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The NIH BD2K center for big data in translational genomics

Benedict Paten, Mark Diekhans, Brian J. Druker, Stephen Friend, Justin Guinney, Nadine Gassner, Mitchell Guttman, W James Kent, Patrick Mantey, Adam A Margolin, Matt Massie, Adam M Novak (+8 others)
2015 JAMIA Journal of the American Medical Informatics Association  
ACKNOWLEDGEMENTS We would like to thank the reviewers for their helpful comments and suggestions.  ...  MISSION The National Institutes for Health Big Data to Knowledge (NIH BD2K) Center for Big Data in Translational Genomics (CBDTG) has a single, overarching aim: to help the biomedical community achieve  ...  These cancer genomics projects are poster children for big data genomics.  ... 
doi:10.1093/jamia/ocv047 pmid:26174866 pmcid:PMC5009913 fatcat:vedhlgn6g5ezjnjo5qhemr2ium

Envisioning the future of 'big data' biomedicine

Alex A.T. Bui, John Darrell Van Horn
2017 Journal of Biomedical Informatics  
Application programming interfaces (APIs) and software tools that integrate genomics into clinical perspectives are pursued by the Center for Big Data in Translational Genomics.  ...  Working jointly, the BD2K Centers Coordinating Center (CCC), TCC, and NIH Office of the Associate Director for Data Science are producing an online seminar series to educate and engage the scientific community  ...  Table 1 NIH "Big Data to Knowledge" (BD2K) Centers Programs BD2K Center of Excellence Institution Lead PI(s) Big Data for Discovery Science (BDDS) University of Southern California (USC) Arthur W  ... 
doi:10.1016/j.jbi.2017.03.017 pmid:28366789 pmcid:PMC5613673 fatcat:fgwbgtluhbhw3fngeksyjh2i2i

Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop

Kathleen M. Jagodnik, Simon Koplev, Sherry L. Jenkins, Lucila Ohno-Machado, Benedict Paten, Stephan C. Schurer, Michel Dumontier, Ruben Verborgh, Alex Bui, Peipei Ping, Neil J. McKenna, Ravi Madduri (+2 others)
2017 Journal of Biomedical Informatics  
The NIH Big Data to Knowledge (BD2K) initiative aims to facilitate digitally enabled biomedical research.  ...  This report reviews highlights from a two-day meeting involving the BD2K CFPWG to provide insights on trends and considerations in advancing Big Data science for biomedical research in the United States  ...  Institute for Cancer Research (OICR), the BD2K Center for Big Data in Translational Genomics (BD2K Genomics Center), and the Global Alliance for Genomics and Health (GA4GH) Table 2 , 2 Standards category  ... 
doi:10.1016/j.jbi.2017.05.006 pmid:28501646 pmcid:PMC5545976 fatcat:akpykof6sfeehcd2jhegji2pmi

NIH'sBig Data to Knowledgeinitiative and the advancement of biomedical informatics

Lucila Ohno-Machado
2014 JAMIA Journal of the American Medical Informatics Association  
The BD2K initiative was launched at NIH in 2013 through the development of several focused workshops, calls for proposals for centers of excellence, for a data discovery index, for training programs, and  ...  Working Group on Data and Informatics for the ACD in 2012 ii led to the Big Data to Knowledge (BD2K) initiative. iii Several AMIA members participated in this working group.  ... 
doi:10.1136/amiajnl-2014-002666 pmid:24509598 pmcid:PMC3932475 fatcat:eqeb5nzuozbb7dtoxdfweezkbi

Harnessing the Heart of Big Data

Sarah B. Scruggs, Karol Watson, Andrew I. Su, Henning Hermjakob, John R. Yates, Merry L. Lindsey, Peipei Ping
2015 Circulation Research  
Acknowledgments We thank Dr Ding Wang at UCLA for help in preparing the figures and Dr Edward Lau at UCLA for his critical input on the content.  ...  Sources of Funding This work was supported in part by the National Institutes of Health U54 GM114833 (to Dr Ping, Dr Watson, Dr Lindsey, Dr Su, H.  ...  The inception of the Big Data to Knowledge (BD2K) Initiative is a testament to the foresight of the NIH and our community (http://bd2k.nih.gov/).  ... 
doi:10.1161/circresaha.115.306013 pmid:25814682 pmcid:PMC4721634 fatcat:levyt7lpqvgxrpt6nccvcqqoiq

