Upcoming Activities of ebCTC

11/26/2008
ChemBioE Seminar - R. Radhakrishnan "Molecular systems biology: Building bridges through multiscale modeling and high-performance computing" BME Room 122, Rutgers Busch Campus, 10:20 AM

11/16-21/2008
ebCTC at 2008 AIChE Annual Meeting, Philadelphia, PA. Presentations by ebCTC members:

• Physiologically-based inhalation dosimetry modeling for nanoparticles: Considerations of activity, age, and gender [abstract]
• In silico modeling of uptake and metabolism of arsenicals in hepatocytes with implications for hepatotoxicity [abstract]
• Indirect response model of arsenic exposure on gene expression [abstract]
• Effects of glucose and insulin levels on HepG2 cell metabolism [abstract]
• Effects of hormone and amino acid supplementation in optimal liver specific functions of hepatocytes [abstract]
• De novo protein design of complement 5a [abstract]
• A novel mixed-integer linear optimization framework for the identification of post-translationally modified proteins using ETD/ECD tandem mass spectrometry [abstract]
• De novo protein design based on binding affinity predictions for the discovery of novel inhibitors for Complement 3 and HIV-1 [abstract]
• De novo identification of biomarker proteins using tandem mass spectrometry [abstract]
• A novel approach for residue contact prediction in beta and alpha/beta proteins [abstract]
• Single sequence secondary structure prediction for globular proteins [abstract]

11/6/2008
EOHSI/NIEHS Seminar Series - Donald Fox, University of Houston "Differential regulation of the notch-hes1-mash1 signaling pathway during gestational lead exposure selectively increases the number of late-born retinal neurons, but not Muller Glial cells" Rutgers Busch Campus, EOHSI Room C, 12 PM

10/29/2008
ChemBioE Seminar - B. Ogunnaike "Elucidating the control mechanism for DNA damage repair with the p53-Mdm2 system: single cell data analysis and ensemble modeling" BME Room 122, Rutgers Busch Campus, 10:20 AM

10/23/2008
EOHSI/NIEHS Seminar Series - Andrij Holian, University of Montana "Scavenger receptors in regulating lung inflammation" Rutgers Busch Campus, EOHSI Room C, 12 PM

10/15/2008
ChemBioE Seminar - M. Henson "Dynamic flux balance models for genome-scale analysis and optimization of yeast metabolism" BME Room 122, Rutgers Busch Campus, 10:20 AM

10/12-16/2008
ebCTC at ISEE/ISEA 2008 Concerence, Pasadena, CA. "Model estimates of arsenic exposure and dose and evaluation with 2003 NHANES data" [abstract]

10/8/2008
BioMaPS Lecture Series - Stanislas Liebler, Rockefeller University "On Inverse Problems in Biology" 4 PM, Fiber Optics Auditorium, Rutgers Busch Campus [link to BioMaPS Lecture Series]

10/3/2008
ebCTC Science Day at EOHSI. Presentations and discussions on "Computational toxicology studies on interactions of the hepatic nuclear receptor PXR with xenobiotics" led by Drs. Sean Ekins and William Welsh

10/1/2008
BioMaPS Lecture Series - Olivier Elemento, Princeton University "Decoding the regulatory genome and proteome" 1:30 PM, Hill Center, Room 260, Rutgers Busch Campus [link to BioMaPS Lecture Series]

Recent Activities of ebCTC

2008

9/24/2008
Gould Lecture Series in Molecular and Cellular Medicine - Stuart H. Orkin, MD, Harvard Medical School "Control of Stem Cells". Child Health Institute of New Jersey, Room 3101, 89 French Street, New Brunswick [more info]

9/22/2008
ebCTC researcher Eric Yang - PhD Thesis Defense "A Systems Biology Approach for Assessing Corticosteroid Activity" at 2 PM in Room 122 of the Biomedical Engineering Building at Rutgers Busch Campus. (Thesis Advisor: Professor Ioannis Androulakis)

9/18/2008
EOHSI/NIEHS Seminar Series - Lisa Opanashuk, Univ. of Rochester Medical School "Cerebellar Granule Neuron Precursors are Targets for Dioxin Exposure: Does the Aryl Hydrocarbon Receptor Play a Role in Neurogenesis?" Rutgers Busch Campus, EOHSI Room C, 12 PM

9/15/2008
BioMaPS Lecture Series - Jie Liang, University of Illinois-Chicago "Computational systems bioengineering: From molecules to networks to cells" Rutgers Busch Campus, Biomedical Engineering, Room 102, 1:30 PM [link to BioMaPS Lecture Series]

