Christof Koch, Ph.D.
President and Chief Scientific Officer, Allen Institute for Brain Science
Emery N. Brown, M.D., Ph.D. Professor of Computational Neuroscience and Health Sciences and Technology, Department of Brain and Cognitive Sciences MIT-Harvard Division of Health Sciences and Technology
Drs. Koch and Brown will describe the computational or experimental challenges associated with Big Data in their respective domains of neuroscience. From the basic to applied realms, science is being transformed by the collection of data on increasingly finer resolutions, both spatially and temporally. Storing, accessing, and analyzing these data create numerous challenges as well as opportunities.
Location: Masur Auditorum, Building 10, NIH Main Campus, Bethesda, MD
Videocast: This event will be videocast. Videocast details will be made available closer to the event date.
Attending the seminar: This is a public event at the National Institutes of Health. All individuals interested in the seminar may attend. If this will be your first time visiting the NIH we strongly encourage you to review the visitor information at http://www.nih.gov/about/visitor/index.htm and allow extra time for security and transit. Individuals with disabilities who need Sign Language Interpreters and/or reasonable accommodation to participate in this event should contact Sonynka Ngosso, at (301) 402-9816. Requests should be made at least 5 business days in advance of the event.
About the Speakers:
Christof Koch, Ph.D. is the President and Chief Scientific Officer of the Allen Institute for Brain Science. His research interests include elucidating the biophysical mechanisms underlying neural computation, understanding the mechanisms and purpose of visual attentn, and uncovering the neural basis of consciousness and the subjective mind. Dr. Koch has published extensively, and his writings and interests integrate theoretical, computational and experimental neuroscience. His most recent book, Consciousness: Confessions of a Romantic Reductionist, blends science and memoir to explore topics in discovering the roots of consciousness. Stemming in part from a long-standing collaboration with the late Nobel Laureate Francis Crick, Koch authored the book The Quest for Consciousness: A Neurobiological Approach. He has also authored the technical books Biophysics of Computation: Information Processing in Single Neurons and Methods in Neuronal Modeling: From Ions to Networks, and served as editor for several books on neural modeling and information processing.
Emery N. Brown, M.D., Ph.D. is the Warren M. Zapol Professor of Anaesthesia at Harvard Medical School; an anesthesiologist at Massachusetts General Hospital (MGH); and the Edward Hood Taplin Professor of Medical Engineering and Computational Neuroscience at Massachusetts Institute of Technology. Dr. Brown received his B.A. (magna cum laude) in Applied Mathematics from Harvard College, his M.A. and Ph.D. in statistics from Harvard University and his M.D. (magna cum laude) from Harvard Medical School. Dr. Brown completed his internship in internal medicine at the Brigham and Women’s Hospital and his residency in anesthesiology at MGH.
Dr. Brown is an anesthesiologist-statistician whose experimental research has made important contributions to understanding the neuroscience of how anesthetics act in the brain to create the states of general anesthesia, using the EEG to accurately monitor the anesthetic state and devising new approaches to precisely control the anesthetic state. Dr. Brown is also widely recognized for his statistics research in which he has developed statistical methods to analyze dynamic processes in neuroscience.
Dr. Brown served on the NIH BRAIN Initiative Working Group and is member of the International Anesthesia Research Society Board of Trustees. Dr. Brown is the recipient of an NIH Director’s Pioneer Award, an NIH Director’s Transformative Research Award, the 2011 Jerome Sacks Award from the National Institute of Statistical Science, 2015 Guggenheim Fellowship in Applied Mathematics and the American Society of Anesthesiologists 2015 Excellence in Research Award.
He is a fellow of the American Statistical Association, the IEEE, the American Association for the Advancement of Science and the American Academy of Arts Sciences. Dr. Brown is the first and only anesthesiologist to be elected a member of all three branches of the National Academies: the National Academy of Medicine (formerly the Institute of Medicine), the National Academy of Sciences and the National Academy of Engineering.
