Publications (SELECTED)

  1. G. Alterovitz, M. Xiang, J. Liu, A. Chang, and M. F. Ramoni, "Discovering Biofluid Biomarkers Using an Information Theoretic Proteomics Framework," Proceedings of the Pacific Symposium on Biocomputing, 2008 (In press).
     
  2. G. Alterovitz, M. Xiang, I. S. Kohane, and M. F. Ramoni, "Mass Similarity Shapes Protein Interaction Networks and Is Conserved Across Evolution," PLoS ONE, 2007 (In Press). 
     
  3. J. L. Maron, K. L. Johnson, D. Slonim, C. Q. Lai, M. Ramoni, et al., "Gene expression analysis in pregnant women and their infants identifies unique fetal biomarkers that circulate in maternal blood," J Clin Invest, vol. 117, pp. 3007-3019, Oct 1 2007.
     
  4. G. Alterovitz, T. Muso, P. Malalur, and M. F. Ramoni, "A Systematic Approach to Quantifying Evolutionary Functional Trends Across the Universal Tree of Life," Proceedings of the IEEE 7th International Symposium on Bioinformatics and Bioengineering (BIBE), 2007.
     
  5. G. Alterovitz, E. Lyashenko, M. Xiang, and M. F. Ramoni, "Linking Protein Mass with Function via Organismal Massome Networks," Proceedings of the IEEE 7th International Symposium on Bioinformatics and Bioengineering (BIBE), 2007.
     
  6. G. Alterovitz, J. Liu, E. Afkhami, and M. F. Ramoni, "Bayesian methods for proteomics," Proteomics, Jul 24 2007.
     
  7. G. Alterovitz and M. F. Ramoni, "Bioinformatics and Proteomics: An Engineering-Based Problem Solving Approach," IEEE Transactions on Education, vol. 50, pp. 49-54, 2007.
     
  8. G. Alterovitz, M. Xiang, M. Mohan, and M. F. Ramoni, "GO PaD: The Gene Ontology Partition Database," Nucleic Acids Res, 2007.
     
  9. M. Aivado, D. Spentzos, U. Germing, G. Alterovitz, X. Y. Meng, et al., "From the cover: Serum proteome profiling detects myelodysplastic syndromes and identifies CXC chemokine ligands 4 and 7 as markers for advanced disease," Proc Natl Acad Sci U S A, vol. 104, pp. 1307-12, Jan 23 2007.
     
  10. G. Alterovitz, V. Muralidhar, and M. F. Ramoni, "Gene Lethality Detection and Characterization via Topological Analysis of Regulatory Networks," IEEE Transactions on Circuits and Systems I, vol. 53, 2006.
     
  11. G. Alterovitz and M. F. Ramoni, "Discovering Biological Guilds through Topological Abstraction," AMIA Annu Symp Proc, pp. 1-5, 2006. (Winner, Epstein award.  First place, AMIA student paper competition)
     
  12. G. Alterovitz and M. F. Ramoni, "Biological Network Epitomes via Topological Compression," Proceedings of IEEE Genomic Signal Processing and Statistics (GENSIPS), 2006. [PDF Download]
     
  13. G. Alterovitz, V. Muralidhar, and M. F. Ramoni, "Gene Lethality Detection Across Biological Network Domains: Hubs Versus Stochastic Global Topological Analysis," Proceedings of IEEE Genomic Signal Processing and Statistics (GENSIPS), 2006. [PDF Download]

  14. G. Alterovitz, J. Liu, J. Chow, and M. F. Ramoni, "Automation, parallelism, and robotics for proteomics," Proteomics, Jun 19 2006. [Summary/Web Link] [PDF Download]

  15. G. Alterovitz, E. Afkhami, J. Barillari, and M. Ramoni, "Proteomics," in Encyclopedia of Biomedical Engineering, M. Akay, Ed. New York: John Wiley & Sons, 2006. [Summary/Web Link] [PDF Download]

  16. G. Alterovitz, D. Patek, I. S. Kohane, and M. Ramoni, "Human Protein Meta-Interaction Database (HPMD) Potentiates Integration for Meta-Analysis," Proceedings of IEEE Genomic Signal Processing and Statistics (GENSIPS), 2005.  [PDF Download]

  17. G. Alterovitz, I. S. Kohane, and M. Ramoni, "Characterizing Human Protein Mass Density Distributions," Proceedings of IEEE Genomic Signal Processing and Statistics (GENSIPS), 2005.  [PDF Download]

