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Please look for the DataScience@NIH Updates on its new delivery day, Tuesday, beginning on July 11, 2017. Submissions: We welcome your input! Submissions must be received prior to 12:00 noon ET on Monday to be included in that same week's edition. If you are requesting attendance at an event by Federal employees, it is recommended that you submit your event information a minimum of one month in advance. To submit a news item, contact: Grace.Middleton@nih.gov. DataScience@NIH New This Week SYMPOSIUM AND WEBCAST: Principles for Data-Driven Decision Making September 7, 2017 The abundance of large and complex data, coupled with powerful modeling techniques and analytic methods, creates tremendous opportunities for organizations and individuals to base their decisions on empirical evidence. However, to appreciate both the capabilities and limitations of these data and tools, decision makers need some understanding of data science principles. The National Academies of Sciences, Engineering, and Medicine invite you to attend our upcoming symposium and webcast on data-driven decision making that will take place on September 14, 2017, from 9:00 am–5:00 pm at the Keck Center in Washington, DC. The event will highlight simple principles that can support data-driven decision making and help decision makers learn the right questions to ask when presented with new analyses. Register here to attend in person or online. About Math and Statistics at the National Academies The Board on Mathematical Sciences and Analytics (BMSA) leads activities in the mathematical sciences at the National Academies in topic areas including applied mathematics, scientific computing, and risk analysis. The Committee on Applied and Theoretical Statistics (CATS) organizes studies and events focusing on the statistical sciences, big data and data science, statistical education, the use of statistics, and issues affecting the field. CATS occupies a pivotal position in the statistical community, providing expertise in methodology and policy formation. NIH Data Science Week 2017 September 7, 2017 The NIH Data Science week is a biannual series of talks and workshops focused on data science hosted by the Data Science and Bioinformatics Scientific Interest Groups. Monday, September 18th 9 am–12 pm EDirect workshop at NLM NCBI staff will offer a workshop on EDirect, NCBI's suite of programs for easy command line access to literature and biomolecular records. To join the workshop, please register. 1 pm–3:30 pm Containerization Workshops and Roundtable–Natcher Balcony A Details: 1:30–2:10 Docker presentation; 2:10–2:50 Singularity Presentation; 2:50–3:30 Containerization, HPC and cloud roundtable. Tuesday, September 19th 11 am–12 pm Speaker: Sarah Pendergrass from Geisinger–NLM Visitor Center, Bldg 38A (Lister Hill Center) Lobby From Learning Health Care to Genetic Research: Precision Medicine In Action at Geisinger Health System Learning Health Care is now becoming a reality within Geisinger Health System. The MyCode Community Health Initiative of Geisinger Health System has whole exome sequencing data and whole genome array genotyping for more than 90,000 individuals to date, and is continuing to expand. Geisinger provides primary and specialty care across the life span, and the biorepository of genetic data are linked to de-identified longitudinal health records. With the breadth of data being collected, Geisinger is returning genetic results to patients and engaging in a variety of research to bring additional clinical and genetic findings back to the clinic. This talk will cover return of results at Geisinger and new research within the Pendergrass Lab. *** There are still a few spots available so speak directly with Sarah Pendergrass. If interested, please email bioinformatics-training@ Thursday, September 21st 11 am–12 pm Speaker: Jake Lever from UBC–NLM Visitor Center PubRunner: Keeping text mining up-to-date with the latest publications Biologists face a daunting challenge when trying to read all relevant scientific literature for their field. Text mining tools are designed to assist them by aiding search, summarizing the latest research and identifying important patterns in the literature. However, many published tools lay dormant, as code is not public and any results shared become out-of-date as new publications enter the field. Through the NCBI hackathons initiative, we have built PubRunner, a framework for managing download of the latest publications, execution of text mining tools, and sharing of the results. This effort aims to help research groups keep text mining tools alive and make text mining results even more valuable to the biology community. 3 pm–4 pm Speaker: Imran Haque from Freenome–NLM Lindberg Room, Bldg 38 Embracing heterogeneity: statistical limitations and opportunities in early detection liquid biopsies The discovery of tumor-derived circulating cell-free DNA (ctDNA) in cancer patients has ignited interest and investment in developing blood-based assays to detect cancer at early, treatable stages. The existence of many analytical methods (dPCR, BEAMing, UMI-tagged high-depth NGS) to detect mutated tumor-derived material combined with increasing knowledge of the characteristics of tumor genomes has driven an empirical approach of "more is better" to translate assays developed on late-stage cancer patients to the early detection setting. However, there exists a lack of data and analysis on the feasibility of such a translation. In this presentation, Imran will analyze fundamental statistical challenges in liquid biopsy, including benign somatic heterogeneity, and quantitative limitations in the analysis of patient samples. He will further demonstrate that these limitations arise from upstream statistical assumptions about the nature of the problem and that relaxing these assumptions admits potential solutions of a different flavor: making use of modern machine learning to integrate both prior data as well as multi-analyte analysis on individual samples to address the fundamental challenges of liquid biopsy. *** There are still spots available so speak directly with Imran. If interested, please email bioinformatics-training@ Upon approval by presenters, materials or links will be available at https://www.slideshare.net/
