Posts Tagged 'Research Tools'

Early Notice: Research Data and Technology Fair

You are invited to the UVa Health Sciences Library’s Research Data and Technology Fair on Friday October 25th in Jordan Hall Conference Center.

Two nationally known speakers will explore Big Data and its impact on biomedical research.  The half-day event will also include exhibitors from UVa research and data service providers, innovative initiatives at UVa, and free lunch!  See our full agenda.

The Fair’s events include:

Keynote speakers Atul Butte, MD, PhD, Stanford University, and Michael Huerta, PhD, NIH’s Big Data to Knowledge (BD2K):

“Translating a trillion points of data into therapies, diagnostics, and new insights into disease”

Dr. Butte, a bioinformatician and pediatric endocrinologist, will highlight his lab’s work on using publicly-available molecular measurements to find new uses for drugs including drug repositioning for inflammatory bowel disease, discovering new treatable inflammatory mechanisms of disease in type 2 diabetes, and the evaluation of patients presenting with whole genomes sequenced.

“Exa, Zetta, Yotta: More Data – More Progress”

Dr. Huerta will provide an overview and status report of the NIH Big Data to Knowledge (BD2K) initiative, including: findings from a series of recently held workshops, synopses of funding opportunities and a vision of the manner in which BD2K will affect the scientific landscape in biomedicine.

Refreshments with UVa research and data support services:  Discover what is available to you as a researcher by visiting with our UVa exhibitors.  Find out about statistical consulting services, technology-enabled learning spaces, data visualization, bioinformatics resources, and new tools and services to help you navigate the research landscape on Grounds.

Innovations Panel:  Hear from UVa faculty about how innovations in technology and collaboration are impacting biomedical research at UVa.

For a full agenda, speaker information, list of exhibitors, and registration information, visit the Fair web site at

Research Data Services at UVa

The University of Virginia Library has a growing suite of Research Data Services to benefit faculty and student researchers throughout the UVa community. This fall, we’re hosting weekly Data Services Open Office Hours in Bavaro Hall and StatLab Open Office Hours in Alderman. Come by and ask us questions!


In Bavaro Hall 306 (the Curry Library and Innovation Commons), you can find:


  • Mondays, 1-3: Statistical consulting with StatLab — StatLab provides advice and training on data analysis and the use of statistical software (for more, see
  • Tuesdays, 1-3: Metadata management — Metadata services consults with researchers on issues related to information organization, including arranging data, describing data, and choosing metadata scheme or developing controlled vocabularies. If you’re planning a new collection or preparing to archive a collection, metadata management can help.
  • Wednesdays, 1-4: Research computing support (ITS) — Research computing support assists with the licensing, distribution and use of research-related software (e.g., statistical and mathematical software, see for more)
  • Thursdays, 2-4: Data management consulting — The data management consultants help researchers develop data management plans, provide guidance on data workflows for research projects (e.g., file formatting and organization, security and storage), and advise on data sharing and archiving (e.g., data policies, data documentation)


StatLab Hours: Tuesdays through Fridays, 1-3 In Alderman 523 — Statistical consultants will be available to talk with you about your data analytic challenges


And if the day’s Open Office Hours host can’t answer your question, they’ll direct you to someone who can.


See you this fall,


Michele Claibourn
Lead, Research Data Services & Head of StatLab
University of Virginia Library
(434)  924-DATA Announces Spanish Version

Washington D.C – Science agencies across the U.S. federal government announced today the launch of the Spanish version of, provides the same breadth and depth in science search as does, covering over 200 million pages of authoritative U.S. government science information including research and development results from 17 organizations within 13 federal science agencies. Free access is provided to over 55 scientific databases and more than 2,100 selected scientific web sites. Integrating Microsoft’s Translator, Spanish-language queries to initiate searches of U.S. databases and web sites with results appearing in Spanish. This represents an innovative use of existing commercial technology to broaden public access to federal science information.

In addition to offering expanded access to the Spanish-speaking public, now includes new multimedia content and additional features to help users find the science information they need. For the first time, R&D video is available from the Department of Energy (DOE), MedlinePLUS (NIH), the National Aeronautics and Space Administration, (NASA) and the National Science Foundation (NSF). Images from the Library of Congress have been added to the image search that is now integrated under a new multimedia tab on the results page. Search enhancements include visual representations of topical information in an easy-to-use touch and dial format.

IEEE Xplore Digital Library Enhancements

This week, the first IEEE documents in HTML became available in IEEE Xplore.

These first HTML articles mark the beginning of weekly additions of thousands of HTML-formatted documents to IEEE Xplore. By the end of 2012, you will see nearly 200,000 articles in this new format.

IEEE Xplore subscribers will automatically have access to the HTML versions of documents, as per existing subscription terms.

