Program is avaliable (revised on 11/30/2011 - The University of ...

richessewoozyΒιοτεχνολογία

1 Οκτ 2013 (πριν από 3 χρόνια και 9 μήνες)

139 εμφανίσεις






Sheraton Gunter Hotel



Program

(update 12/1
)







December
4,
2011


Tutorial Session

Chair
: Dr.
Jianhua Ruan
, University of Texas at San Antonio

Room: Alamo


1.


Systems Biology
in Epigenetic Regulation

Presenter:


Dr. Yunlong Liu,
Assistant professor, Department of

Medical and Molecular Genetics,
Indiana University School of Medicine

Dr. Kun Huang
,
Associate professor, Department of
Biomedical Informatics, the Ohio State
University


Time:

1:00 p
m to 3:0
0 p
m


3:00 pm to 3:3
0 pm

Break


2
.

Ion Torrent


Open, Accessible, and Enabling

Presenter:

Matt Dyer,
Ph.D. Ion Torrent, Sr. Product Manager, Bioinformatics & Community





Time:

3:30 p
m to 5:3
0 p
m

6:00 pm to 8
:00 pm

Reception

at
Biga on the Banks






December
5,
2011


Plenary Talks


Room: Alamo

7:50 am

Opening remark

8:00 am to 8:45

am

Plenary talk 1

Chair:

Dr. Yidong Chen

Personalizing Cancer Medicine: Bioinformatics and the Omic Revolution

Dr. John N. Weinstein

Professor and Chair, Department of Bioinformatics and Computational Biology, Division of
Quantitative Sciences, The University of Texas MD Anderson Cancer Center


8:45 am to 9:30 am

Plenary talk 2

Chair:

Dr. Fuli Yu

Unstable DNA and Human Disease:
Fragile X syndrome and FXTAS

Dr.
David Nelson

Professor, Department of Molecular and Human Genetics
,

Baylor College of Medicine

9:30 am to 9:50 am

Break & posters

9:50 am to 10:35

am

Plenary talk 3

Chair:

Dr.
Kun Huang

Integrative Analyses of Methylome
, Cistrome, and Chromatin Interactome

Dr.
Tim Huang

Professor

and Chair
, Department of Molecular
Medicine

Deputy Director, CTRC

University of Texas Health Science Center at San Antonio




Main Sessions

S
ession: 1


Next
Generation Sequencing for Epigenetic Research

Chair
s
:

Dr. Yunlong Liu,
Assistant professor, Department of

Medical and Molecular Genetics,
Indiana University School of Medicine

Dr. Kun Huang
,
Associate professor, Department of Biomedical Informatics, the
Ohio State University

Tim
e
: 10:40

am to 12:0
0 am

Room: Alamo

1.

A Scalable, Flexible Workflow for MethylCap
-
Seq Data Analysis

Benjamin Rodriguez
1
, Hok
-
Hei Tam
1
, David Frankhouser
1
, Michael Trimarchi
1
, Mark Murphy
1
,Chris Kuo
1
,
Deval Parikh
1
, Bryan
Ball
1
,
Sebastian Schwind
1
, John Curfman
1
, William Blum
1
, Guido Marcucci
1
, Pearlly Yan
1
,
Ralf Bundschuh
2

1.

The

Ohio State University Comprehensive Cancer Center Columbus, Ohio, USA,

2.

Departments of Physics and Biochemistry, Center for RNA Biology, The Ohio State University Columbus, Ohio, USA.


2.

An ERα/Modulator Regulatory Network in the Breast Cancer Cells

Heng
-
Yi Wu
1
, Yu Wang
1
, P. Zheng
1
, G. Jiang
1
,
Yunlong Liu
1
,
Kenneth P. Nephew
2
,
Ti
m H. M. Huang
3
,
Lang Li
4

1.
Center for Computational Biology and Bioinformatics Indiana University Indianapolis, Indiana USA

2.
Medical Sciences, School of Medicine Indiana University Bloomington, Indiana USA

3.
Department of Molecular Virology, Immunology, a
nd Medical Genetics The Ohio State University Columbus, Ohio USA

4.
Department of Medical and Molecular Genetics Indiana University Indianapolis, Indiana USA.


3.

