Research support
Ongoing Research Support
R01 GM069702 Baker (PI) Jan-2004 to Feb-2013
NIH/NIGMS
APBS: Nanoscale biomolecular electrostatics software
The goal of this project is to enable the investigation of the solvation and electrostatic properties of macromolecules in biomedical research by supporting the maintenance and continued development of the open-source Adaptive Poisson-Boltzmann Solver (APBS) and PDB2PQR software packages.
Role: PI
P41 RR0860516 Arzberger (PI) Jun-2004 to Apr-2014
NIH/NCRR
National Biomedical Computation Resource
This grant supports the integration of Baker group software (APBS, PDB2PQR, and SMOL) with NBCR infrastructure developed through the sub-cellular modeling core.
Role: Co-Investigator
U54 HG004028 Paik (PI) Nov-2008 to Dec-2011
NIH/Stanford University
Cancer Nanotechnology Knowledgebase for Nanoparticle Analysis and Design
Provide semantic annotation to caNanoLab data and provide Bioportal users of the NanoParticle Ontology easy-to-use access to this valuable nanomedicine database.
Role: co-Principal Investigator (of driving biological problem project)
R01 GM076121-04S1-VT Onufriev (PI) Aug-2009 to Dec-2011
NIH/Virginia Tech (Admin Supp)
Analytical Electrostatics: Methods and Biological Applications
Pioneer a new approach, bridging theory and experiment to simulate ions around DNA and understand their interactions with the polymer.
Role: Principal Investigator (of PNNL subcontract)
R01 GM090208-01 Wei (PI) Aug-2009 to Jul-2013
NIH/Michigan State
Collaborative research: Geometric flow approach to implicit solvation modeling
Develop new geometric flow methods for the electrostatic and solvation analysis of large biomolecules.
Role: co-Principal Investigator
U01 NS073457-01 Hourcade (PI) Sep-2010 to Aug-2013
NIH/NINDS
Characterization/bioinformatics-modeling of nanoparticle-complement interactions
Predict the propensity of nanomaterials to activate the complement pathway.
Role: Principal Investigator for PNNL subcontract
R01 HL067773 Ory (PI) Jan-2011 to Nov-2015
NIH/NHLBI
Mechanism of oxysterol activation of membrane cholesterol
Provide molecular simulation support to oxysterol-membrane interaction analysis.
Role: Investigator
U01 GM098913 Sanfilippo (PI) Oct-2011 to Sep-2015
NIH/NIGMS
Modeling the impact of science policies on scientific workforce growth
Provide modeling and biophysical science education support to analysis of workforce growth.
Role: Investigator
Completed Research Support
NAKFI Nano02 Baker (PI) May-2005 to Jun-2007
National Academies Keck Futures Initiative
Molecular Engineering of Thrombin-Based Nanocatalysts
Role: PI
MCB-0520877 Chivers (PI) Feb-2006 to Jan-2009
NSF/MCB
Allosteric Regulation on the Nickel-dependent NikR Repressor
Role: Co-I
Research Grant Doctor (PI) Feb-2007 to Jan-2009
Children’s Discovery Institute
Loss of Vascular Control in Pediatric Lung Injury: Disruption of NO Biotransport by Oxidative Stress
Role: Co-I
HDTRA1-08-C-0015 Rosenberry (PI) Apr-2008 to Apr-2010
Defense Threat Reduction Agency (DoD)
New Inhibitors of Acetylcholinesterase that Block Inactivation by Organophosphates
Design drugs that prevent AChE inactivation by OPs while providing for the normal hydrolysis of ACh by AChE.
Role: Unpaid Collaborator
U54 CA11934205-CCNE Wickline (PI) Sep-2005 to Aug-2010
NIH/NCI
The Siteman Cancer Center Nanotechnology Excellence at Washington University
Supports the development of informatics resources to describe the biological function of nanoparticle therapeutics and imaging platforms. Our specific focus is the development of ontologies and databases for characterizing nanoparticle properties and functions with a long term goal of inference.
Role: Core Leader
N01-CN-12400 Baker (PI) Oct-2007 to Dec-2010
NIH/SAIC
caNanoLab Data Submission Support
Assist other CCNEs in the NCI Nanotechnology Alliance community in submitting nanoparticle data into the caNanoLab Data Portal to promote and expedite data sharing in the nanotechnology biomedical community.
Role: Principal Investigator
GS-35F-0306J Baker (PI) Mar-2008 to Jan-2011
NIH/Booz Allen Hamilton Inc.
caBIG Integrative Cancer Research Workspace
Expedite the cancer research community’s access to increasing amounts of relevant date, creating a common, extensible informatics platform that integrates diverse data types and supports interoperable analytic tools.
Role: Principal Investigator
R01 GM069702-06S1 Baker (PI) Feb-2010 to Feb-2011
NIH/NIGMS (ARRA Admin Supp)
APBS: Nanoscale biomolecular electrostatics software
Improve the APBS and PDB2PQR packages through the introduction of new technology and algorithms.
Role: Principal Investigator
HHS LDRD Baker (PI) Oct-2010 to Sep-2011
Pacific Northwest National Laboratory
Modeling and predicting nanoparticle interactions with biological materials
Predict the interaction of proteins and related biomolecules with nanoparticle surfaces.
Role: Principal Investigator