  18. M. Aivado, D. Spentzos, G. Alterovitz, H. H. Otu, F. Grall, et al., "Optimization and evaluation of surface-enhanced laser desorption/ionization time-of-flight mass spectrometry (SELDI-TOF MS) with reversed-phase protein arrays for protein profiling," Clin Chem Lab Med, vol. 43, pp. 133-40, 2005. [Summary/Web Link]

  19. Alterovitz G, Aivado M, Spentzos D, Libermann T, Ramoni M, and Kohane I, "Analysis and Robot Pipelined Automation for SELDI-TOF Mass Spectrometry," Proceedings of the International Conference of IEEE Engineering in Medicine and Biology, San Francisco, CA, USA, 2004. [Summary/Web Link] [PDF Download]

  20. Alterovitz G. "Electrical Engineering and Nontechnical Design Variables of Multiple Inductive Loop Systems for Auditoriums," J. Deaf Stud. Deaf Educ., 9: 202-209, 2004. [PDF Download]

  21. Alterovitz G, Staelin DH, Philip JH. "Temporal patient state characterization using iterative order and noise (ION) estimation: applications to anesthesia patient monitoringJournal of Clinical Monitoring and Computing, 17:351-359, 2002. [PDF Download]

Books (Academic)

  1. G. Alterovitz, M. F. Ramoni, and eds., "Systems Bioinformatics: An Engineering-Based Problem Solving Approach," Artech House, 2007. [Amazon] [Book Site]

  2. G. Alterovitz, L. Armstrong, P. DasGupta, D. Eaves, F. Grant, et al. delegates, A New Magnetic North: How Canada Can Attract and Retain Young Talent. Toronto: Canada25, 2000.  [PDF Download]

Conferences and Publications (Not mentioned above)

  1. G. Alterovitz, T. Muso, P. Malalur, and M. F. Ramoni, "Functional protein information across space and time," Proceedings of the IEEE Information Theory Workshop, Lake Tahoe, CA, 2007 (Invited).
     
  2. G. Alterovitz, E. Lyashenko, M. Xiang, and M. F. Ramoni, "Functional Enrichment Across Organism Massomes," in RECOMB, Oakland, CA, 2007.
     
  3. G. Alterovitz, "Information Theory Applications in Bioinformatics," Proceedings of the Information Theory Applications Workshop, San Diego, CA, 2007 (Invited talk).
     
  4. C. Wood and G. Alterovitz, "Fundamentals of Design for Synthetic Biology," in Systems Bioinformatics: An Engineering Case-Based Approach, G. Alterovitz and M. F. Ramoni, Eds. New York: Artech House, 2007.
     
  5. V. Muralidhar, G. Szabo, and G. Alterovitz, "Topological Analysis of Biomolecular Networks," in Systems Bioinformatics: An Engineering Case-Based Approach, G. Alterovitz and M. F. Ramoni, Eds. New York: Artech House, 2007.
     
  6. G. Alterovitz, E. Afkhami, and M. Ramoni, "Robotics, Automation, and Statistical Learning for Proteomics," in New Developments in Robotics Research, J. X. Liu, Ed. New York: Nova Science Publishers, Inc., 2005. [Summary/Web Link] [PDF Download]

  7. G. Alterovitz, M. Xiang, M. F. Ramoni, and I. S. Kohane, "Protein Network Topology Metric Conservation: From Yeast to Human," in RECOMB, Cambridge, MA, 2005 (Invited)[PDF Download]

  8. G. Alterovitz, D. Patek, M. F. Ramoni, and I. S. Kohane, "The Human Massome of Protein Interactions: A New Mass Spectrometry-Based Perspective," in RECOMB, Cambridge, MA, 2005.  [PDF Download]

  9. M. Aivado, D. Spentzos, F. Grall, H. H. Otu, G. Alterovitz, et al., "Optimization and standardization of SELDI-TOF MS-derived protein profiles from hydrophobic ProteinChip arrays," in German, Austrian, and Swiss Societies of Hematology and Oncology (DGHO), Innsbruck, Oct 2004. 

  10. Alterovitz G, Aivado M, Libermann T, Ramoni M, and Kohane I, "Machine Learning Techniques for Proteomic Classification and Marker Selection Using Sample Fractionation with SELDI-TOF MS," International Conference on Analysis of Genomic Data, Boston, MA, 2004. [Summary/Web Link]

  11. Aivado M, Alterovitz G, Spentzos D, Grall F, Otu H, Cho J, Ramoni M, and Libermann T, "Reliable and reproducible SELDI-TOF MS-derived serum peptide and protein profiles for the diagnosis of Myelodysplastic Syndromes," ProteinChip Technology Users' Group Meeting, San Diego, 2004. [Summary/Web Link]

  12. Alterovitz G, Aivado M, Libermann T, and Ramoni M, "Noise Characterization in Biological and Technical Replicates for Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry," 6th Annual Conference on Computational Genomics, Boston, MA, 2003.