Empirical Bayes Model Comparisons for Differential Methylation Analysis

Mingxiang Teng
1
, Yadong

Wang
1
,
Curt Balch
2
, Kenneth P. Nephew
2
,

Yunlong Liu
3
,

Lang Li
4
,
Seongho Kim
5

1.
School of Computer Science and Technology Harbin Institute of Technology Harbin, Heilongjiang, China

2.
Medical Sciences Indiana University Bloomington, Indiana, USA

3.
Department

of Medicine, Indiana University Indianapolis, Indiana, USA

4.
Department of Medical and Molecu
-
lar Genetic, Indiana University Indianapolis, Indiana, USA

5.
Department of Bioinformatics and Biostatistics University of Louisville
,

Louisville, Kentucky, USA.

4.

Chromatin signature analysis and prediction of genome
-
wide novel promoters using finite mixture model

Cenny Taslim
1
, Shili Lin
1
, Kun Huang
2
, Tim Huang
3

1
.
Department of StatisticsColumbus, OH 43210, USA
.

2
.
Department of Biomedical Informatics
,
Columbus, OH
43210, USA.

3
.
Department of Molecular Virology, Immunology and Medical GeneticsColumbus, OH 43210, USA.



S
ession:
2





Gene Regulation
Network

I









Chair:

Dr.
Erchin Serpedin,
Texas A&M University


Time: 9:50 am to 11:50 am

Room:

Baker

1.

Uncertainty
-
based Essentiality in Gene Regulatory Networks

Xiaoning Qian
1
, Byung
-
Jun Yoon
2
and Edward R. Dougherty
2,3,4
,

1
.

Dept. of Computer Science & Engineering, University of South Florida, Tampa, FL 33620


2
.

Dept. of Electrical & Computer Engineering,

Texas A&M University, College Station, TX 77843

3
.

Computational Biology Division, Translational Genomics Research Institute, Phoenix, AZ 85004

4
.
Dept. of Bioinformatics and Computational Biology
, University

of Texas M. D. Anderson Cancer Center, Houston, TX 77030


2.

The effect of certain Boolean functions in stability of networks with varying topology

Vitor H. P. Louzada
1
,
Ronaldo F. Hashimoto
1
,
Fabr´ıcio M. Lopes
y
2
.


1
.
Institute

of Mathematics and Statistics of the University of S˜ao Paulo, Brazil

2
.
Federal University of Technology
-

Paran´a, Brazil


3.

A Cubature Kalman Filter Approach for Inferring Gene Regulatory Networks Using Time Series Data

Amina Noor
1
, Erchin Serpedin
1
,
Mohamed Nounou
2
and Hazem Nounou
2

1
.
Department of Electrical and Computer EngineeringTexas A&M University, College Station, Texas 77843.

2
.

Texas A&M University at Qatar, Doha, Qatar 23874
.


4.

A novel critical time analysis approach for Genetic Regulatory Net
works

Sonal Bhattacharya, Ranadip Pal

Electrical and Computer Engineeirng Department, Texas Tech University, Lubbock, TX, USA


1:20 pm to 2:00 pm

Round Table with funding agencies

Room: Alamo

Dr. Ray Jacobson

Scientific Review Officer

Bioengineering
Sciences and Technologies

Center for Scientific Review

National Institutes of Health




Session:
3





Computational Methods for Therapeutic


Chair:
Dr.
Ronaldo F. Hashimoto
, University of S
ao Paulo

Time 2:00 pm to 4:00 pm

Room: Alamo








1.

Efficient
Combinatorial Drug Optimization Through Stochastic Search

Mansuck Kim,

Byung
-
Jun Yoon

Department of Electrical and Computer Engineering Texas A&M University
.


2.

A novel approach for tumor sensitivity prediction and combination therapy design for targeted
drugs

Noah Berlow
,
Ranadip Pal
.

Texas Tech UniversityLubbock, TX, 79409, USA
.



3.

Modeling Cyclic and Acyclic Therapeutic Methods with Persistent Intervention Effect i
n Probabilistic Boolean
Networks

Mohammadmahdi R. Yousefi
1
, Aniruddha Datta
1
,
Edward R.
Dougherty
1,2,3

1
.
Dept. of Electrical and Computer Engineering, Texas A&M University, College Station, TX, USA
.

2
.
Comp. Biology Division, Translational Genomics Research Institute, Phoenix, AZ, USA
.

3
.
Dept. of Bioinf. and Comp. Biology, University of Texas
M. D. Anderson Cancer Center, Houston, TX, USA
.


4.