The Division of AIDS, NIMH Division of AIDS Research, NIH Big Data to Knowledge, and the Bill and Melinda Gates Foundation are hosting a meeting, Harnessing Big Data to Stop HIV to further explore the potential for Big Data approaches to answer questions in HIV research. Over one and a half days, sessions will address examples of Big Data research, legal and ethical issues, and statistical and methodological challenges and solutions. Following a series of talks on these topics, there will be break-out sessions focused on five critical research areas: (1) HIV among women and girls, (2) HIV among men who have sex with men, (3) identification of those recently infected with HIV (4) the HIV continuum of care, and (5) ethical, legal and policy challenges in big data research on HIV. In the breakout groups, participants will work together to define research questions that could be addressed with Big Data approaches, as well as new challenges that would arise in the use of Big Data techniques in each of these areas.
Registration is required and webcasting will be available. This meeting is a companion to the new funding annoucement NIH PA-273, Harnessing Big Data to Stop HIV which is being solicited by NIAID, NCI, NIDA, and NIMH.
Location: 5601 Fishers Lane, Bethesda Maryland
The organizing committee:
Pim Brouwers, NIMH Sam Garner, NIAID
David Burns, NIAID Rosemary McKaig, NIAID
Liza Dawson, NIAID Joana Roe, NIAID
Elizabeth Flanagan, NIAID Carolyn Williams, NIAID
Precision medicine’s promise to deliver the right treatment at the right time relies on our ability to extract information from high-dimensional data sets that combine traditional clinical data in electronic health records with data generated by high- throughput technologies. To meet this challenge, new approaches for data representation, integration, analysis, visualization and sharing need to be developed collaboratively by quantitative scientists, biomedical researchers, clinicians, and bioethicists. This joint Mayo Clinic and University of Minnesota week-long Big Data Coursework for Computational Medicine (BDC4CM) funded by the U.S. National Institutes of Health (NIH). BDC4CM will emphasize how to navigate the interface between research and practice by offering participants in-depth lectures, case studies and hands-on training from leading researchers in academia and industry. This short course will be held at the Mayo Clinic in Rochester, MN and is supported by an award from the BD2K Enhancing Training program. Additional information about this course can be found at http://bdc4cm.org/.
The OHSU BD2K Skills Courses provide a series of training opportunities for a variety of learners. A set of interactive on-line preparatory elements with one-on-one mentoring from data scientists is in place to provide initial competence. For all students, we utilize an in-person collaborative case study focused on a set of big data challenges over a week of in-depth instructions. For advanced students, we have selected extremely challenging problems to promote new methodologies in big data science.
The next offering of the OHSU BD2K Skills Course will be held July 6-10th, 2015, 9am-5pm daily at Oregon Health Sciences University (OHSU) in Portland, OR and is focused on early learners and undergraduate interns. This course will cover the basics of data science in research including:
The 1st Summer Institute in Statistics for Big Data (SISBID 2015) consists of a series of two-and-a-half day workshops (modules) designed to introduce biologists, quantitative scientists, and statisticians to modern statistical techniques for the analysis of Biological Big Data. The format will involve formal lectures, computing labs, and hands-on case studies. The instructors are world-class faculty with expertise in all aspects of Biological Big Data. Participants are encouraged to enroll in multiple modules.
Dates: July 6-22, 2015
Location: University of Washington in Seattle, Washington
Five modules are available during the Institute:
President Obama launched the Precision Medicine Initiative on January 30th. That event led us to organize a conference at HMS on Precision Medicine. The theme of this inaugural conference of a planned series is Precision Medicine: Patient Driven.
There will be a lot of interesting and interested people at the conference. It will start with a keynote by Matt Might and include talks by Krishna Yeshwant, Linda Avey and Arlene Sharpe. In this 1.5 day meeting there will be expert panels on how we are going to pay for precision medicine, on the ethical and regulatory challenges, delivering precision medicine to the point of care, and several inspiring examples of patient-driven successes.
