Pre-Conference Workshops [December 15]

Biological Micro Electro Mechanical Systems (BioMEMS): Fundamentals and Applications
December 15, 9am - 3pm

Dr. Ali Khademhosseini
Harvard-Massachusetts Institute of Technology Division of Health Sciences and Technology
Workshop Description
This workshop will provide an overview on how to apply Biological MicroElectroMechanical Systems (BioMEMs) technologies to obtain new insights into biological processes that encompass processes at the molecular, cellular and tissue scales including chemotaxis and cellular forces; cell metabolism, electrophysiology and signaling; angiogenesis and metastasis; and differentiation and development. This workshop will begin with a series of lectures outlining key aspects of the micro and nanofabrication technologies and applications of BioMEMS technologies to life sciences, and will also allow participants to have a hands on experience fabricating and operating BioMEMS devices and learn specific details regarding the practical aspects of BioMEMS and sensor design, fabrication, and use for specific applications. The workshop is geared towards graduate students, research scientists, faculty and industrial participants who are interested in gaining experience in the exciting field of BioMEMS.
Short Bio
Ali Khademhosseini is an Assistant Professor at Harvard-MIT's Division of Health Sciences and Technology (HST), Brigham and Women’s Hospital (BWH) and Harvard Medical School (HMS). He is also a Junior Principal Investigator at Japan’s World Premier Institute – Advanced Institute for Materials Research (WPI-AIMR) at Tohoku University where he directs a satellite laboratory. He received his Ph.D. in bioengineering from MIT (2005), and MASc (2001) and BASc (1999) degrees from University of Toronto both in chemical engineering.

His research is based on developing micro- and nanoscale technologies to control cellular behavior with particular emphasis in developing microscale biomaterials and engineering systems for tissue engineering. Currently, his laboratory is developing technologies to control the formation of vascularized tissues with appropriate microarchitectures as well as regulating stem cell differentiation within microengineered systems. He has edited 3 books and is an author on over 120 peer reviewed papers, 30 book chapters, 100+ abstracts, and 14 patent/disclosure applications. His work has been published in journals such as PNAS, JACS, Advanced Materials, Biomaterials and Lab on a chip and highlighted in Nature, Scientific American and Technology Review Magazine. He has been cited ~2700 times and has an H-index of 30. Also, he has been invited to give over 100 seminars at various academic and industrial institutions.

Bioinformatics: Biological Sequence Analysis and Phylogenetic Tree Reconstruction
December 15, 9am - 3pm

Mohamed Abouelhoda, Nile and Cairo University
Ahmed Moustafa, American University in Cairo
Workshop Description
The workshop will include an overview of the Bioinformatics domain, addressing classical and recent problems of the field. The workshop will focus on sequence analysis domain and its applications in SNP detection, genome annotation, motif finding. We will handle the theoretical background with hand-on experience using web-based and local sequence analysis tools. The workshop will also focus on phylogenetic tree reconstruction based on biological sequences. We will review different concepts behind phylogenetic tree reconstruction and introduce recent algorithms in this area.
Short Bio
Mohamed Abouelhoda recieved his PhD degree in Bioinformatics in 2005 from Ulm University, Germany. From 2001 -2003, he was a graduate student in the Bioinformatics Graduate School of Bielefeld University, Germany. Dr. Abouelhoda research of interest is sequence analysis and computational comparative genomics. He introduced many algorithms and software tools in this area. Currently. he is an Assistant Professor at systems and Biomedical Engineering Department Cairo University and also leads the Bioinformatics Group at Nile University.

Medical Image Segmentation and Pattern Recognition
December 15, 9am - 3pm

Dr. Mohamed Nooman Ahmed IBM, USA
Workshop Description
The workshop will include an overview of Image Segmentation and Pattern Recognition principles and their application in the medical image analysis field.

Topics covered will include:
  • Point, edge, and region-based segmentation.
  • Statistical Segmentation using parametric and non-parametric classifiers.
  • Region modeling using Markov Random Fields.
  • Segmentation using linear and nonlinear classifiers, including neural networks.
  • Support Vector Machines.
  • K-means and Fuzzy clustering.
  • Boundary extraction using Level-Sets.
  • Short Bio
    Dr. Mohamed Nooman a Senior Imaging Consultant at IBM, USA, conducting research in Image Processing and Pattern recognition as applied to document understanding and compression.

    He is also an Adjunct Professor at the Electrical and Computer Engineering Department, University of Louisville, USA, teaching graduate courses in medical image analysis, random fields and estimation theory, and machine learning.

    Dr. Nooman is a 5th level Lexmark Inventor holding 22 U.S. patents and has published over 50 peer-reviewed journal and conference papers. He graduated with highest honors from the University of Louisville with Ph.D. degree in Computer Science and Engineering. He obtained his B.S. and M.S. in Biomedical Engineering from Cairo University, Egypt, in 1989 and 1992, respectively.
    CIBEC 2010, December 16 -18, 2010