Predicting Drug Efficacy Based on the Integrated Breast Cancer Pathway Model


Hui Huang
1
, Xiaogang Wu
1
,

Sara Ibrahim
2

, Marianne McKenzie
3
,
Jake Y. Chen
4

1
.
School of Informatics, Indiana University
.

2
.

School of Medicine Indiana University
.

3
.

School of Science Purdue University.

4
.

School of Informatics Indiana University
.


5.

Identifying Genes Associated with Chemotherapy Response in Ovarian Carcinomas Based on DNA Copy Number
and Expression Profiles

Fang
-
Han Hsu
1
, Erchin Serpedin
1
, Tzu
-
Hung Hsiao
3
, Alexander J.R. Bishop
3
,
4
,Edward R. Dougherty
1
,
2
,Yidong Chen
3
,
5


1
.
Department of Electrical and Computer Engineering, Texas A&M University, College Station, TX
.

2
.
Computational

Biology Division, Translational Genomics Research Institute, Phoenix, AZ
.

3
.
Greehey Child
ren’s Cancer Research Institute.

4
.
Department of Cellular and Structural Biology
.

5
.
Department of Epidemiology and Biostatistics, University of Texas Health Science C
enter at San Antonio, San Antonio, TX
.


6.

Assessing the Efficacy of Molecularly Targeted Agents by Using Kalman Filter

Xiangfang (Lindsey) Li, Lijun Qian, Michael L. Bittner, and Edward R. Dougherty




Session: 4




Gene Regulation Network II

Chair:
Dr.
Nevenka Dimitrova
,
Philips Research

Time 2:00 pm to 4:00 pm

Room:
Baker









1.

Probabilistic consistency transformation for multiple alignment of biological networks

Sayed Mohammad Ebrahim Sahraeian, Byung
-
Jun Yoon

Department of Electrical & Computer
EngineeringTexas A&M University, College Station, TX 77843
-
3128, USA.


2.

Attractor Estimation and Model Refinement for Stochastic Regulatory Network Models

Jason Knight
1,
Edward Dougherty
1,

2

1
.

Dept. of Electrical and Computer Engineering, Texas A&M Univers
ity College Station, Texas 77843 USA

2
.

Computational Biology Division, Translational Genomics Research Institute,Phoenix, Arizona 85004 USA
.


3.

Steady state probability approximation applied to stochastic model of biological network

Md. Shahriar Karim, David M. Umulis and Gregery T. Buzzard
.


4.

Identification of biomarkers in breast cancer metastasis by integrating protein
-
protein interaction network
and gene expression data

Md Jamiul Jahid, Jianhua Ruan

Department of Computer Science
The University of Texas at San AntonioSan Antonio, USA



5.

Pathway Analysis in the Context of Bayesian Networks
-

Mathematical Modeling of Master and Canalizing
Genes
Chen Zhao
1
,
2
, Ivan Ivanov
3
, Michael L. Bittner
2
, Edward R.Dougherty
1
,
2
,
4

1
.
Dept. of
Electrical and Computer Engineering, Texas A&M University, College Station, TX, USA
.

2
.
Computational Biology Division, Translational Genomics Research Institute, Phoenix, AZ, USA
.

3
.
Dept. of Veterinary Physiology and Pharmacology, Texas A&M University, Col
lege Station, TX, USA
.

4
.
Dept. of Bioinformatics and Computational Biology, University of Texas M. D. Anderson Cancer Center, Houston, TX, USA
.



6.

Gene Network Inference via Sparse Structural Equation Modeling with Genetic Perturbations

Xiaodong Cai
1
,
Juan
Andr´es Bazerque
2
, Georgios B. Giannakis
2
.

1
.
Dept. of ECE, Univ. of MiamiCoral Gables, FL 33146, USA
.

2
.
Dept. of ECE, Univ. of Minnesota, Minneapolis, MN 55455, USA
.


4:00 pm to 4:20 pm

Break & posters


Session:
5





Data Integration




Chair:

Dr. Xiaoning Qian,
University of South Florida




Time 4:20

pm to 6:20 pm

Room: Alamo


1.

Improvement of GNs inference through biological data integration

F´abio Fernandes da Rocha Vicente
1
;
2
, Fabr´ıcio M. Lopes
1
,
Ronaldo F. Hashimoto
2

1
.

Federal University of Technology
-

Paran´a, Brazil

2
.

Institute of Mathematics and Statistics, University of S˜ao Paulo, Brazil


2.