9/11/2008
EOHSI/NIEHS Seminar Series - Terry Gordon, NYU School of Medicine "The role of age and gender in the genetic susceptibility to inhaled pollutants - animal models" Rutgers Busch Campus, EOHSI Room C, 12 PM

9/10/2008
BioMaPS Lecture Series - Adrian Goldman - University of Helsinki "Structural Studies of Neurotrophic Factors and Their Ligands" Rutgers Busch Campus, Center for Advanced Biotechnology & Medicine, Room 010, 12 PM [link to BioMaPS Lecture Series]

9/3/2008
BioMaPS Lecture Series - W. Kimryn Rathmell - University of North Carolina "Molecular Characteristics of Renal Cell Carcinoma Contributing to Response to Targeted Therapy" Rutgers Busch Campus, Hill Center, Room 260, 1:30 PM [link to BioMaPS Lecture Series]

6/29-7/3/2008
ebCTC at Protection and Restoration of the Environment IX (PRE9) Conference, Kefalonia, Greece. P.G. Georgopoulos - "Mechanistic studies of environmental causes of human disease: a bionetwork dynamics modeling approach" [read abstract]

5/14/2008
CABM Seminar, 12:00 PM, Room 010, Center for Advanced Biotechnology and Medicine, 679 Hoes Lane, Piscataway, NJ, Rutgers Busch Campus. James Manley, Columbia University - "Mechanisms of post-transcriptional gene control"

5/7/2008
Miller Distinguished Lecture, Ernest Mario School of Pharmacy, Rutgers Busch Campus, Piscataway, NJ. Frank J. Gonzalez of NIH - "Mechanism of action of non-genotoxic hepatocarcinogens."

4/30-5/1/2008
2nd Annual SYSTEMS TOXICOLOGY SYMPOSIUM:
Multiscale Modeling, from Molecules to Organisms
A symposium presented by ebCTC at EOHSI, Piscataway, NJ. Free and open to the research community - over 100 attendees registered.

4/25/2008
Ernest Mario School of Pharmacy Seminar, Rutgers Busch Campus, Piscataway, NJ. Lori White of Rutgers Department of Biochemistry & Microbiology - "Interactions between the aryl hydrocarbon receptor (AhR) and Ras/Raf signaling pathways in human melanoma cells."

4/14-17/2008
ebCTC at the International Conference on Health Sciences Simulation, Ottawa, Canada [abstract] [link to conference]

3/18/2008
ebCTC at SOT Annual Meeting & ToxExpo 2008 - "Toxicogenomic studies reveal the transsulfuration pathway as a possible mechanism for liver toxicity" (M. Chen, L.K. Schnackenberg, R. Holland, R.D. Beger, Q. Shi, S. Isukapalli, P.G. Georgopoulos, W. Welsh, W. Tong) [presentation | link to meeting]

3/12/2008
*Computational Toxicology Seminar at USEPA's Research Triangle Park, NC facilities: Dr. Ioannis Androulakis of ebCTC - From data to models: Systems biology methods and potential applications to toxicoinformatics. [presentation]

2/28/2008
David DeMarini of USEPA Environmental Carcinogenesis Division - "Mutagenicity of air and water: mechanisms and biomarkers" at EOHSI

2/23-24/2008
ebCTC at MCBIOS 2008 - "Toxicogenomic studies reveal biosynthetic pathway of S-adenosylmethione as a possible hepatotoxic mechanism" (M. Chen, L.K. Schnackenberg, L. Guo, R. Holland, R.D. Beger, Q. Shi, S. Isukapalli, P.G. Georgopoulos, W. Welsh, W. Tong) [abstract] [link to meeting]

1/29-30/2008
ebCTC Science Days: An informal 2-day workshop with ebCTC researchers - "The path from ArrayTrack to ebTRack - Progress, Applications and Future Plans" at EOHSI.

1/22/2008
Max Garzon, of The University of Memphis, presented a lecture on "Synthetic Biology for Bioinformatics" at EOHSI.

2007

October-December 2007

12/20/2007
*Computational Toxicology Seminars by ebCTC researchers at USEPA's Research Triangle Park, NC facilities: Drs. Herschel Rabitz and Xiao-Jiang Feng of ebCTC and Princeton University - "Optimal identification and analysis of bionetworks and biomolecules" [presentation]; Dr. William Welsh of UMDNJ - "Molecular modeling studies of interactions between xenobiotics and liver nuclear receptors" [presentation]

12/6/2007
Kannan Krishnan of the University of Montreal and visiting scholar at EOHSI - "PBPK Modeling of Interactions and Risk Assessment of Chemical Mixtures" (EOHSI/NIEHS Seminar Series)

11/4-9/2007
ebCTC at the AIChE Annual Meeting, Salt Lake City, UT [abstracts] [link to meeting]

11/1/2007
Yvan Rusyn of the Carolina Bioinformatics Center - "Genetical Genomics and Liver Toxicology: Making New Friends" as part of the EOHSI/NIEHS Seminar Series and met with the senior investigators and other members of ebCTC.

