2014 ACM International Workshop on Big Data in Life Sciences (BigLS'14)http://www.bigls.org
Saturday, September 20, 2014 (Location: Salon 3) Held in conjunction with the ACM BCB'14 conference, Newport Beach, CA
Jaroslaw Zola, Assistant Professor, Dept. Computer Science and Engineering, SUNY Buffalo
Ananth Kalyanaraman, Associate Professor, School of Elect. Eng. And Computer Science, Washington State University
8:45am - 10:30am SESSION I: INVITED TALKS
8:45am-9am: Opening remarks
Jaroslaw Zola and Ananth Kalyanaraman
9am-9:45am: invited paper
"Feature subset selection for inferring relative importance of taxonomy"
Gregory Ditzler and Gail Rosen
9:45am-10:30am: invited talk
"Promises and challenges in analysis of biological big data"
Jason McDermott, Pacific Northwest National Laboratory
10:30am-11am Coffee break
11am - 12:30pm SESSION II: KEYNOTE ADDDRESS
"Quantifying Your Superorganism Body Using Big Data Supercomputing"
Founding Director of Calit2,
Harry E. Gruber Professor in Computer Science and Engineering,
University of California, San Diego, CA
2pm-3:30pm SESSION III: PEER REVIEWED PAPERS
"Big Data challenges for estimating genome assembler quality"
Abhishek Biswas, David Gauthier, Desh Ranjan, Mohammad Zubair
"RNA-Seq gene and transcript expression analysis using the BioExtract Server and iPlant Collaborative"
Etienne Gnimpieba, Chango Abalo, Carol M. Lushbough
"AlignMR: Mass spectrometry peak alignment using Hadoop MapReduce"
Urmi Bhayani and John Springer
3:30pm-5pm SESSION IV: STUDENT POSTERS AND STUDENT MENTORING SESSION
3:30pm-4pm Student poster presentations
4pm-5pm: Mentoring interaction with faculty/researchers and students. Coffee/refreshments will be available between 4-4:30pm. List of poster presenters to be announced after student travel scholarships have been awarded. Please look for updates on the BigLS workshop webpage: http://www.bigls.org
3rd International Workshop on
Parallel and Cloud-based Bioinformatics and Biomedicine (ParBio 2014)
Saturday September 20, 2014
2:00pm - 4:00pm
Location: Salon 1&2
Mario Cannataro, University Magna Graecia of Catanzaro, Italy and
John A. Springer, Purdue University, USA
2:00 - 2:10 - Opening Remarks, Mario Cannataro and John A. Springer
2:10 - 2:35 - Automatic Biosystems Comparison Using Semantic and Name Similarity, Mathialakan, Thavappiragasam, Carol M. Lushbough, Etienne Z. Gnimpieba - (Presenter: Mathialakan Thavappiragasam, University of South Dakota, USA)
2:35 - 3:00 - Pheno2GRN: a workflow for phenotype to gene network studies and reverse engineering comparison, Nick Weinandt, Etienne Z. Gnimpieba, Laura Jackson, Carol Lushbough - (Presenter: Laura Jackson, University of South Dakota, USA)
3:00 - 3:25 - A taxonomy for bioinformatics tools: exploiting semantics, parallelism, and services for analyzing omics data, Mario Cannataro, Pietro Hiram Guzzi - (Presenter: Mario Cannataro, University Magna Graecia of Catanzaro, Italy)
3:25 - 3:50 - A system for ubiquitous distributed acquisition of voice alteration samples through a mobile application, Pietro Cinaglia, Manuela Macri, Barbara Calabrese, Patrizia Vizza, Giuseppe Tradigo, Pierangelo Veltri - (Presenter: Pierangelo Veltri, University Magna Graecia of Catanzaro, Italy)
3:50 - 4:00 - Closing Remarks, Mario Cannataro and John A. Springer
Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC)Saturday September 20, 2014
9:20am - 4:40pm
Location: Salon 5
Dr. Byung-Jun Yoon, Department of Electrical and Computer Engineering
Texas A&M University
Dr. Xiaoning Qian, Department of Electrical and Computer Engineering
Texas A&M University
09:20-09:30 Opening Remarks
09:30-10:30 Invited Keynote Talk by Dr. Fengzhu Sun
10:30-11:30 Highlight Talks
11:30-13:00 Lunch Break
13:00-14:00 Invited Tutorial by Dr. Lori Dalton
14:00-14:20 Five-Minute Lightning Talks for Posters
14:20-15:30 Poster Presentations & Coffee Break
15:30-16:30 Paper Presentations
16:30-16:40 Closing Remarks
ICIW 2014: the Fifth Immunoinformatics and Computational Immunology WorkshopSaturday September 20, 2014
9:20am - 4:40pm
Vasant Honavar (Penn State University, PA, USA)
Guanglan Zhang (Boston University, MA, USA) - contact Guanglan for matters related to submissions
Lou Chitkushev (Boston University, MA, USA)
Vladimir Brusic (Dana-Farber Cancer Institute, Harvard Medical School, USA)
8:30-9:30AM Invited keynote talk by Dr. Christian Schoenbach
Bridging the gaps between prediction of T-cell epitopes and what impacts immunity.