Multisource Biological Pathway Consolidation

Mark S. Doderer
1
, Zachry Anguiano
1
, Uthra Suresh
1
, Ravi Dashnamoorthy
1
, Alexander

J.R. Bishop
1, 2, 4
, and Yidong Chen
1, 3, 4

1
.
Greehey Children’s Cancer Research Institute.

2
.
Department of Cellular and Structural Biology.

3
.

Department of Epidemiology and Biostatistics, and

4
.
Cancer Therapy & Research Center,

The University of Texas Health Science Center at San Antonio San Antonio, USA
.



3.

A Method For Finding Novel Associations Between Genome
-
Wide Copy Number And DNA Methylation Patterns

Man
-
Hung Eric Tang
1
, Vinay Varadan
2
, Sid Kamalakaran
2
, Michael Q. Zhang
3

,
Nevenka Dimitrova
2
, James Hicks
1


1
.

Cold Spring Harbor Laboratory, 1 Bungtown Rd, NY 12724, USA

2
.

Philips Research North America, 345 Scarborough Rd, Briarcliff Manor, NY 10510, USA

3
.

The University of Texas at Dallas, Richardson TX 75080, USA and
Tsinghua University, Beijing, 100084 China
.


4.

Stochastic Modeling of Dynamic Effects of Copy Number Alterations upon Gene Expression Levels

Fang
-
Han Hsu
1
, Erchin Serpedin
1
, Yidong Chen
2
,
3
, and Edward R. Dougherty
1, 4

1
.

Department of Electrical and Computer Engineering, Texas A&M University, College Station, TX.

2
.

Department of Epidemiology and Biostatistics, University of Texas Health Science Center at San Antonio, San Antonio, TX.

3
.

Greehey

Children’s Cancer Research Institute, University of Texas Health Science Center at San Antonio, San Antonio, TX.

4
.

Computational Biology Division, Translational Genomics Research Institute, Phoenix, AZ.


5.

Efficient Cancer Therapy using Boolean Networks an
d Max
-
SAT
-
based ATPG

Pey
-
Chang Kent Lin, Sunil P. Khatri

Department of ECE, Texas A&M University, College Station TX 77843


6.

Designing Enhanced Classifiers Using Prior Process Knowledge: Regularized Maximum
-
Likelihood

Mohammad Shahrokh Esfahani
1
, Amin

Zollanvari
2
, Byung
-
Jun Yoon
1
, and Edward R. Dougherty
1
,
3

1
.
Department of Electrical and Computer Engineering, Texas A&M University.

2
.

Childrens Hospital Informatics Program at Harvard
-
MIT Division of Health Sciences and Technology, Harvard Medical School
,
Brigham and Womens Hospital.

3
.

Computational Biology Division, Translational Genomics Research Institute (TGen), Phoenix, Arizona, USA
.



Session:
6





Proteomics data processing




Chair
s
:

Dr. Ulisses Braga
-
Neto,
Texas A&M University

Dr. Jianqiu

(Michelle)

Zhang,
University of Texas at San Antonio






Time 4:20

pm to 6:20 pm

Room:

Baker



1.

Finding Effective Subnetwork Markers for Cancer by Passing Messages

Byung
-
Jun Yoon

Department of Electrical and Computer Engineering Texas A&M University,
College Station, TX
.


2.

Application of Survival Analysis Methodology to the Quantitative Analysis of LC
-
MS Proteomics Data

Carmen D. Tekwe, Alan R. Dabney, Raymond J. Carroll

Department of Statistics Texas A & M University College Station, TX 77843
-
3143


3.

Map
ping of International Protein Index to Affymetrix Probe
-
Set Identifier for Correlating Genomics and
Proteomics Expression Profiles in Multiple Myeloma

Shweta S. Chavan

1,2
, John D. Shaughnessy Jr.
1
, Bart Barlogie
1
, Ricky D. Edmondson
1

1
.
Myeloma

Institute for Research and Therapy, University of Arkansas Medical Sciences (UAMS), 4301 W. Markham Street,
Slot#776, Little Rock, AR 72205, USA.

2
.

University of Arkansas Little Rock

UAMS Joint Bioinformatics Program, 2801 S. University Avenue, Little R
ock, AR 72204, USA.


4.

Multiple Reaction Monitoring: Modeling and Systematic Analysis

Esmaeil Atashpaz
-
Gargari
1
, Ulisses M. Braga
-
Neto
1
, and Edward R. Dougherty
1
;
2
;
3

1
.