HARNESSING BIG DATA FOR PRECISION MEDICINE: INFRASTRUCTURES AND APPLICATIONS

KUN-HSING YU, STEVEN N. HART, RACHEL GOLDFEDER, QIANGFENG CLIFF ZHANG, STEPHEN C. J. PARKER, MICHAEL SNYDER
2016 Biocomputing 2017  
legal, and social issues that arise in translational research, direct to consumer genetic testing, and data sharing.  ...  Tenenbaum worked as a program manager at Microsoft Corporation in Redmond, WA for six years before pursuing a PhD in biomedical informatics at Stanford University.  ...  Recognizing such needs, National Institute of Health (NIH) spearheaded The trans--NIH Big Data to Knowledge (BD2K) Initiative in 2014.  ... 
doi:10.1142/9789813207813_0058 pmid:27897013 fatcat:y3dbcwj5ire6dhblwd5oaniozy

Integrating "big data" into surgical practice

Brittany Mathias, Gigi Lipori, Lyle L. Moldawer, Philip A. Efron
2016 Surgery  
BM was supported by a training grant in burn and trauma research from the National Institute of General Medical Sciences (NIGMS) (T32 GM-008721).  ...  In addition, PAE was also supported by P30 AG-028740 from the National Institute on Aging and R01 GM-113945-01 (NIGMS). Finally, PAE and LLM were supported by P50 GM-111152-01 (NIGMS).  ...  In addition to the NIH BD2K efforts, several other large-scale projects are working to integrate big data into the clinical arena.  ... 
doi:10.1016/j.surg.2015.08.043 pmid:26603852 pmcid:PMC4707117 fatcat:r3pcwgoaqfc7fhiwcjdgz4irs4

Enhancing Diversity in Biomedical Data Science

Judith E. Canner, Archana J. McEligot, María-Eglée Pérez, Lei Qian, Xinzhi Zhang
2017 Ethnicity & Disease  
This article pro­vides a brief description of the newly estab­lished National Institutes of Health Big Data to Knowledge (BD2K) diversity initiatives at four universities: California State University,  ...  The diversity disparities in BDS demonstrate the need for educators, researchers, and funding agencies to support evidence-based practices that will lead to the diversification of the BDS workforce.  ...  The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. Conflict of Interest  ... 
doi:10.18865/ed.27.2.107 pmid:28439180 pmcid:PMC5398168 fatcat:mdcaibycq5e7pgkk4ucxuvldr4

Translational tidbits

Michael J. Haas, Stephen Parmley, Kai-Jye Lou, Lauren Martz
2014 Science-Business eXchange  
Big drive for big data In the last month, the NIH has pledged almost $100 million for big data programs aimed at making information usable and accessible to the wider research community and to create a  ...  The Big Data to Knowledge (BD2K) initiative that was launched last December will receive an initial investment of almost $32 million in 2014 to set up 12 centers, each tasked with solving different challenges  ... 
doi:10.1038/scibx.2014.1168 fatcat:lbgv6hmrtjbjnhdstvfowu6lmq

NIH BD2K workshop report%3A "Frameworks for Community-based Standards Efforts"

Susanna-Assunta Sansone
2016 Figshare  
In order to gain a clearer understanding of community-driven standardization efforts and how NIH might bestrelate to them, BD2K held a workshop on Frameworks for Community-based Standards Efforts inSeptember  ...  This report - authored by the lead organizers and co-chairs of this workshop - elaborate on the findings,indicating directions that would help move forward the BD2K vision to allow data and other digitalresearch  ...  Acknowledgements We specifically acknowledge the invited workshop participants: George Alter (University of Michigan),  ... 
doi:10.6084/m9.figshare.3795816.v2 fatcat:aaioryi5yfctnkxqrsouv4erqm

From Big Data to Knowledge in the Social Sciences

Bradford W. Hesse, Richard P. Moser, William T. Riley, Dhavan V. Shah, Joseph N. Cappella, W. Russell Neuman
2015 The Annals of the American Academy of Political and Social Science  
The concept of translating "big data to knowledge" is important to the social and behavioral sciences in several respects.  ...  the scientific enterprise in the age of big data.  ...  It was for this reason that the NIH launched the BD2K initiative (Ohno-Machado 2014) in 2013.  ... 
doi:10.1177/0002716215570007 pmid:26294799 pmcid:PMC4539961 fatcat:m3fv4wozlbepnaj6pdarwivzbi

How Will Big Data Improve Clinical and Basic Research in Radiation Therapy?