9:30-10:30AM Session I (Paper Presentations)
10:30-11:00AM Morning break
11:00AM-12:30PM Session II (Paper & Poster Presentations)
2:00-2:30PM Session III (Poster Presentations)
2:30-4:00PM Session IV (Tutorial: bring your laptop for hands-on exercises!)
CSBW 2014 - The 7th Computational Structural Bioinformatics Workshophttp://www.cs.odu.edu/~lchen/CSBW.htm
Saturday, September 20, 2014 (Location: Salon 4)
8:30am - 12:30pm
Held in conjunction with the ACM BCB'14 conference, Newport Beach, CA
Organizers: Jing He, Amarda Shehu, Nurit Haspel, and Brian Chen
8:30-8:40: Opening remarks (Jing He)
Session 1 (session chair Nurit Haspel)
8:40-9:00 Orientations of β-strand Traces and Near Maximum Twist. Dong Si and Jing He.
9:00-9:20 A Computational Model for Data Acquisition in SAXS. Hui Dong and Gregory Chirikjian
9:20-9:40 Highlight talk - Nurit Haspel, University of Massachusetts at Boston
9:40-10:00 An Analysis of Conformational Changes upon RNA-Protein Binding. Kannan Sankar, Rasna R. Walia, Carla M. Mann, Robert L. Jernigan, Vasant G. Honavar, and Drena Dobbs.
10:00-10:20 Highlight Talk - Jianlin Cheng, University of Missouri
10:20-11:00: Break + poster session
Session 2 (session chair: Kamal Al Nasr)
11:00-11:20 Variational Bayesian Clustering on Protein Cavity Conformations for Detecting Influential Amino Acids. Ziyi Guo, and Brian Chen.
11:20-11:40 Construction of Protein Backbone Pieces Using Segment based FBCCD and Cryo-EM Skeleton. Kamal Al Nasr and Jing He.
11:40-12:00 Improving Decoy Databases for Protein Folding Algorithms. Aaron Lindsey, Hsin-Yi Yeh, Chih-Peng Wu, Shawna Thomas, and Nancy Amato
12:00-12:20 Highlight talk - Amarda Shehu, George Mason University
12:20 - 12:30 Concluding remarks (Amarda Shehu, Brian Chen)
8th International Workshop on Biomolecular Network Analysis (IWBNA)Saturday September 20, 2014
4:30pm - 6:00pm
Location: Salon 1&2
Organizers: Young-Rae Cho, Pietro H. Guzzi, and Pierangelo Veltri
4:30 4:45 Incremental Network Querying in Biological Networks. Md Mahmudul Hasan and Tamer Kahveci.
4:40 5:00 On the Impact of Data Integration and Edge Enrichment in Mining Significant Signals from Biological Networks. Sean West and Hesham Ali.
5:00 5:15 Evidence of post translational modification bias extracted from the tRNA and corresponding amino acid interplay across a set of diverse organisms. Oliver Bonham-Carter, Ishwor Thapa, and Dhundy Bastola.
5:15 5:30 Heuristic Parallelizable Algorithm for Similarity Based Biosystems Comparison. Mathialakan Thavappiragasam, Carol Lushbough, and Etienne Gnimpieba.
5:30 5:45 An R-based tool for miRNA data analysis and correlation with clinical ontologies. Francesca Cristiano and Pierangelo Veltri.
5:45 6:00 Closing Remark. Pierangelo Veltri
Deep Learning in Bio- and Health Informatics (DL 2014)Saturday, September 20, 2014
2:00 pm - 4:00 pm
Location: Salon 4
Organizer: Pierre Baldi, University of California, Irvine
2:00pm - 4:00pm
2:00-2:30 Deep Learning to Predict Chemical Properties and Reactions. Pierre Baldi.
2:30-3:00 Deep Learning for Protein Structure Prediction. Jianlin Cheng.
3:00-3:30 Applications of Deep Learning to Large-Scale Genomic Data. Xiaohui Xie.
3:30-4:00 A Multi-label Deep Belief Network for Predicting Multiple Diseases. Aidong Zhang and Hui Li.