Dept. of Electrical and Computer Engineering, Texas A&M University.

2
.

Computational Biol
ogy Division, Translational Genomics Research Institute, Phoenix, AZ.

3
.

Dept. of Bioinformatics and Computational Biology, University of Texas M. D. Anderson Cancer Center, Houston, TX.


5.

Joint Corresponding Feature Identification and Alignment for Multipl
e LC/MS Replicates

Jian Cui, Xuepo Ma, Jianqiu(Michelle) Zhang

Department of Electrical and Computer Engineering University of Texas at san Antonio San Antonio, Texas 78249
.



6.

Modeling and systematic analysis of LC
-
MS proteomics pipeline

Youting Sun
1
,
Ulisses Braga
-
Neto
1
, Edward R. Dougherty
1
;
2
;
3

1
.

Department of Electrical and Computer Engineering, Texas A&M University, College Station, TX.

2
.

Computational Biology Division, Translational Genomics Research Institution, Phoenix, AZ.

3
.

Department of Bio
informatics and Computational Biology, University of Texas M.D. Anderson Cancer Center, Houston, TX







Session: 7




Next Generation
Sequencing Data

analysis

and Application

Chair:
Dr.
Yidong Chen
,
University of Texas Health Science Center at San Antonio

Time 4:20 pm to 6
:00 pm


Room:
Mahncke

1.

Enabling Atlas2 Personal Genome Analysis on the Cloud

Uday S. Evani
1,4
, Danny Challis
1
, Jin Yu
1
, Andrew R. Jackson
2,3
, Sameer Paithankar
2,3
, Matthew N. Bainbridge
1
, Cristian Coar
-
fa
2,3
,
Aleksandar Milosavljevic
2,3,4
,
Fuli Yu
1,3,4

1.

The Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA.

2.
Bioinformatics Research Laboratory, Epigenome Center, Department of Molecular and Human Genetics.

3.

Department of Molecular and Human Genetics, Baylor College of Medicine, TX 77030, USA.

4.
Corresponding authors.


2.

A Sequential Monte Carlo Base
-
calling Method for next
-
generation DNA Sequencing

XiaohuShen and HarisVikalo

Department of Electrical and
Computer Engineering, University of Texas at Austin


3.

Comparative Copy Number Variation from Whole Genome Sequencing

Angel Janevski, VinayVaradan, SitharthanKamalakaran, Nilanjana Banerjee, Nevenka Dimitrova

Philips Research, 345 Scarborough Rd, Briarcliff
Manor, NY 10510
.


4.

Beyond Seed Match: Improving miRNA Target Prediction using PAR
-
CLIP Data

Mingzhu Lu
1
, C. L. Philip Chen
2
, Yufie Huang
1

1. Department of Electrical and Computer Engineering, The University of Texas at San Antonio, TX, USA.

2. Faculty
of Science of Technology, University of Macau, China.


5.

Put your NGS data to work: Creating Biological Contextualization with Agilent’s Next
-
Gen Sequencing Analysis
Software

Dipanwita Roy Choudhury


Agilent


7:0
0 pm to 9:00 pm

Banquet

at
Mi Tierra


December 6, 2011


Plenary Talks


Room: Alamo

8:00 am to 8:45

am

Plenary talk 4

Chair:

Dr. Fuli Yu

Selectionism vs. neutralism in the evolution of cells of
hepatocelluar carcinoma

Dr. Chung
-
I Wu

Professor and Director, Beijing Institute of Genomics, Chinese Academy of Science.

Department of Ecology and Evolution

University of Chicago


8:45 am to 9:30 am

Plenary talk 5

Chair:

Dr.
Yufei Huang

Systems Pharmacology Strategies for Faster
-
to
-
Market

Drug
Development

Dr.
Stephen Wong

Senior Member, The Methodist Hospital Research Institute,
Department Chair, John S
Dunn,
Distinguished Endowed
Chair in Biomedical Engineering,
Department of
Syste
ms Medicine and Bioengineering ,
Associate Director of
Translational Re
search,
Methodist Cancer Center,
Professor of Radiolo
gy, Professor of Neuroscience,
Professor
of Pa
thology and Laboratory Medicine,
Weill Cornell Medical College of Cornell
University

9:30 am to 9:50 am

Break & posters







Main Sessions


Session: 8




Clustering and Classification Methods

Chair
: Dr. Ranadip Pal,
Texas
Tech

University

Time 9:50 am to 11:50 am

Room: Alamo


1.

