Workshops at NCIBI
Tuesday, April 29, 2008 – Wednesday, April 30, 2008
NCIBI 3rd Annual Research Meeting
Wednesday, June 20, 2007
GenePattern Workshop
By Joshua Gould from Broad Institute of MIT and Harvard
Monday, April 30, 2007 – Tuesday, May 1, 2007
NCIBI 2nd Annual Research Conference
NCIBI Presentations at Recent Conferences
July 19-23, 2008
ISMB 2008
Toronto, ON
SIG Presentations:
Alternative Splicing SIG – “Detecting Alternative Splicing in Deep Sequencing Data” by Fan Meng
BOSC SIG – “Use the Make Utility for the Maintenance of Complex Bioinformatics Pipelines” by Justin Wilson
Next Generation Sequencing SIG – “PASS: A Fast Algorithm for Illumina/SOLiD Sequence Alignment with Guaranteed Recall” by Manhong Dai
Bio-Ontologies SIG – “PubOnto: Open Biomedical Ontology-Based Medline Exploration” by Weijain Xuan
Invited Plenary Presentation:
“Identifying gene-disease associations based on centrality on a literature mined gene interaction network” by Arzucan Ozgur
Technology Track – Demonstration:
“Working with NCBC's: Integrating Tools and Data - NCIBI Suite of Tools” by Jim Cavalcoli
Poster Presentations:
“Web-based literature mining tool for target identification and functional enrichment analysis” by Junguk Hur
“NCIBI Portal - Collaborative Biomedical Research Environment” by Yuri Ikeda
“Bridging experiments using integrative tools” by Jim Cavalcoli
“Automated Literature Based Metabolome Annotation Using MeSH” by Zach Wright
“Bayesian Reconstruction of ROS Detoxification Pathway in E. coli” by Andrew Hodges
“High throughput sequence alignment with suffix arrays and q-grams” by Justin Wilson
“A Cell Line Knowledgebase” by Sira Sarntivijai
“Automated Literature Based Genome Annotation Using MeSH” by Alex Ade
“Exploratory Analysis of Community Structure in Biological Interactions Networks” by Gang Su
July 16-19, 2008
Cytoscape Developer Retreat 2008
Toronto, ON
Demonstrations and Talks:
“Normalizing Visualization with Hierarchical Community Structure” and Gang Su
“Support for Multi-Dimensional Information Through Perceptual Encoding: Next Steps” by Barbara Mirel and Terry Weymouth
“MiMI plugin” by Jing Gao
“Michigan and NCIBI” by David States
Monday, July 14, 2008
“The Emerging Field of Translational Bioinformatics – A National Perspective”
Keynote Address by Brian Athey
BIOCOMP'08 - The 2008 International Conference on Bioinformatics & Computational Biology
Las Vegas, NV
June 2-3, 2008
2008 Ohio Collaborative Conference on Bioinformatics (OCCBIO)
Toledo, OH
Keynote Address:
“Indexing for Success: Scaling to Handle the Increasing Volume and Complexity of Biological Databases” by Jignesh Patel
Invited Plenary Presentations:
“Analysis of cis regulation of gene expression in human brain” by Viktoriya Strumba
“Bayesian analysis of gene expression microarrays” by Tom Blackwell
“Detecting Modularity in Biological Interaction Networks” by Gang Su
“Hunting for Biological Relationships Among Selected Genes from Type 2 Diabetes Associated Regions in Humans” by Yongsheng Bai
Poster Presentation:
“Identification of gene networks of lithium treatment in bipolar disorder” by Haiming Chen
March 10-12, 2008
AMIA Summit on Translational Bioinformatics
San Francisco, CA
Panel Discussions:
“National Centers for Biomedical Computing” by Russ Altman, Brian Athey, Aris Floratos, Ron Kikinis, Isaac Kohane, Mark Musen, and Arthur Toga
“High Data Dimensionality in Translational Bioinformatics” by David States, Aris Floratos, Isaac Kohane, Matthias Kretzler, and Gilbert Omenn
“Towards a set of Unified NIH Computational, Data, and Community Infrastructures to Support Translational Bioinformatics” by Brian Athey, Michael Becich, Mark Ellisman, and Joel Saltz
Paper Presentations:
A Diagram Editor for Efficient Biomedical Knowledge Capture and Integration, Fan Meng
Identifying Hypothetical Genetic Influences on Complex Disease phenotypes, Benjamin Keller
Poster Presentations:
NIH National Center for Integrative Biomedical Informatics (NCIBI) by James Cavalcoli
NCIBI Portal - Collaborative Biomedical Research Environment by Yuri Ikeda
An Efficient Solution for Mapping Free Text to Ontology Terms by Manhong Dai
An Adaptive Tool for Biomedical Literature Retrieval by David States
Tuesday, March 4, 2008
“Integrative Biomedical Informatics’—What Has Been Done and What is Left to Do?”
