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NSF Awards $15 Million to Create Science Gateways Community Institute

Multi-Partner Project Led by SDSC to Meet Researchers’ Needs across All Science Domains

Published July 29, 2016

The five key areas for the Science Gateways Community Institute to increase the number, ease of use, and effective application of gateways to serve the greater research and engineering community.  Source: SDSC

The National Science Foundation (NSF) has awarded a five-year $15 million grant to a collaborative team led by the San Diego Supercomputer Center (SDSC) at UC San Diego to establish a Science Gateways Community Institute to accelerate the development and application of highly functional, sustainable science gateways that address the needs of researchers across the full spectrum of NSF directorates.

The Institute’s goal is to increase the number, ease of use, and effective application of gateways for the greater research and engineering community, resulting in broader gateway use and more widespread engagement in science by professionals, citizen scientists, students, and more. The project will officially get underway starting this summer.

The award was part of a larger NSF announcement in which the agency committed $35 million to create two Scientific Software Innovation Institutes (S2I2) that will serve as long-term hubs for scientific software development, maintenance and education.

“The Institutes will ultimately impact thousands of researchers, making it possible to perform investigations that would otherwise be impossible and expanding the community of scientists able to perform research on the nation’s cyberinfrastructure,” said Rajiv Ramnath, program director in the division of Advanced Cyberinfrastructure at NSF.

A science gateway is a community-developed set of tools, applications, and data services and collections that are integrated through a web-based portal or suite of applications. Such gateways provide scientists access to many of the tools used in cutting-edge research – telescopes, seismic shake tables, supercomputers, sky surveys, undersea sensors, and more – and connect often diverse resources in easily accessible ways that save researchers and institutions time and money.

“Gateways foster collaborations and the exchange of ideas among researchers and can democratize access, providing broad access to resources sometimes unavailable to those who are not at leading research institutions.” said Nancy Wilkins-Diehr, SDSC associate director and principal investigator for the project.

“Because of Nancy’s dedication, SDSC has for many years been a leader in research using science gateways,” said SDSC Director Michael Norman. “Such gateways, including the ever-popular CIPRES (CyberInfrastructure for Phylogenetic RESearch) gateway used to explore evolutionary relationships between species, have been accessed by thousands of users via our supercomputing resources including our new Comet system.”

Wilkins-Diehr also is co-PI of the NSF-funded eXtreme Science and Engineering Discovery Environment (XSEDE) program, one of the most advanced collections of integrated digital resources and services in the world.

“In XSEDE, we have observed tremendous growth in terms of the number of gateway users, the number of processing hours used on HPC resources and the number of published research papers using gateways in the last couple of years,” said Wilkins-Diehr. “We see the services offered by SGCI dovetailing nicely with those offered by XSEDE. In the XSEDE Extended Collaborative Support (ECSS) program, our primary focus is supporting developers of existing gateways with their back-end connections to XSEDE resources. SGCI frees us up to offer services developing front ends – both for projects that use supercomputers and those that do not.”

Multiple Partnerships, Multiple Components

In early 2015, the NSF identified science gateways as one of two focus areas for the implementation phase of its Software Institute program. Through a $500,000 award, a team led by Wilkins-Diehr developed a strategic plan for a much larger Science Gateways Institute as part of that Software Institute program’s conceptualization phase.

The new SGCI award brings together expertise from a wide range of partner universities and institutions including Elizabeth City State University in North Carolina; Indiana University; University of Notre Dame; Purdue University; the Texas Advanced Computing Center (TACC) at the University of Texas, Austin; and the University of Michigan at Ann Arbor.