Location: Joseph Martin Conference Center, Harvard Medical School
Sponsor: BD2K Centers - Patient Centered Information Commons
Agenda: Preliminary Agenda
This intense (and fun), 4-day, hands-on learning event will introduce data scientists and biomedical investigators at the graduate level and above who understand basic statistical principles to:
The CCD short course is directed by Dr. Richard Scheines, a leader in the field of statistical causal models and a pioneer in education technology. Attendees will also learn from and work with other CCD members who are experts in data science and biomedical research at the University of Pittsburgh, Carnegie Mellon University, and the Pittsburgh Supercomputing Center. For more information on the course, please see the attached announcement and visit the CCD Summer Short Course
Short Course Dates: Monday, June 8 – Thursday, June 11, 2015
Location: Carnegie Mellon University, Pittsburgh, PA Registration
Friday, May 15, 2015 – closed at 75 registrants RE-OPENED temporarily (25 additional slots)
Online Registration: https://adobeformscentral.com/?f=ahFfhYU17t5vn6bCzaYFsA
Costs: No registration fee, but attendees will be responsible for travel, housing (discount dorm and hotel rooms available), and most meals
Please join us for the newest installment in the MD2K Webinar Series:
Contactless Physiological Sensing in the Mobile Environment using Ultrawideband Radio-frequency Probes
Emre Ertin, Ph.D.
Sensor Platform Technologist, MD2K Center
Research Associate Professor
Department of Electrical and Computer Engineering
The Ohio State University
About the topic:
Physiological monitoring in the mobile environment can provide visibility into the health status of individuals such as cardio-respiratory state, psychological health, addictive behavior, and patterns of social interaction. Physiological monitoring today, however, require wearing of ECG electrodes, or respiration belts, and are therefore only suitable for small-scale research studies for short-term data collection in the field. In this talk, we will review our recent efforts in development of non-contact radio-frequency(RF) sensors for unobtrusive monitoring of physiology in the mobile environment that can enable large scale research studies into the potential causes of complex diseases and risky behavior. The talk will give a brief overview of the Easysense sensor design, a low-power micro ultrawideband (UWB) radar platform for monitoring of body composition and heart-lung motion. We will also present algorithms for learning and exploiting subspace structure of high dimensional data from EasySense sensor for detecting and analyzing heart and lung motion.
About the speaker:
Emre Ertin, Ph.D., is a Research Associate Professor with the Department of Electrical and Computer Engineering at The Ohio State University. He received the B.S. degree in Electrical Engineering and Physics from Bogazici University in Turkey in 1992, the M.Sc. degree in Telecommunication and Signal Processing from Imperial College, U.K. in 1993, and the Ph.D. degree in Electrical Engineering from Ohio State in 1999. From 1999 to 2002 he was with the Core Technology Group at Battelle Memorial Institute. His current research interests are biomedical sensor design and statistical signal processing with application to sensor networks and mobile health.
To join the Meeting:
To join via Browser:
To join with Lync:
MD2K Webinars are a service of the MD2K Center of Excellence for Mobile Sensor Data-to-Knowledge, a NIH Big Data to Knowledge Center of Excellence for Big Data Computing
During this hackathon at the Scripps Hazen Campus in La Jolla, CA we will work on projects relating to any of the major challenges of biomedical big data.
These may include:
When: May 7-9, 2015
Where: The Scripps Research Institute (TSRI) Hazen Campus in La Jolla, CA
Registration: Register Here
Fees: $30.00. Max 50 participants - first come first served! Includes food & drinks, eligibility for prizes, and a fancy t-shirt.
Scholarships: Several scholarships will be available to promote education and diversity. Please fill out this form to be considered for a travel award or scholarship.
This event is sponsored by the Heart of Data Science BD2K Center of Excellence , the CEDAR BD2K Center of Excellence, and the NHLBI Proteomics Center / COPaKB, and is supported by the International Society for Biocuration, Sage Bionetworks, the European Bioinformatics Institute, the BioCaddie BD2K Data Discovery Index, the San Diego Center for Systems Biology, and Geek Girls.
Please send questions or comments about this event to the Network of Biothings mailing list at https://groups.google.com/forum/#!forum/network-of-biothings or to gstupp at scripps
The Mobile Data to Knowledge (MD2K) Center is offering a webinar by Dr. Susan Murphy titled "Micro-randomized Trials for Just-in-time Adaptive Intervention Development, to be held Thursday, April 30 at 4:00 pm CT (5pm ET). This seminar is being offered as part of a BD2K-funded Center of Excellence.