  13. Alterovitz G, Armstrong L, Grant F, Sinha S, Konopek M.  "Health Care," A New Magnetic North, Toronto: Canada25, 2000. [PDF Download]

  14. Alterovitz G and Hogue C.  "Comparing Secondary Structure Prediction with Genomic Structure Datasets from Methanococcus jannaschii and Aquifex aeolicusJournal of Microbial and Comparative Genomics, Vol. 3, No. 4, C-21, 1998

  15. Feldman H, Alterovitz G, Plaskos N, and Hogue C.  "A Potential to Predict Protein Thermostability Derived from the Genome of Methanococcus jannaschii,” Journal of Microbial and Comparative Genomics, Vol. 3, No. 4, C-27, 1998.

  16. Mouchawar G, Street A, Alterovitz G, Tchou C, Badelt S. "Sural Nerve Sensory Thresholds of Defibrillation WaveformsJournal of the American College of Cardiology, Vol 31/2A,  373A, Feb. 98.

Invited Talks (ACADEMIC, Not mentioned above)

  1. G. Alterovitz, "Bayesian Methods in Proteomics," in Bayes Boot Camp, Boston, MA, 2006.

  2. Alterovitz G.  "Clinical Monitoring Using Temporal Patient State Characterization," Whitehead Institute, July 23, 2003. (Invited by Dr. Eric Lander, Director of Whitehead Institute and Co-founder of Human Genome Project)

  3. Alterovitz G. and Morley M., "US-Canadian Medical Research and Health Care Policies: Perspectives from Recent Fulbright Scholars,” March 8, 2000, MIT.

  4. Alterovitz G. (USA speaker).  "A Look at US/Canadian Differences,” Sundial Inn, Rotary Club (Orillia, Canada Chapter), Feb. 20, 1999.

  5. Alterovitz G.  "The Fulbright Program Experience: A Fulbrighter's Perspective. In commemoration of 50 years of Fulbright Scholarships (1948-49/1998-99)," International Student Center, Feb. 3, 1999.

  6. Alterovitz G.  "1997 Patterson Prize Acceptance Talk,” Pittsburgh Athletic Center, May 1997.

THESES and other WORK (ACADEMIC)

  1. G. Alterovitz, "A Bayesian Framework for Statistical Signal Processing and Knowledge Discovery in Proteomic Engineering," in Electrical and Biomedical Engineering Cambridge: Massachusetts Institute of Technology, PhD Thesis, 2005.

  2. G. Alterovitz, "Temporal Characterization of Patient State with Applications to Prediction of Tachycardia in Anesthesia via Induction of Inhaled Desflurane," in S.M. Thesis, Electrical Engineering and Computer Science Cambridge, MA: Massachusetts Institute of Technology, 2001.

  3. G. Alterovitz, M. Kellis, and M. F. Ramoni, "6.092: Bioinformatics and Proteomics: An Engineering-Based Problem Solving Approach," Retrieved September 20, 2005, from MIT OpenCourseWare site: http://ocw.mit.edu/OcwWeb/Electrical-Engineering-and-Computer-Science/6-092January--IAP--2005/CourseHome/index.htm, April 22, 2005 2005 (Electronic Media).

publications (Professional)

  1. Asher, D. ed.  Graduate Admissions Essays: Write Your Way into the Graduate School of Your Choice,  (My essays were bought and appear in this book). [Summary/Web Link]

  2. Alterovitz G. (Front Cover Story).  "From Windows to Supercomputing," Cross Platform Strategies, Winter 1995.
    Alterovitz G.  "Northern Reflections," Attachι, Vol. 2, No. 1, 2000.

  3. Alterovitz G.  "Life Sciences Workbench Data Analysis Toolbox for Excel," HMS Beagle, Issue 36, Aug. 1998.

  4. Alterovitz G.  "ISIS/Draw," HMS Beagle, Issue 18, Oct. 1997.

  5. Alterovitz G.  "The Internet Revolution and its Affect on the Medical ProfessionMacNet, Feb. 1996.

    50+ articles in city-based and/or AP-affiliated newspapers.

 

 


 

 

Contact

Email:

gilboston@

yahoo.com

 

 

 

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