Over 130 members of the tranSMART Community gathered at the University of Michigan earlier this week at our Annual Meeting. Over the course of the 3 days we heard from 37 speakers and 70 sessions, and we heard from scientists using the tranSMART Platform as well as technologists extending its capability. For a full review of the meeting, see the presentation decks and recordings on our website and in the lanyrd.com meeting site: http://lanyrd.com/2014/transmart/.
Attending the Annual Meeting or remotely joining our Double Hackathon on Oct 14-16? Check out key information on how to prepare at THIS LINK. The link above gives advice and key information on how to prepare for sessions. You can get more information from Jay Bergeron (Jay.M.Bergeron@pfizer.com) on behalf of the 3C Code Committee.
We know travel budgets are tight for everyone. And there is all that work piling up back at the lab. But the 2014 tranSMART Annual Meeting has so many really interesting talks that you just don't want to wait for the video to be posted. Well the Foundation has just announced a series of Go To Webinar and Go To Meeting options for you to tune in to one or all of the presentations! Please visit our REMOTE PARTICIPATION SITE and find out how to join us in the virtually. Please note that you will need to register for some of these ahead of time. And you can find the full agenda at lanyrd.com.
The tranSMART Community relies on a robust and growing Marketplace to maximize the use of our Platform and expand our community of users. Michael Braxenthaler will lead a discussion at our 2014 Annual Meeting next week on defining and growing our Marketplace. Michael will share with you his ideas on where we are and some ideas to consider before the formal Meeting in two webinars on Thursday Oct 9th. Please consider joining one of them to hear Michael's approach and give feedback prior to the formal discussion as part of the 3C Community Committee Working Group on the Marketplace on Wednesday Oct 15th. Register for one of the events below: Thursday October 9th, 2014 8AM-9Am EST - https://attendee.gotowebinar.com/register/8444759835968219906 Noon - 1PM EST - https://attendee.gotowebinar.com/register/2500374465211277570
BioIT World, Oct 1 2014. By Bio-IT World Staff. The U-BIOPRED project began with a big goal: to understand the factors that define severe asthma cases, splitting the disease into meaningful subtypes that may let doctors form better prognoses and treatment strategies. Ultimately, the project hopes to discover biomarkers that could be used to quickly diagnose subtypes of asthma, or even lead to new therapies. To do that, researchers are combining data from longitudinal clinical studies of both adults and children, and animal, in vitro and in silico models of the disease. Under the U-BIOPRED banner, a battery of multi-omics technologies is producing an unprecedented wealth of data on the cellular changes that underlie severe asthma. BIOPRED, or Unbiased BIOmarkers in PREDiction of respiratory disease outcomes, is a project of the Innovative Medicines Initiative (IMI), the largest European public-private partnership in the field of medicine, with a specific goal of laying the groundwork for new pharmaceuticals. The IMI invested €20 million ($25.4 million) in U-BIOPRED, distributed to a consortium that includes 20 academic institutions, ten members of the commercial European Federation of Pharmaceutical Industries and Associations, six patient advocacy groups, and others. For the full article CLICK HERE
The Foundation will hold two Hackathon sessions in person at the tranSMART Foundation Annual Meeting. We will also provide online access to include participants who are unable to attend the annual meeting! Details on the remote access to follow. After conferring with the Code Committee and vetting to the larger development forum, the tranSMART Foundation proposes the following Hackathon problems to be tackled during the upcoming annual meeting.
- Implement specific Advanced Workflows using Galaxy via the new v1.2 Restful API.The robust Restful API that has been developed for v1.2 is a game changer for tranSMART analytics. The Hackathon participants will be given an introduction to this API (everyone is welcome to learn about this important new feature), select an Advanced Workflow(s) to model with Galaxy and implement the complete Galaxy workflow comparing the results to the original. There is substantial expertise in the use of the R-API, particularly at The Hyve. This hackathon should be well-suited to the time limit and we trust will be of high interest to many in the tranSMART development community.
- Activate Sample Explorer in Version v1.2. The Sample Explorer is a “sleeper” tranSMART tool that has been enhanced and utilized to great advantage by the Avillach Lab at Harvard. There are other parties (e.g. eTRIKS) that are becoming interested in using this capability for cataloguing biospecimen. An alternative topic for those with a need for/interest in the Sample Explorer, it is expected that substantial progress can be made in the hackathon setting with a complete the integration possible.
Industry Experts from Harvard University, University of Michigan Medical School and OpenClinica to SpeakWakefield, Massachusetts – September 29, 2014 – The tranSMART Foundation, a non-profit organization providing a global, open-source knowledge management platform for scientists to share pre-competitive translational research data, today announced the keynote speakers for its 2014 Annual Meeting being held October 14-16 at the University of Michigan campus in Ann Arbor, MI. The keynote speakers for the conference will include:
- Professor Matthias Kretzler, MD, University of Michigan Medical School will give a presentation on “The use of modern molecular tools to better understand disease mechanism activated in human renal biopsies”.
- Paul Avillach, MD, PhD, Research Associate at Harvard University will speak on “Toward Precision Medicine: Building a patient-centric information commons on common and rare diseases with tranSMART. Application to Autism and Phelan McDermid Syndrome”.
- Cal Collins, CEO of OpenClinica, will discuss “Enabling open source development and innovation: How the OpenCLINICA community does it”.
The tranSMART Foundation and the development teams are please to announce that the Virtual Machines are now available for the latest version of the tranSMART Platform v1.2. More information can be found at the tranSMART Foundation wiki pages.
Users and future users of the latest v1.2 of the tranSMART Platform, are you interested in some User Training? At the end of our 2014 Annual Meeting, we will be conducting a 3 hour Training Session. It will include 2 hours of instructor led training followed by individual exploration of the platform for an additional hour. There will be no cost to attend this Training. The training session will be led by Rancho BioSciences. For more information and to register, please CLICK HERE.
Go to the tranSMART Foundation's YouTube Channel (link on every page at the upper right) to see the recorded webinars of the Platform v1.2 Launch Events held on Sept 9th and 10th. You can also get more information on the Release of v1.2 and use annotated Links to the You Tube videos HERE. See the Platform in action! Catch up on some of the many changes that are expanding the utility and versatility of the tranSMART Platform. Hear about the new initiatives on Documentation, Tutorials and Training.