10/26/2007
ebCTC at the Society of Environmental Toxicology and Chemistry (SETAC) Fall Workshop - Environmental Risk Assessment of Metals and Metalloid, Camden, NJ [abstracts] [link to meeting] [posters available upon request]

10/25-26/2007
ebCTC at the First International Conference on Toxicogenomics Integrated with Environmental Sciences (TIES), Raleigh, NC [abstracts] [link to meeting]

10/14-18/2007
ebCTC at the 17th Annual Meeting of the International Society of Exposure Analysis in Durham, NC. [abstracts] [link to meeting]

10/9/2007
ebCTC Science Day: Researchers from the Princeton group lead presentations and discussions on Biological Network Dynamics in an informal session at EOHSI

July-September 2007

8/23/2007
ebCTC Science Day: Researchers from the Rutgers and UMDNJ groups lead discussions and presentations on Modeling of Chemical-Induced Carcinogenesis, at the Rutgers Department of Biomedical Engineering.

April-June 2007

5/21-23/2007
2007 International Science Forum on Computational Toxicology: Sponsored by USEPA at their main campus in Research Triangle Park, NC. ebCTC scientists presented several posters and also had a booth to present and discuss their work.

5/11/2007 and 5/18/2007
ebCTC Science Days: Researchers from the UMDNJ and Rutgers groups lead discussions and presentations on "virtual liver" technology in informal sessions at EOHSI.

4/26-27/2007
SYSTEMS TOXICOLOGY: Multiscale Modeling of Environmental Impacts on Bionetworks: A symposium presented by ebCTC and DIMACS, open to the research community

4/11/2007
*Computational Toxicology Tele-Seminar: Incorporating toxicogenomic data and approaches in risk assessment: Case study - phthalate esters (M. Ovacik, M.G. Ierapetritou, I.P. Androulakis, B. Sen, S. Euling, K. Gaido, P.G. Georgopoulos, W. Welsh)

January-March 2007

3/14/2007
*Computational Toxicology Tele-Seminar: Optimization Tools for in silico Proteomics (P.A. DiMaggio Jr., C.A. Floudas)

2/28-3/1/2007
ebCTC Science Days: The Science and Technology for a "Virtual Liver": An informal 2-day workshop where ebCTC and USEPA visiting scientists exchanged information and ideas on concepts and computational tools for multiscale bionetwork modeling, from cell to organ

2006

October-December 2006

12/13/2006
*Computational Toxicology Tele-Seminar: Cheminformatics Tools for Toxicant Identification and Characterization (W. Welsh)

11/17/2006
ebCTC 2006 Overview Workshop at EOHSI: Visitors from USEPA met with and viewed presentations and posters by ebCTC scientists.

10/11/2006:
*Computational Toxicology Tele-Seminar: A closed-loop identification protocol (CLIP) for nonlinear biological networks (X-J. Feng, G. Li, H. Rabitz)

July-September 2006

9/29/2006
ArrayTrack Training at UMDNJ: Dr. Weida Tong, of USFDA-NCTR, provided hands-on training for ArrayTrack software at UMDNJ.

9/19/2006
ebCTC Science Day: New Methods and Tools of Computational Proteomics: The research team of Prof. Chris Floudas hosted a workshop on Computational Proteomics at Princeton University.

April-June 2006

6/14/2006
*Computational Toxicology Tele-Seminar: Computational Tools for the Source to Outcome Paradigm (P.G. Georgopoulos)

*Computational Toxicology Seminar Series
STAR Environmental Bioinformatic Centers Seminar Series at USEPA: In order to best interface the activities of the Environmental Bioinformatic Centers with the research being conducted within USEPA-ORD, an information program has been established. Each month, one of Centers presents an overview of the activities covered under one of their major projects. These sessions are open to all EPA staff who are interested in helping the Centers achieve their long-term objectives. While the number of interactions that can be developed are limited by available resources, these forums can facilitate the development of collaborative research projects. After the initial round of informational briefing, this program will evolve into a forum for presenting advances in environmental bioinformatics that will assist ORD in supporting the mission of the EPA of protecting human health and the environment.

Announcement of STAR Center Award
11/2/2005
News Release
EPA Announced an Award of $9 million to Establish Two Cutting-Edge Environmental Bioinformatics Research Centers