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Speakers
Larry Helseth, PhD
Postdoctoral Research Fellow
DePaul University
School of Computer Science, Telecommunications, and Information Systems
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Larry Helseth has a PhD in Biochemistry from Northwestern
University and 13 years of laboratory experience. His research
interests include collagen structure, biosynthesis, and remodeling.
He also has 14 years of experience in information technology and
knowledge management in the healthcare R&D field and has been
active in Internet development since 1994. Dr. Helseth joined DePaul
University in the spring of 2006 as a postdoctoral research fellow
working with Professor David Angulo at CTI. Dr. Helseth is currently
developing software to analyze mass spectrometry data generated by
our collaborators in the proteomics and molecular oncology
laboratories at the University of Chicago and University of
Illinois-Chicago.
Biology is an Informational Science!
One of the founders of our field recently stated the compelling
need for bioinformaticians by observing that “Biology is an
informational science.” Dr. Helseth will introduce the field of
bioinformatics, discuss career opportunities in the field and
describe the many bioinformatics opportunities that exist at DePaul.
Come learn how computer scientists are contributing daily to solving
problems in the different “omics” that are revolutionizing biology
and medicine.
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Jacob Furst, PhD
Associate Professor
DePaul University
School of Computer Science, Telecommunications, and Information Systems
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Dr. Jacob Furst is an Assistant Professor in the School of CTI,
at DePaul University, in Chicago; he also was an Associate Dean of
CTI Student Services between 1999 and 2003. Dr. Furst received his
Bachelor degree in English from Boston University, and his PhD
degree in Computer Science from University of North Carolina at
Chapel Hill. His research interests are medical imaging,
content-based image retrieval, and computer graphics. He is
currently working on a project to generate American Sign Language
from English, and also on a project related to human organ
identification using texture information in Computerized Tomography
(CT) images.
Introduction to DNA
Microarrays
This talk will focus on the
mechanical and biological foundations of DNA microarray analysis.
I will also introduce the image processing and statistical
techniques generally used for microarray analysis, as well as
indicating typical problems encountered by these techniques.
Finally, I will discuss the two major applications of microarray
analysis: gene expression and genome
classification.
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Daniela Stan Raicu, PhD
Assistant Professor
DePaul University
School of Computer Science, Telecommunications, and Information Systems
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Dr. Daniela Stan Raicu is an Assistant Professor in the School of
CTI at DePaul University, Chicago, Illinois. She received her B.S.
in Mathematics from University of Bucharest, Romania, her M.A. in
Computer Science from Wayne State University, in Michigan, and her
Ph.D. in Computer Science from Oakland University, Michigan. Her
research interests include data mining and knowledge discovery,
pattern recognition, medical imaging, and multimedia retrieval. Dr.
Raicu has published numerous papers in her research areas and is
actively involved in organizing different conferences and workshops
in Multimedia Retrieval. In the past several years, Daniela worked
for and applied her data mining and image processing expertise to
different research projects at Young & Rubicam, Accenture
Technology Labs and Ford Motor Company.
Introduction to Medical Informatics
This tutorial will introduce the basics of medical informatics,
the challenges at the frontiers between computer science and
medicine domains, and the interdisciplinary efforts made to bridge
the gap between these two domains. The tutorial will also introduce
the basics of a computer-aided diagnosis (CAD) system and how a CAD
system can be used for different diagnosis and various imaging
modalities (such as CT, MRI, PET, etc).
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Elizabeth M Glass, PhD
Bioinformatics Group
Mathematics & Computer Science Division
Argonne National Laboratory
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Elizabeth M
Glass is an Enrico Fermi Scholar at the Mathematics and Computer
Science Division of Argonne National Laboratory. Her
current research involves the development of environments for
comparative and evolutionary analysis as well as in silico
analysis of pathogenic bacteria for the Great Lakes Regional
Center of Excellence in Biodefense and Emerging Infectious
Disease Research.
Integrated Bioinformatics Systems and Tools at MCS/ANL
During the past
decade, the scientific community has witnessed an unprecedented
accumulation of gene sequence data and data related to
the physiology and biochemistry of organisms. In order to exploit
the enormous scientific value of this information for
understanding biological systems, the information must be
integrated, analyzed, graphically displayed and modeled
computationally in a timely fashion. The development
of computational models of an organisms functionality is
essential for progress in medicine, biotechnology and
bioremediation. Such models allow predicting functions of the
genes in newly sequenced genomes and existence of particular
metabolic pathways and physiological features.
Resulting conjectures developed from computational analyses of
genomes provide invaluable aid to researchers in planning
experiments and save an enormous amount of time and resources
required for elucidation of an organisms biochemical and
physiological characteristics. This talk will cover
our efforts in developing integrated and interactive
bioinformatics systems and tools for such research applications
as biomedical, biodefense, bioengineering and
meta-genomics.
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Ming-Yang Kao, PhD
Professor
Northwestern University
Department of Electrical Engineering & Computer Science
McCormick School of Engineering & Applied Science
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Dr. Kao is currently
a Professor of Computer Science at Northwestern
University;
Head of the EECS Division of Computing, Algorithms, and
Applications; and Member of the Program in Computational Biology and
Bioinformatics. He
earned is B.S. in Mathematics in 1978 from National Taiwan
University, Republic of China (Taiwan) and his Ph.D. in Computer
Science in 1986 from Yale University. His research includes the
design, analysis, and implementation of algorithms in
Bioinformatics, Computational Finance, E-Commerce and
Nanotechnology. His
research extends to Discrete Algorithms and Combinatorial
Optimization. He has
published more than one hundred papers and is currently the
Editor-in-Chief of Algorithmica.
Some
Experiences with Formulating Algorithmic Problems for
Bioinformatics
In this talk, I will discuss some of my
experiences with formulating algorithmic problems for
bioinformatics. I will use examples from the literature to
demonstrate subtleties in the task of formulating suitable problems.
The talk will conclude with a discussion of a general approach that
may help find a good match among actual data, data models,
algorithmic problems, and algorithmic
solutions.
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Samuel Armato III, PhD
Associate Professor of Radiology
The University of Chicago
Department of Radiology
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Samuel G. Armato III is an Associate
Professor of Radiology and the Committee on Medical Physics at The
University of Chicago. He received a Ph.D. in Medical Physics
from The University of Chicago in 1997. His current research
involves the development of computer-aided diagnostic systems for
applications in thoracic imaging. He is one of the Principal
Investigators of the NCI-sponsored Lung Image Database
Consortium.
Research in Computer-Aided
Diagnosis
Imaging is ubiquitous is medicine.
From disease detection to patient response to therapy, medical
imaging plays a prominent role in patient care. With a growing
number of applications for medical imaging and advancements in
imaging technology that yield an increasingly greater number of
images per examination, radiologists could benefit from computerized
image analyses. Computer-aided diagnosis (CAD) is a general
term for a paradigm in which such computerized analyses are provided
to radiologists, who then incorporate this information into their
medical decision-making process. CAD is an extremely active
area of international research. Investigators are exploring
CAD techniques for a wide variety of radiologic tasks, across a wide
range of anatomic sites, and for nearly every clinical imaging
modality. Moreover, select CAD applications have already
become part of routine clinical practice. This talk will
address the current state of CAD research and provide insight on
specific CAD
techniques.
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