Classifier Error Estimator Performance in a Bayesian Context

Lori Dalton
1
,
Edward R. Dougherty
1, 2, 3

1
.
Dept. of
Electrical and Computer Engineering, Texas A&M University, College Station, TX USA
.

2
.
Computational Biology Division, Translational Genomics Research Institute, Phoenix, AZ USA
.

3
.
Dept. of Bioinf. and Computational Biology, University of Texas M. D. Anders
on Cancer Center, Houston, TX USA
.


2.

Sample
-
Based Estimators for the Intrinsically Multivariate Prediction Score

Ting Chen, Ulisses Braga
-
Neto

Department of Electrical Engineering Texas A & M University College Station, Texas 77843


3.

Clustering Gene Expressi
on Data using Probabilistic Non
-
negative Matrix Factorization

Belhassen Bayar
1
,
Nidhal Bouaynaya
2
, Roman Shterenberg
3

1
.
Department of Electrical Engineering Ecole Nationale d’Ing´enieurs de Tunis, Tunisia.

2
.

Department of Systems Engineering University o
f Arkansas at Little Rock, USA.

3
.

Department of Mathematics University of Alabamaat Birmingham, USA
.


4.

Relationship between the accuracy of classifier error estimation and distribution complexity

Esmaeil Atashpaz
-
Gargari
1
, Chao Sima
2
, Ulisses M.
Braga
-
Neto
1
, and Edward R. Dougherty
1, 2, 3

1
.

Dept. of Electrical and Computer En
gineering, Texas A&M University.

2
.
Computational Biology Division, Translational Genomics Research Institute, Phoenix, AZ
.

3
.
Dept. of Bioinformatics and Computational Biology
, University of Texas M. D. Anderson Cancer Center, Houston, TX
.


5.

Geometrical Modification Of Wavelet SVM Kernels And Its Application In Microarray Analysis

Hong Cai , Yufeng Wang

Department of BiologyUniversity

of Texas at San Antonio, San Antonio, TX 78249, USA
.



6.

S
-
score : a Novel Scoring Method of Gene Signatures for Molecular Classification

Hung
-
I Harry Chen
1
, Tzu
-
Hung Hsiao
1
, Yidong Che
n
1, 2
, Charles Keller
3

1
.
Greehey Children’s Cancer Research Institute

2
.
Department of Epidemiology and Biostatistics,University of Texas Health Science Center at San Antonio, San Antonio, Texas

3
.

Pediatric Cancer Biology Program, Pap Papé Family Pediatric Research Institute Family Pediatric Research Institute,Department

of Pe
diatrics, Oregon Health and Science University, Portland, Oregon
.



Session:
9



MicroRNA,
Gene Networks,
Next
-
Generation Sequencing Methods


Chair:
Dr.
Byung
-
Jun Yoon

,
Texas A&M University

Time 9:50 am to 11:50 am

Room:

Baker












1.

Computational Prediction of microRNA Regulatory Pathways

Dong Yue
1
, Yidong Chen
2
, Shou
-
Jiang Gao
3
, Yufei Huang
1

1
.
Department of Electrical and Computer Engineering, Universit
y of Texas at San Antonio, U.S.

2
.
Greehey

Children’s Cancer Research Institute, University of Texas Health Science Center at San Antonio, U.S.

3.
Departments of Molecular Microbiology and Immunology, Keck School of Medicine, University of Southern California
, U.S.


2.

Inference of a Genetic Regulato
ry Network model from limited time series data

SaadHaider
,
Ranadip Pal

Texas Tech University
,
Lubbock, TX, 79409, USA
.


3.

Modelling Oxidative Stress Response Pathways

Sriram Sridharan
1
, Ritwik Layek
1
, Aniruddha Datta
1
, Jijayanagaram Venkatraj
2

1
.

Texas A &

M University, Electrical and Computer Engineering, College Station, TX, 77843
-
3128, USA.

2
.

Texas A & M University, Vet Integrative Biosciences, College Station, TX, 77843
-
4458, USA.


4.

Clustering DNA methylation expressions using nonparametric beta mixture

model

Lin Zhang
1
, Jia Meng
2
, Hui Liu
1
,
Yufei Huang
1

1.
School of Information and Electrical Engineering,

China University of Mining and Technology

2.
Department of Electrical and Computer Engineering, University of Texas at San Antonio, U.S.



5.