Invited Plenary Presentation by Brian Athey
Electrical Engineering and Computer Science Department Colloquium Seminar at Case Western Reserve University – Cleveland, OH
Wednesday, February 20, 2008
“Application and Architectural Challenges in Basic, Clinical, and Translational Research (Panel).”
Invited Plenary Presentation by Brian Athey
caGrid Roadmap Workshop – Columbus, OH
Tuesday, November 27, 2007
“Collaborate to Compete —An Introduction to the NIH National Center for Integrative Biomedical Informatics (NCIBI).”
Invited Plenary Presentation by Brian Athey
NIDA Genetics Consortium Meeting – Rockville, MD
Monday, November 5, 2007
“Digital Biomedical Research Driving IT Transformation at the University of Michigan Medical School and Health System – Preventative Medicine for Security Leaks.”
Invited Plenary Presentation by Brian Athey
Clinical Research Forum IT Roundtable – Washington, DC
Saturday, November 3, 2007
“Introduction to a Systems View of Biology, Toolbox for Systems Biology”
Invited Panel by Briant Athey, Peter Woolf, Michael Reich and Trey Ideker
American Society of Nephrology (ASN) Annual Meeting – San Francisco, CA
Monday, October 29, 2007
“Interoperable Informatics Systems in Cancer Center Collaborative Networks.”
Invited Plenary Presentation by Brian Athey
Association of American Cancer Institutes (AACI) Annual Meeting – Washington, DC
Sunday, October 14, 2007
“The NIH National Center for Biomedical Informatics (NCIBI)--Integrating Biomedical Informatics: Overview and Collaborative Opportunities.”
Keynote Address by Brian Athey
IEEE 7th International Symposium on Bioinformatics and Bioengineering (BIBE) – Boston, MA
Monday, October 1, 2007
“Federating and Growing High Performance Computing and Data Environments to Support Research at the University of Michigan Medical School.”
Invited Plenary Presentation by Brian Athey
Harvard Biomedical HPC Leadership Summit 2007 – Boston, MA
Wednesday, August 8, 2007
“The NIH National Center for Biomedical Informatics (NCIBI)--Integrating Biomedical Informatics: Overview and Collaborative Opportunities.”
Keynote Address by Brian Athey
IMSCCS 2007: Cyberinfrastructure-enabled Computational Science – Iowa City, IA
Wednesday, July 25, 2007
“NCIBI Suite of Tools”
Demo by Timothy Wiggin
ISMB/ECCB 2007 – Vienna, Austria
Tuesday, July 10, 2007
“Integrating Genomics and Proteomics: Using Mass Spectrometry to Annotate the Genomes”
Keynote Speech by David States
Ohio Collaborative Conference on Bioinformatics (OCCBIO) 2007 – Oxford, Ohio
Thursday, May 31, 2007
“The NIH National Center for Biomedical Informatics – Overview and Collaborative Opportunities”
Invited Talk by Brian Athey
Indy Regional Bioinformatics Conference 2007 – Indianapolis, Indiana
Thursday, May 31, 2007
“Identifying Hypothetical Genetic Influences in Complex Diseases”
Selected Abstract Presentation by Benjamin Keller
Indy Regional Bioinformatics Conference 2007 – Indianapolis, Indiana
Wednesday, May 23, 2007
“Collaborative Research Portal by Participatory Design”
Presentation by Barbara Mirel
2007 AMIA Spring Congress – Orlando, Florida