Micro-randomized trials are trials in which individuals are randomized 100's or 1000's of times over the course of the study. The goal of these trials is to assess the impact of momentary interventions, e.g. interventions that are inte to impact behavior over small time intervals. We discuss the design and analysis of these types of trials with a focus on their use in developing JITAIs in mobile health.
Join the webinar at: https://bluejeans.com/494037473/
Susan A. Murphy, Ph.D., is the H.E. Robbins Distinguished University Professor of Statistics, Professor of Psychiatry and Research Professor, Institute for Social Research, University of Michigan She directs the Statistical Reinforcement Learning Lab at the University of Michigan. Her research concerns clinical trial design and the development of data analytic methods for informing multi-stage decision making in health. In particular for (1) constructing individualized sequences of treatments (a.k.a., adaptive interventions) for use in informing clinical decision making and (2) constructing real-time individualized sequences of treatments (a.k.a., Just-in-Time Adaptive Interventions) delivered by mobile devices. Dr. Murphy has developed a formal model of this decision-making process and an innovative design for clinical trials called Sequential Multiple Assignment Randomized Trial (SMART) that allow researchers to test the efficacy of adaptive interventions. In 2014, she was elected a member of the National Academies’ Institute of Medicine, and in 2013, she was selected as a MacArthur Fellow.
The NIH recently issued the Funding Opportunity Announcement (FOA) RFA-CA-15-006 "Big Data to Knowledge (BD2K) Advancing Biomedical Science Using Crowdsourcing and Interactive Digital Media (UH2)." An applicant informational webinar will be held on April 29, 2015, from 2:00 p.m. to 3:00 p.m. (Eastern Daylight Time) to provide information about this FOA to assist prospective applicants. NIH staff will discuss the FOA's goals and objectives, the review process, and address questions. The webinar is open to all prospective applicants, but participation in the webinar is not a prerequisite to applying.
To participate in the webinar use the information provided below
Meeting number:733 334 360
Meeting Password: BigData1@
Please direct all inquiries to:
David J. Miller, Ph.D.
National Cancer Institute (NCI)
Hosted by the National Institutes of Health (NIH), National Oceanic & Atmospheric Administration (NOAA), The Office for Science and Technology Policy (OSTP), The Governance Lab (The GovLab/NYU)
This workshop will bring together government agencies, companies, data scientists and academics. This diverse set of participants will harness various competencies and areas of expertise to address existing knowledge gaps in the nascent field of data sharing. The focus of the discussion will be on the following issues:
The goal of the workshop is to identify and begin to address existing knowledge gaps for each of these areas. In doing so, the workshop will seek to deepen the value proposition of cross-sectoral sharing; foster greater participation and coordination among corporations and public organizations; and more generally enable the use of data and data sharing towards the greater public good.
This workshop is open to invited participants only.
The National Institutes of Health will hold a Pi Day Celebration on the NIH main campus in Bethesda, MD and online on Pi Day Eve, March 13, 2015. The goal of the NIH Pi Day Celebration is to increase awareness across the biomedical science community of the role that the quantitative sciences play in biomedical science.
Event URL: http://nihpiday.nihlibrary.com/
Videocast: Event will be videocast LIVE on the Web at http://videocast.nih.gov
Chairs: Melissa Haendel, Ph.D. and Christopher Chute, M.D., Dr.P.H.
NIH Lead Organizers: Cindy P. Lawler, Ph.D.
Executive Summary: https://datascience.nih.gov/sites/default/files/bd2k/docs/ExecSumm_CBDMSworkshopFEB2015.pdf
BD2K is formulating approaches to encourage development and facilitate the use of data-related (including metadata) standards more broadly across the biomedical research community and is, therefore, interested in the issues involved in developing Community-Based Standards (CBS). The goals of this workshop are:
This workshop is open to invited participants only.
Co-Chairs: Michael Kahn, M.D., Ph.D. and David Madigan, Ph.D.
