Tutorial 1: DNA Forensics (Bingham 103)

Tutorial 2: Computational Regulatory Genomics (Wolstein Auditorium)

Tutorial 3: Introduction to Bioinformatics (Wolstein Auditorium)

Tutorial 4: Medical Image Analysis (Bingham 103)

Tutorial 5: Overview of and Statistical Analysis of "-omic" Data (Schmidt Lecture Hall)

Session 2
c. Massively Parallel Sequencing
Organizers: Kun Huang (OSU) and Tea Meulia (OARDC) (Wolstein Auditorium)
1. Hatice Gulcin Ozer, Terry Camerlengo, Tao Zuo, Tim Huang and Kun Huang. A New Method for Mapping Short DNA Sequencing Reads by Using Quality Scores
2. Xin Wang, Mingxiang Teng, Guohua Wang, Yuming Zhao, Weixing Feng, Lang Li, Jeremy Sanford and Yunlong Liu. xIP-seq platform: an integrative framework for high-throughput sequencing data analysis
3. Terry Camerlengo, Haltice Gulcin Ozer, Guojuan Zhang, Tarek Joobeur, Tea Meulia, Joanne Trgovcich and Kun Huang. Computational challenges and solutions to the analysis of microRNA profiles in virally-infected cells derived by massively parallel sequencing
4. Xiaodong Bai and Parwinder Grewal. TIGERA: A new Tool for Illumina Gene Expression Reads Analysis

d. RNA: Master Regulator of the Genome
Organizers: Neocles Leontis (BGSU) and Alexei Fedorov (UT) (Ford Auditorium - Allen Library)
1. Anton I. Petrov, Jesse Stombaugh, Craig L. Zirbel and Neocles B. Leontis. IsoDiscrepancy Matrices for Non-Watson-Crick Basepairs: Tools for RNA Structural Bioinformatics
2. William Ray, Hatice Ozer, David Armbruster and Charles Daniels. Beyond identity - When classical homology searching fails, Why, and What you can do about it
3. Robert Forties and Ralf Bundschuh. Modeling nucleic acid structure in the presence of single-stranded binding proteins
4. Prakash et al. Computation of putative targets for human and mouse snoRNAs responsible for Prader-Willy Syndrome.

Session 3
e. Regulatory Genomics
Organizers: Lonnie Welch (OU) and Erich Grotewold (OSU) (Allen Library)
1. Alper Yilmaz and Erich Grotewold. Discovery of regulatory networks in plants by linking promoter and transcription factor databases
2. Jens Lichtenberg and Lonnie Welch. Construction of Regulatory Encyclopedias of Genomes: Strategies and Case Studies
3. Jeffrey D. Parvin, Zeina Kais, Mansi Arora, Shweta Kotian, Alicia Zha, Derek Ransburgh, Doruk Bozdag, Umit Catalyurek, and Kun Huang. Identification of a breast cancer associated regulatory network

f. Sequence Analysis
Session Chair: Michael Raymer (Wolstein Auditorium)
1. Xiangjia Min, Gregory Butler, Reginald Storms and Adrian Tsang. Comparative Assessment of DNA Assemblers for Assembling Expressed Sequence Tags
2. Amanda Hanes, Michael Raymer, Travis Doom and Dan Krane. A comparison of codon usage trends in prokaryotes
3. Shannon Steinfadt and Kevin Schaffer. Parallel Approaches for SWAMP Sequence Alignment

Session 4
g. Evolution of Genomes and Origins of Species
Organizers: Dan Janies (OSU) and Helen Piontkivska (KSU) (Allen Library)
1. Mark D. Adams. The evolution of multidrug resistance in a hospital pathogen
2. Daniel Janies, Travis Treseder, Boyan Alexandrov, Farhat Habib, Jennifer Chen, Renato Ferreira, mit atalyrek, Andrs Varn and Ward Wheeler. The Supramap project: tracing the spread of pathogens over time, space, and various hosts
3. Paul Morris, Alexandra Schmucker and Nicole Vanduzen. Computational prediction of the oomycete interactome
4. Helen Piontkivska and Sinu Paul. HIV evolution: fast or slow?

h. Bioimaging
Organizers: Jundong Liu (OU), David Wilson (CWRU) and Metin Gurcan (OSU) (Wolstein Auditorium)
1. Jundong Liu. Automatic Multiple Sclerosis Detection based on L2E Measure
2. Metin Gurcan. Clinical Image Analysis
3. Don Stredney. Recent trends in Biomedical Visualization

Session 5:
i. Systems Biology and Networks
Session Chair: Rob Ewing (Ford Auditorium - Allen Library)
1. Kurtis Eisermann, Adina Brett, Anton Bazarov, Helen Piontkivska and Gail Fraizer. Uncovering androgen responsive regulatory networks in prostate cancer
2. Xin Li, Sinan Erten, Gurkan Bebek, Mehmet Koyuturk and Jing Li. Comparative Analysis of Modularity in Biological Systems
3. K.J. Abraham, Katrin sameith and Francesco falciani. Improving Functional Module Detection

j. Ohio student chapter of the International Society of Computational Biology (ISCB) Session
Session Chair: Jens Lichtenberg (Wolstein Auditorium)
1. Jens Lichtenberg, Ohio University. Regulatory Genomic Signatures
2. Vivek Kaimal, University of Cincinnatti. Microregulation of biological pathways and networks
3. Praveen Kumar Raj Kumar, Miami University. Bioinformatic analyses of alternative splicing in Chlamydomonas reinharditii
4. Vishal Patel, Case Western Reserve University. Molecular Synergy Between Cancer Driver Genes Revealed in Protein-Protein Interaction Networks
5. Anton Petrov, Bowling Green State University. Building a Comprehensive Collection of RNA 3D Motifs
6. Van Anh Tran, Case Western Reserve University. Formal Concept Analysis in assessing genetic ancestry
7. Zidian Xie, The Ohio Sate University. Genome-wide identification of FLP/MYB88 putative direct targets in Arabidopsis
8. Yali Li, Case Western Reserve University. Detecting Association with Rare Genetic Variants in Common Diseases
9. Gokhan Yavas, Case Western Reserve University. Copy Number Variant Identification using Objective Function Optimization
10. Jessica Bates, University of Akron. Identification of nectar yeasts in Claytonia virginica using molecular approaches

Session 6:
k. Applications of Bioinformatics
Session Chair: GQ Zhang (Ford Auditorium - Allen Library)
1. Esley Heizer, Doug Raiford, Dan Krane and Michael Raymer. Perceived Cost of Auxotrophic Amino Acids in Two Bacterial Species
2. I Jung Feng and Tomas Radivoyevitch. SNP-SNP interactions between dNTP supply enzymes and mismatch DNA repair in breast cancer
3. GQ Zhang and Remo Mueller, Case Western Reserve University. A Scalable Parametric-RBAC Architecture for the Propagation of a Multi-Modality, Multi-Resource Informatics System

l. Transcriptomics
Session Chair: Jing Li (Wolstein Auditorium)
1. Sadik Khuder and Peter Bazeley. Quantile scores for combining results from different microarray platforms.
2. Erik Boczko, Todd Young, Minhui Xie and Di Wu. Comparison of Binary Classification Based on Signed Distance Functions with Support Vector Machines