Reminders You May Need Data Science Opportunities: DC DATACON: A focus on the applied tools, technologies, and methodologies that make data science work. Join the conversation! Data Community DC is proud to partner with George Washington University on Tuesday, October 3, 2017, to bring together nearly 1,000 stakeholders in the data community of the National Capital Region. Are you part of the data science community in the Mid-Atlantic Region? Commercial, government, academia, research, and nonprofit—come gather with your community and be a part of charting the path ahead. Join us to participate in a robust agenda of highly relevant speakers and presenters. DC DATACON seeks to inspire conversation as the Mid-Atlantic region lays the groundwork for the direction data science will take in years to come. At this inaugural DC DATACON, we aim to explore topics that focus on the things that we need to do to make sure our work as data scientists has a real, tangible impact including organization, design, and technology. We will drive conversations about getting data science out of the lab and into the enterprise so we can finally begin using data as a strategic asset. Looking into our special concentration of public and private sector organizations, this region is ripe with qualified people to engage in the dialogue. Come participate in discussions focused on the impact data science has on industries including intelligent transportation, unmanned aerial systems, cybersecurity, public policy, defense, and intelligence. https://www.ncsi.com/ The NIH Data Science Mentoring program is now accepting applications from NIH-affiliated individuals interested in participating in the program as either a mentor or a learner. Skills in the area broadly defined as data science, like programming in languages like R and Python, machine learning, and data visualization, are increasingly important in many areas of biomedical research. This program provides an opportunity for mentors with experience in these areas to help learners acquire the skills they need. We suggest mentors and learners meet for up to one hour every other week at a place and time convenient to both of them, but mentoring pairs can establish a mutually-agreed-upon approach that works best for them. There is no required ongoing commitment; either mentor or learner can opt out at any time. Mentors and learners will receive a guidelines document to help them make the most of the mentoring experience and the program committee welcomes questions and feedback. The program committee will make an effort to pair everyone who applies, but because we typically receive more applications from learners than from mentors, we cannot guarantee that we will be able to pair every learner with a mentor at this time. To sign up as either a mentor or a learner, please complete the form at https://goo.gl/forms/ Data Science Rotation for Advancing Discovery Trip (RoAD-Trip) The BD2K Training Coordinating Center (TCC) has developed the Data Science Rotations for Advancing Discovery (RoAD-Trip) program to specifically foster new collaborations among junior biomedical researchers and senior-level data scientists to address the challenge of translating complex data into new knowledge. Applications are due September 16, 2017. The BD2K Training Coordinating Center has been creating and populating the Educational Resource Discovery Index (ERuDIte), a database of 10,000+ data science educational resources from collective BD2K activities and from around the web.
The bioCADDIE DDICC Core Team is pleased to announce the release of DataMed v3.0! DataMed is designed to be for data what PubMed has been for scientific literature. This version of the Data Discovery Index (DDI) prototype includes many additional datasets and reflects considerable user/stakeholder input. The user interface has also been updated to reflect this input.
Data Science Events: Virtual Workshop for Advanced OpenSim Users October 23-27, 2017. The National Center for Simulation in Rehabilitation Research will host a virtual workshop intended for OpenSim users who want assistance from the OpenSim team on specific research projects. Participants will work on their projects while getting assistance from OpenSim experts remotely through videoconferencing and a specialized chat room. Applications to participate are due September 15, 2017. Learn more about the workshop. Submissions: We welcome your input! Submissions must be received prior to 12:00 noon ET on Monday to be included in that same week's edition. If you are requesting attendance at an event by Federal employees, it is recommended that you submit your event information a minimum of one month in advance. To submit a news item, contact: Grace.Middleton@nih.gov.
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Tuesday, September 12, 2017
DataScience@NIH Updates from the NIH Interim Associate Director for Data Science
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