Barry S. Rosenstein, Jacek Capala, Jason A. Efstathiou, Jeff Hammerbacher, Sarah L. Kerns, Feng-Ming (Spring) Kong, Harry Ostrer, Fred W. Prior, Bhadrasain Vikram, John Wong, Ying Xiao
2016 International Journal of Radiation Oncology, Biology, Physics  
Because data are fundamental to their craft, these investigators have been on the front lines of the Big Data deluge in recent years.  ...  Thus, the tremendous quantity of information produced in both basic and clinical research in radiation therapy can now be considered as having entered the realm of Big Data.  ...  Jatinder Palta are thanked for the information concerning EUROCAT and VA system, respectively.  ... 
doi:10.1016/j.ijrobp.2015.11.009 pmid:26797542 pmcid:PMC4864183 fatcat:2cqg7gkca5hpxn4ekmfcup664q

Big Data Technologies

Riccardo Bellazzi, Arianna Dagliati, Lucia Sacchi, Daniele Segagni
2015 Journal of Diabetes Science and Technology  
This article reviews the main concepts and definitions related to big data, it presents some efforts in health care, and discusses the potential role of big data in diabetes care.  ...  Second, the availability of novel diabetes technologies, able to gather large amounts of real-time data, requires the implementation of distributed platforms for data analysis and decision support.  ...  of the company Biomeris, involved as software provider in the Mosaic project.  ... 
doi:10.1177/1932296815583505 pmid:25910540 pmcid:PMC4667334 fatcat:ttnwjfxxe5dphfczqyl2o2hzwa

Overview of the American Society for Radiation Oncology–National Institutes of Health–American Association of Physicists in Medicine Workshop 2015: Exploring Opportunities for Radiation Oncology in the Era of Big Data

Stanley H. Benedict, Karen Hoffman, Mary K. Martel, Amy P. Abernethy, Anthony L. Asher, Jacek Capala, Ronald C. Chen, Bhisham Chera, Jennifer Couch, James Deye, Jason A. Efstathiou, Eric Ford (+16 others)
2016 International Journal of Radiation Oncology, Biology, Physics  
Radiation Oncology in the Era of Big Data," August 13-14, 2015, included Stanley H.  ...  Acknowledgments The Organizing Committee for the American Society for Radiation Oncology-National Institutes of Health-American Association of Physicists in Medicine workshop "Exploring Opportunities for  ...  Examples include the NIH Big Data to Knowledge program (https://datascience.nih.gov/bd2k) and the NCI's Informatics Technology for Cancer Research program (http://itcr.nci.nih.gov/).  ... 
doi:10.1016/j.ijrobp.2016.03.006 pmid:27302503 pmcid:PMC4965164 fatcat:cq2zwihthfatpgelgusvacloke

Integrating emerging areas of nursing science into PhD programs

Susan J. Henly, Donna O. McCarthy, Jean F. Wyman, Patricia W. Stone, Nancy S. Redeker, Ann Marie McCarthy, Anna C. Alt-White, Jacqueline Dunbar-Jacob, Marita G. Titler, Shirley M. Moore, Margaret M. Heitkemper, Yvette P. Conley
2015 Nursing Outlook  
Acknowledgments Yvonne Bryan, PhD, served as the NINR liaison for this work. Laura Smothers, MPA, Manager, Council for the Advancement of Nursing Science, provided logistical and advisory support.  ...  The University of Minnesota School of Nursing, Public Health and Systems Cooperative Unit provided phone conferencing for IFAC. Their contributions are acknowledged with appreciation.  ...  As noted in the background materials for the NIH Big Data to Knowledge (BD2K) initiative, data mining and data visualization are essential to the search for the discovery of meaningful patterns across  ... 
doi:10.1016/j.outlook.2015.04.010 pmid:26187080 fatcat:n2x4cevax5d2zg7ljnepsebsgq
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