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Extending BioTapestry, a Tool for Modeling Gene Regulatory Networks

Award Number: R01HD073113
ORGANIZATION: NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 07/20/2012
PERIOD OF PERFORMANCE END DATE: 06/30/2017

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Extending BioTapestry, a Tool for Modeling Gene Regulatory Networks - DESCRIPTION (provided by applicant): Developmental gene regulatory networks (GRNs) tie together low-level descriptions of molecular events into predictive high-level causal models of developmental processes. BioTapestry is a web-deployed, cross- platform application written in Java that we have developed to model developmental GRNs. Since its first public release in 2004, BioTapestry has become a de facto standard for developmental GRN modeling, and this proposal aims to enhance it in significant ways that will increase its utility and capabilities as research tool. The first goal, addressed in Aim 1, is to create a version of BioTapestry using emerging standard web browser and server technologies. These tools are increasingly becoming the norm for implementing integrated data analysis and interpretation applications across a wide range of biological research domains. Thus, by taking this browser-integrated approach for BioTapestry, it will become an important element of the growing toolkit of available techniques that are being combined together to build modern web interfaces for exploring and analyzing increasingly complex data sets. The second goal expands on BioTapestry's initial main focus as a tool for presenting and annotating a single, canonical, "gold standard" representation of a GRN model. Such models are the end result of a process that involves evaluating several alternative architectures and related dynamic network behaviors. By making specific targeted improvements to BioTapestry, we propose to greatly enhance this process of creating GRN models. In Aim 2, we will modify the BioTapestry core to provide a framework within which many different but related alternative GRN proposals can be organized, managed, and compared. This framework will then enable us, in Aim 3, to create an interactive computational environment within BioTapestry. This environment will enable the researcher to generate dynamic predictions of GRN behavior using a set of simplified yet powerful computational models. These predictions can then be compared directly against experimental data using new enhancements to BioTapestry's intuitive presentation of dynamic network behavior. At the conclusion of this project, we will have made BioTapestry into an even more effective system for modeling and analyzing GRNs.


Issue Date FY	Funding FY	Legal Entity Name	Legal Entity Address	Legal Entity City	Legal Entity State	Legal Entity Zip Code	Legal Entity COUNTY	Legal Entity COUNTRY	Assistance Listing	Award Code	Budget Year	Action Date	Action Type	Action Amount

Issue Date FY: 2018 ( Subtotal = -$129 )
2018	2015	INSTITUTE FOR SYSTEMS BIOLOGY	401 TERRY AVE N	SEATTLE	WA	98109	KING	USA	Child Health and Human Development Extramural Research	000	4	11/3/2017	NON-COMPETING CONTINUATION	-$129
														Subtotal = -$129

Issue Date FY: 2015 ( Subtotal = $486,929 )
2015	2015	INSTITUTE FOR SYSTEMS BIOLOGY	1441 N 34TH STREET	SEATTLE	WA	98103	KING	USA	Child Health and Human Development Extramural Research	000	4	5/20/2015	NON-COMPETING CONTINUATION	$486,929
														Subtotal = $486,929

Issue Date FY: 2014 ( Subtotal = $494,143 )
2014	2014	INSTITUTE FOR SYSTEMS BIOLOGY	1441 N 34TH STREET	SEATTLE	WA	98103	KING	USA	Child Health and Human Development Extramural Research	000	3	6/8/2014	NON-COMPETING CONTINUATION	$494,143
														Subtotal = $494,143

Issue Date FY: 2013 ( Subtotal = $473,942 )
2013	2013	INSTITUTE FOR SYSTEMS BIOLOGY	1441 N 34TH STREET	SEATTLE	WA	98103	KING	USA	Child Health and Human Development Extramural Research	000	2	6/10/2013	NON-COMPETING CONTINUATION	$473,942
														Subtotal = $473,942

Issue Date FY: 2012 ( Subtotal = $508,376 )
2012	2012	INSTITUTE FOR SYSTEMS BIOLOGY	1441 N 34TH STREET	SEATTLE	WA	98103	KING	USA	Child Health and Human Development Extramural Research	000	1	7/20/2012	NEW	$508,376
														Subtotal = $508,376

Grand Total All Awards = $1,963,261

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Extending BioTapestry, a Tool for Modeling Gene Regulatory Networks

Award Number: R01HD073113

ORGANIZATION: NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

PERIOD OF PERFORMANCE START DATE: 07/20/2012

PERIOD OF PERFORMANCE END DATE: 06/30/2017

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