NIH Lead Organizers: Elaine Collier, M.D. and Gina Wei, M.D., M.P.H.
This think tank convened a small number of experts specifically to address methods for optimizing the robustness and use of data from the Electronic Health Records (EHR) for a variety of clinical research purposes that fall within NIH’s domain. Given the potential broad scope of this topic, participants were asked to focus primarily on issues related to the use of EHR on the ‘back end’ (i.e. the imperfect data as currently collected), rather than strategies to improve the quality of EHR data collected on the ‘front end’ (e.g., data entered by clinicians). Experts in accessing EHR data and experts in study design and analysis methods for research using EHR data presented the challenges, solutions, and needs based on their experience and knowledge of the field.
Workshop Report: EHR Data Methods Workshop Report
Agenda (with links to slides presentations): EHR Data Methods Workshop
As a component of the BD2K program, the National Institutes of Health is hosting a diverse group of game developers and biomedical researchers in a think tank exploring research games and the application of game methods and technologies for biomedical research. The purpose of this think tank is to explore the opportunities in and begin to address challenges of how these two communities – Game Developers and Biomedical Researchers – currently collaborate, exchange data science & visualization expertise, and develop games for enabling and performing biomedical research that addresses important science and health issues that affect everyone. This day and a half meeting will focus discussions on the following themes: 1) the technical and social infrastructure that enables Game Developers and Scientific Researchers to first find each other and then create new games, tools, and interfaces to research, 2) the common elements across biomedical research problems and games that both communities can address, and 3) the marketplace for matching games-amenable problem holders to solution providers.
Join Day 1 WebEx (Dial In #: 1-240-276-6338)
Meeting ID #: 732 503 587
Join Day 2 WebEx (Dial In #: 1-240-276-6338)
Meeting ID #: 731 351 883
Co-Chairs:Lisa Brooks & Ron Margolis
The intention of this meeting is for the DDICC and BD2K Center investigators to discuss the goals of their consortia and how to collaborate with each other, other BD2K projects, and the NIH Commons.
The goal of this workshop was to gather a group of external experts in biomedical data science, including some members of the original Data and Informatics Working Group, to discuss the future of data science at NIH. The information gathered at the meeting will be used to chart future efforts of the newly-formed ADDS office and the BD2K program.
Agenda: ADDS Meeting Agenda
Participant List: ADDS Meeting Attendees
Co-Chairs: Dr. Owen White and Dr. Asif Dhar
The Software Discovery workshop explored the challenges and opportunities associated with citing, tracking, and sharing biomedical software. We were interested in gaining an understanding of approaches for making software easier to locate via computer-readable meta-data, digital identifiers, and other methods. In addition, the workshop focused on identifying the needs of biomedical software users and developers as they seek to find, cite, and use these tools in biomedical research. Finally, we identified potential barriers and incentives to adoption and use of these different discovery, citation, tracking methods. The workshop was organized around three major sessions: Finding and Tracking Software; Software Citation and Other Incentives; and Software Reproducibility.
Videocast Day 1: http://videocast.nih.gov/summary.asp?live=14073
Videocast Day 2: http://videocast.nih.gov/summary.asp?live=14171
Chairs: Dr. Jennie Larkin & Dr. Ajay Pillai
An Applicant Information Webinar will be held on Monday, January 13, 2014, from 1:00 – 2:30 pm ET, to provide information about the Library of Integrated Network-based Cellular Signatures (LINCS) FOA to prospective applicants. This FOA seeks applications to develop a data coordination and integration center (DCIC) that will address the opportunities and challenges provided by two major NIH efforts: Big Data to Knowledge (BD2K) and the Library of Integrated Network-Based Cellular Signatures (LINCS). The NIH expects that this BD2K-LINCS DCIC will focus on perturbagen-response data and signatures while ensuring that the resulting resources are effectively utilized by the community by addressing challenges related to biomedical Big Data. A successful DCIC will ensure consistent annotation of data and tools generated within the LINCS program; incorporate (without replicating databases) relevant non-LINCS perturbation data into the LINCS resource; support integration of relevant data, signatures, and tools to allow for seamless exploration of the (LINCS) program’s output by a broad range of biomedical researchers; support linkages to outside knowledge bases, data portals, and resources; support training in perturbation-data science skills; build innovative access and query tools to disparate databases hosting multiple data types; and disseminate the resulting tools and resources to the broad range of biomedical researchers. Related FOAs of relevance to the DCIC include RFA-RM-13-013 soliciting applications for LINCS data and signature generation and RFA-HG-13-009 soliciting applications for BD2K Centers of Excellence.