The dynamic new design redefines how IEEE publications are displayed online. Presenting cutting-edge IEEE articles from select publications in an elegant, state of the art, HTML layout provides a richer and more interactive research experience that allows you to:

  • Scan and interpret articles in under 60 seconds using “Quick Preview”
  • Navigate between sections of long articles with intuitive floating navigation
  • Effortlessly explore text, figures, equations, and multimedia files
  • Quickly view and copy mathematical equations, expressions, and formulas
  • Enhance your research with recommendations of related articles

The collection of articles available in HTML will build rapidly over the next several months, with a current focus on all IEEE journal content from 2001 to present. You will also start to see conference papers from 2001 and later in the new format by the end of this year. Magazine and Standards will follow in 2013, with over 2 million HTML articles available by the end of 2014.

Other new features also added to IEEE Xplore this month:

  • Share IEEE Xplore documents on social media sites
    Social media buttons now appear on all abstract pages so you can easily share links to IEEE Xplore articles through Facebook, Twitter, and LinkedIn.
  • Filter to only show content included in your subscription
    IEEE has expanded the popular search filter that allows users to “show only content in my subscription” to all IEEE Xplore subscriptions. You can find this filter on the search results page and in Advanced Search.
  • View a history for Top 100 Documents Downloaded by month
    Browse the most popular search terms and top downloaded documents by month plus see an archive of top downloaded documents from previous months.
  • Coming Soon: Save documents to Project Folders
    My Projects allows users to create personal project folders within IEEE Xplore to help organize documents by project or topic. Save documents to an unlimited number of folders, personalize with project descriptions, and add notes and tags to individual articles as you save them to projects. Sign in with your personal IEEE Account to access this feature.

University of Virginia readers may access IEEE Xplore from the Library’s Research Portal Page.

Knovel Academic Refresh Webinar

Knovel provides answers for engineering students and faculty across all disciplines and is used to find technical information, develop engineering design projects, improve processes, validate assumptions and much more.

Have you ever used Knovel’s Data Search? Have you ever worked with a Knovel Interactive Table? What about a Graph Digitizer? If you would like to learn more about these topics, please view this On Demand training webinar.

In this session you will:

  • Learn to browse and search 28 subject areas
  • Familiarize yourself with Knovel’s interactive tools

 Link to the Webinar here.

Microsoft Academic Search

Microsoft Academic Search (MAS) is a free academic search engine developed by Microsoft Research, which also serves as a test-bed for many research ideas in Data Mining, Named Entity Extraction and Disambiguation, Data Visualization, etc. As a research prototype, the coverage of MAS is still very limited in certain domains. We appreciate your feedback and contribution.

Microsoft Academic Search provides many innovative ways to explore academic publications, authors, conferences, journals, organizations and keywords, connecting millions of scholars, students, librarians, and other users.

Visit Microsoft Academic Search here.

Graduate Student Research Skills Workshop — Copyright Essentials

Graduate Student Research Skills Workshop

Tuesday, Feb. 7, 3:30-5, Rice Hall Auditorium (Room 130 Rice Hall)

University of Virginia

Please join your fellow SEAS graduate students in this, the inaugural, Research Skills Workshop.  The topic—-Copyright Essentials.

With the Engineering School’s implementation in 2012 of a new digital-only deposit program for master’s theses and dissertations,  Engineering graduate students must address enhanced responsibilities for copyright, grants compliance, and other traditional author’s issues of privacy, defamation, and related concerns. Students will be required to sign a formal deposit license with the University Library as part of their degree completion process, and all theses and dissertations will be available worldwide.  Good advance planning and awareness of key copyright and other legal requirements are more essential than ever before. Madelyn Wessel from the Office of General Counsel will be here to talk about the library deposit license and the new Copyright Essentials materials that have been prepared to assist Engineering School students with this new program.  Some of the ways students can protect and share their scholarly and research works via Creative Commons and Open Source licensing, and other author’s rights issues will also be discussed.  The workshop will provide ample opportunities for Q & A.

Look for future announcements and other opportunities to learn and enhance your research skills in this new, monthly workshop series for the entire SEAS Community of Scholars.

Brought to you by the Graduate Student Module of the Strategic Plan Implementation Team and the Office of the Associate Dean of Research and Graduate Programs

Mathematica Technical Talks

Just a quick note to let you know I will be on campus to give two Mathematica technical talks on Thursday, October 13. If you haven’t seen Mathematica lately, you will be surprised to see how suitable Mathematica is for projects and course examples in any STEM, business and economics, or liberal arts field.

My talks are given 100% in Mathematica, and a big part of what I want to discuss is the exciting new free-form input in Mathematica 8. Here’s a quick video preview:


“Mathematica in Education and Research”

9-9:50am & 10-10:50am, including Q&A

Room 214, Mechanical Engineering Bldg., UVA

Attendees with no prior experience report that these talks help with getting started using Mathematica language and workflow.

All attendees will receive an electronic copy of the examples, which can be adapted to individual projects.

Please feel free to pass this invitation on to colleagues and students–please let me know if you plan to attend, so I can make sure we have enough space. I look forward to meeting you!


Andy Dorsett

Wolfram Research, Inc.

1-800-965-3726 ext. 3495

fax: 217-398-1108

All-New Virgo Library Catalog

Now You Can Search for Books AND Journal Articles At the Same Time!