The Institute’s five-component design is the result of several years of studies, including many focus groups and a 5,000-person survey of the research community, including NSF principal investigators, campus CIOs and CTOs, and others. Those component areas include:

  • An Incubator, to provide shared expertise in business and sustainability planning, cybersecurity, user interface design, and software engineering practices. This area will be led by Michael Zentner (Information Technology at Purdue University).
  • Extended Developer Support, to provide expert developers for up to one year to projects that request assistance and demonstrate the potential to achieve the most significant impacts on their research communities. Led by Marlon E. Pierce (Indiana University).
  • The Scientific Software Collaborative, to oversee a component-based, open-source, extensible framework for gateway design, integration, and services, including gateway hosting and capabilities for external developers to integrate their own software into Institute offerings. Led by Maytal Dahan (TACC).
  • Community Engagement and Exchange, which will provide a forum for communication and sharing experiences among gateway developers – within the NSF, across federal agencies, and internationally. Led by Katherine A. Lawrence (University of Michigan) with support from Sandra Gesing (University of Notre Dame).
  • Workforce Development, to increase the pipeline of gateway developers with training programs, including special emphasis on recruiting underrepresented minorities, and by helping universities form gateway support groups. Led by Linda B. Hayden (Elizabeth City State University).

The work is funded via NSF award number is ACI-1547611 and more information about SGCI is available here.

“We’re excited about the opportunity to build community – nationally and internationally,” added Wilkins-Diehr. “Sharing expertise about basic infrastructure allows developers to concentrate on the novel, the challenging, and the cutting-edge development needed by their specific user community.

SDSC and Science Gateways

SDSC has a proven track record in leading the creation of science gateways, which are widely used throughout numerous domains, from astronomy and biophysics to molecular dynamics and the neurosciences. Access is also available through the National Science Foundation’s XSEDE (eXtreme Science and Engineering Discovery Environment) program.

One of the most popular science gateways is the CIPRES (CyberInfrastructure for Phylogenetic RESearch) gateway, a web-based portal developed eight years ago by SDSC researchers that allows scientists to explore evolutionary relationships between species. Recently, CIPRES was used extensively to help create a new tree of life under a UC Berkeley-led study that added more than 1,000 new types of bacteria and Archaea. In mid-2016, CIPRES reached a milestone by supporting its 2,500th scientific publication.

By using gateways, scientists can conduct their research in significantly shorter times without having to understand how to operate supercomputers, according to Mark Miller, principal investigator of the CIPRES gateway and an SDSC biologist. Typically, about 200 CIPRES jobs are running simultaneously on SDSC’s Comet supercomputer, and another 100 on Gordon.

“The scheduling policy on Comet allows us to make big gains in efficiency because we can use anywhere between one and 24 cores on each node,” said Miller. “When you are running 200 small jobs 24/7, those savings really add up in a hurry.” 

Supporting the National BRAIN Initiative through the Neuroscience Gateway

Charting brain functions in unprecedented detail could lead to new prevention strategies and therapies for disorders such as Alzheimer's disease, schizophrenia, autism, epilepsy, traumatic brain injury, and more. The BRAIN Initiative (Brain Research through Advancing Innovative Neurotechnologies), launched by President Barack Obama in 2013, is intended to advance the tools and technologies needed to map and decipher brain activity, including advanced computational resources and expertise.

In 2015, the NSF and the United Kingdom’s Biotechnology and Biological Sciences Research Council (BBSRC) awarded funding for a new Neuroscience Gateways project led by SDSC. That project, which will contribute to the national BRAIN initiative, is a collaboration between UC San Diego, with SDSC’s Amit Majumdar as the principal investigator (PI) and Subhashini Sivagnanam as co-PI; Yale University, with Ted Carnevale as PI; and University College London, with Angus Silver as PI.

About SDSC

As an Organized Research Unit of UC San Diego, SDSC is considered a leader in data-intensive computing and cyberinfrastructure, providing resources, services, and expertise to the national research community, including industry and academia. Cyberinfrastructure refers to an accessible, integrated network of computer-based resources and expertise, focused on accelerating scientific inquiry and discovery. SDSC supports hundreds of multidisciplinary programs spanning a wide variety of domains, from earth sciences and biology to astrophysics, bioinformatics, and health IT. SDSC’s Comet joins the Center’s data-intensive Gordon cluster, and are both part of the National Science Foundation’s XSEDE (eXtreme Science and Engineering Discovery Environment) program, the most advanced collection of integrated digital resources and services in the world.