Funding Opportunities: http://grants.nih.gov/grants/guide/rfa-files/RFA-HG-14-001.html
Information on how to participate in the webinar:
Audio: Dial: 1-800-779-8174
Participant Code: 38-60-157
Slides with background information that will be displayed during the webinar will be available at www.lincsproject.org shortly before the webinar begins. A document with the questions and responses addressed during the webinar, and an audio recording of the webinar will also be made available on this website.
Co-Chairs: Susanna Sansone, PhD and David Kennedy PhD.
The overall goal of this workshop is to learn what has worked and what has not worked in community-based standards efforts. Participants will have experience in leading specific community based standards initiatives. Prior to the workshop, participants will be asked to address in writing answers to specific questions regarding formulating, conducting, and maintaining such efforts. This information will be used to facilitate focused and actionable discussion at the workshop. Issuance of a Request for Information soliciting comment from the broader community on some of the key issues addressed in the workshop is currently envisioned.
Agenda: Frameworks for Community-Based Standards Efforts (PDF 40.7KB)
Participant List: Roster of Invited Participants (PDF 32KB)
Chair: Dr. Carson Loomis
This webinar will provide information about the FOA (RFA HG-13-009)to prospective applicants. NIH staff will provide an overview of the FOA and answer questions. The webinar is open to all prospective applicants. Participation in the teleconference is not a prerequisite for applying, and is not required for a successful application.
Potential applicants are encouraged to submit their questions or comments toBD2KCenterRFA@mail.nih.gov prior to the meeting. Afterwards, the webinar slides and a summary of the questions and answers will be posted on the site.
Click here for Frequently Asked Questions (FAQs) and answers; this information may be updated without additional notice.
Video Transcript: Centers of Excellence for Big Data Computing in Biomedical Sciences (U54) Webinar (PDF 71KB)
Co-Chairs: Robert M. Califf, M.D. and Daniel R. Masys, M.D.
This workshop will identify actionable steps that NIH can take (alone and with others) to enable research use of clinical data, e.g., in pragmatic clinical trials, observational studies, and genome-phenome relationships using electronic health records and other clinical data. In particular, we will consider needs for: 1) research and development of new technologies and methods; 2) common infrastructure to enable the future research scenarios; and 3) policy changes necessary to facilitate progress. Read More
Videocast Day 2: http://videocast.nih.gov/summary.asp?Live=13124
Chair: Francine Berman, Ph.D.
This workshop seeks to identify the least duplicative and burdensome, and most sustainable and scalable method to create and maintain an NIH Data Catalog. An NIH Data Catalog would make biomedical data findable and citable, as PubMed does for scientific publications, and would link data to relevant grants, publications, software, or other relevant resources. The Data Catalog would be integrated with other BD2K initiatives as part of the broad NIH response to the challenges and opportunities of Big Data and seek to create an ongoing dialog with stakeholders and users from the biomedical community.
Co-chairs: Karen Bandeen-Roche, Ph.D and Zak Kohane, M.D., Ph.D.
This workshop provided recommendations that will guide NIH staff in the development of long- and short-term training initiatives, which aim to prepare and empower the biomedical research community to take full advantage of Big Data. The workshop will (a) identify the knowledge and skills needed by individuals and by collaborating teams to work productively with biomedical Big Data, and (b) discuss resources and programs needed to help both trainees and practicing scientists acquire the identified knowledge and skills.
Agenda: Workshop on Enhancing Training for Biomedical Big Data Agenda (PDF 149KB)
Videocast Day 1: http://videocast.nih.gov/summary.asp?live=12972
Videocast Day 2: http://videocast.nih.gov/summary.asp?live=12974