The University Library catalog, Virgo, has been greatly enhanced to include journal articles from many publishers. It features a simple and fast search engine that helps you discover relevant information on any topic from the University of Virginia Library collections. Virgo is the place to start your research in scholarly journal and newspaper articles, books, videos, maps, manuscript collections, music scores and more. From your search results page, one click will display the full text of an article or tell you whether or not a book is on the shelf.

Virgo’s new integrated article search is part of a suite of online services the Library offers to researchers through the new Research Portal which provides access to the specialist databases – the recommended approach for those who are working on in-depth literature reviews.

For more information about the new Virgo interface or the Research Portal stop by any UVa Library or contact your subject librarian.


Are You Research Ready?

The following article is reposted from the January 6,2001 issue of UVa Today Online News:

Alliance for Computational Science and Engineering Helps Make Students and Faculty ‘Research-Ready’

January 6, 2011 — Major research is increasingly complex, collaborative, cross-disciplinary and multi-institutional. Identifying the functions of genes, determining the effects of human activity on long-term climate, calculating the innumerable scenarios of how atoms behave in physics experiments, better understanding how market fluctuations affect economies – all require the use of massive computing resources, and the ability to make use of that power.

“Research is changing drastically. Everything is computerized in the sciences these days. There is a deluge of data that must be analyzed,” said Andrew Grimshaw, director of the University of Virginia Alliance for Computational Science and a professor of computer science in the Engineering School. “The problem is, researchers who are highly skilled in their scientific disciplines may not have the computing skills needed to cope with a rapidly growing data load.

“They need help.”

That is where UVACSE comes in. With a core staff of five computing professionals and a cadre of highly-trained graduate students, UVACSE is helping scientists and scholars across Grounds to better use computing resources to perform complex data analysis, to build and run computer models, and to make use of computer clusters at U.Va. and at computing centers nationwide.

In the last three years, UVACSE staff members have worked with dozens of faculty researchers and graduate students to customize their capabilities for high-end research projects. Several U.Va. researchers are now tapped into some of the most important research sites and databases in the world, including national centers located in Tennessee, Illinois and Texas.

Even data-heavy visual projects in the arts and humanities sometimes require big computing power, said David Germano, associate professor of Tibetan and Buddhist studies in the College of Arts & Sciences and director of SHANTI, the Sciences, Humanities & Arts Network of Technological Initiatives, UVACSE’s sister organization.

“UVACSE has in a short time had a transformative impact on U.Va. by providing strategic resources and support for initiatives across Grounds pursuing research goals that are computationally intensive,” Germano said.

“We’re here to de-mystify computing.” Grimshaw said. “We’re saying to researchers across Grounds, ‘Come to us with your computing challenges and we’ll dedicate some staff expertise and time to you, and we can even facilitate arrangements with the national centers.'”

Using a consulting approach through its “Tiger Teams,” UVACSE offers free assistance, in which technical staff members work with researchers to optimize their capabilities for high-end computing, tailored to specific research problems. Thus far, UVACSE has provided Tiger Team assistance to more than 30 science and science-related projects in several disciplines.

“We provide intensive user support, a focused concentrated effort, to get people quickly through a particular problem and to solve it within a limited time duration,” Grimshaw said.

To compete nationally and internationally with peer institutions, Grimshaw said U.Va. researchers must make full use of the highly capable computing resources available at the University and through connections and collaborations with other universities and national laboratories.

Increasingly, major grants from the National Science Foundation, the National Institutes of Health, and the U.S. departments of Energy and Defense are awarded to research teams capable of doing big science with proven high-speed computing capabilities. These capabilities enable and enhance collaborations among highly creative individuals working together to solve the toughest problems facing humanity.

Additionally, collaborations that result in large grants can become economic multipliers for the University and are essential to the continuing economic development of the Commonwealth of Virginia in high-tech fields of industry.

UVACSE resulted from a grassroots effort, beginning more than a decade ago with an ad hoc task force of faculty members from the Engineering, Arts & Sciences and the School of Medicine, all of whom were conducting complex investigations requiring high-end computing. A second task force five years later produced a plan and obtained $250,000 in funding from the National Science Foundation. With further funding from the Office of the Chief Information Officer, UVACSE became an entity, a resource with a staff and a mission to provide computing education and outreach through individual consultations and the management of shared computing resources across Grounds.

“We are here to help our faculty, students and research staff be fully ‘research-ready’ and proficient in computing skills so U.Va., as an institution, can adapt to the new realities of the complex research environment and compete well with our peer institutions,” Grimshaw said.

Astronomer John Hawley, one of the early advocates for a computing resource center, notes that since 2000, the speed of the fastest supercomputer has grown by nearly a factor of 10,000.

“This increase in computational power creates unprecedented opportunities for new ways to solve some of the most important and challenging research problems,” Hawley said. “But the capabilities of these computers now greatly exceed the ability of the average researcher to utilize them effectively. UVACSE creates a collaborative environment where those with discipline-specific knowledge can work with experts in algorithms, programming, data management and visualization. Researchers can focus on what they know best while collaborating with people who know the details of computing.”

For examples of research projects assisted by UVACSE, visit here and click on “exemplar Tiger Team projects.”

— By Fariss Samarrai, Senior News Officer, (434) 924-3778,

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July 2020