A Novel Approach for Alignments Output Storage Problem Facing Clinical Scenarios

Yiqi Lu
1
,
Yaoliang Chen
2
,

Fuli Yu
3
,
Yanghua Xiao
4
,
Danfeng Xu
5

1.
School of Computer Science, Fudan Unive
rsity Shanghai 200433, PR China.

2.
School of Computer Science, Fudan Unive
rsity Shanghai 200433, PR China.

3.
The Human Genome Sequencing Center, Baylor College of
Medicine, Houston, TX 77030 USA.

4.
School of Computer Science, Fudan Unive
rsity Shanghai 200433, PR China. (
Corresponding Author
)

5.
School of Computer Science, Fudan University Shanghai 200433, PR China.

6.

Personal Genome Privacy Protection with Feature
-
based Hierarchical Dual
-
stage Encrypti
ons

Xukai Zou
1
, Peng Liu
2
, Jake Y. Chen
3

1
.

Department of Computer & Information Science
,
Purdue University Indianapolis, IN 46202, USA.

2
.

College of Information Science and Technology Penn State University, University Park, PA 16802, USA.

3
.

School of I
nformatics Indiana University Indianapolis, IN 46202, USA
.


Session:
10






ISIMB 2011










Chair
s
:

Dr. Yufang Jin,
U
n
iversityof Texas
at San Antoni

Time 9:50 am to 11:50 am


Room:

Mahncke



1.

ECF sigma factor
-
associated regulatory networks in
Streptomyces colicolor A3(2)

Zhan Zhou
1, 2
, Qi Li
1
, Julie Tudyk
1
, Yong
-
Quan Li
2

and Yufeng Wang
1, 3

1
.

Department of Biology, University of Texas at San Antonio, San Antonio, TX 78249, USA.

2
.

College of Life Sciences, Zhejiang University, Hangzhou 310058,

P. R. China.

3
.

South Texas Center for Emerging Infectious Diseases, University of Texas at San Antonio, San Antonio, TX 78249, USA.


2.

Transcriptomic analysis using svd clustering and svm classification

Hong Cai , Yufeng Wang

Department of
BiologyUniversity of Texas at San Antonio, San Antonio, TX 78249, USA


3.

A Compton scattering suppression based Image reconstruction method for digital brest tomosynthesis

Shiyu Xu
1

and Ying Chen
1
,2

1.

Department of Electrical and Computer Engineering, South
ern Illinois University, Carbondale, IL 62901.

2.
Biomedical Engineering Graduate Program,Southern Illinois University.




4.

Effects of slice thickness filter in filtered backprojection reconstruction with parallel breast tomosynthesis
imaging configuration

Linlin Cong
1
, Weihua Zhou
2,
Ying Chen
1
,2

1
.

Biomedical Engineering Graduate Program,Southern Illinois University.

2
.

Department of Electrical and Computer Engineering, Southern Illinois University, Carbondale, IL 62901.



5.

Targeting myocardial infarction
-
sp
ecific protein interactions using computational analyses

Nguyen Nguyen
1
, Xiaolin Zhang
1
,Yunji Wang
1
, Hai
-
Chao Han
1
, Yufang Jin
1
, Galen Schmidt
2
, Richard A. Lange
3
, Robert J. Chilton
3
,
Merry Lindsey
3

1
.

Dept. of ECE University of Texas at San Antonio San Antonio, TX 78249, USA.

2
.

Dept. of ECE Rice University Houston, TX 77005, USA
.

3
.

Dept. of Medicine University of Texas Health Science Center at San Antonio San Antonio, TX 78229, USA
.



6.

Mathematical
modeling of macrophage activation in left ventricular remodeling post
-
myocardial infarction

Yunji
Wang
1
, Yufang Jin
1
, Yonggang Ma
2
, Ganesh V Halade
2
, Merry L. Linsey
2

1
.
Department

of Electrical and Computer Engineering, University of Texas at San Antonio San Antonio, Texas 78249, USA.

2
.

Department of Medicine
-
Cardiology University of Texas Health Science Center at San Antonio San Antonio, TX 78229, USA




1:30 pm to 5:3
0 pm

UTSA D
owntown Campus

Buena Vista St. Bldg 3.328

Hands
-
on workshop on next Gen
-
sequencing

Data Analysis

By Texas Advanced Computing Center