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Tuesday, August 18, 2015

Bioinformatics Specialization on Coursera

The University of California, San Diego has released the Bioinformatics Specialization on Coursera (https://www.coursera.org/specialization/bioinformatics/34), a series of six courses aimed at teaching bioinformatics to a wide audience.

The six courses will culminate in a Capstone project featuring a series of challenges in biological big data that have been sponsored and partly developed by Illumina.

The Bioinformatics Specialization features two learner tracks: a "biologist track" aimed at students who have not yet learned how to program but who want to gain experience with using existing bioinformatics applications; and a "hacker track" aimed at experienced programmers who want to see how sophisticated algorithms can be applied to modern biological problems.

The print companion of the Bioinformatics Specialization is Bioinformatics Algorithms: An Active Learning Approach (http://bioinformaticsalgorithms.com), whose second edition is being released.
URL: https://www.coursera.org/specialization/bioinformatics/34

Contact Person: Phillip Compeau (pcompeau@eng.ucsd.edu)

Tuesday, August 11, 2015

bioCADDIE--Pilot Project Harvester

Request for Application -- bioCADDIE Pilot Project on Harvester for DDI Schema

The biomedical and healthCAre Data Discovery Index Ecosystem (bioCADDIE) consortium solicits Pilot Project proposals for developing a metadata harvester for the data discovery index (DDI). bioCADDIE is part of the National Institutes of Health's (NIH) Big Data to Knowledge (BD2K) program, and is committed to building a prototype DDI to facilitate dataset search and provide location, association, and access condition information.

The proposals are expected to demonstrate the feasibility of using embedded metadata (e.g., using microdata on html pages that follows schema.org specifications) to describe datasets residing in data repositories and data bases or described in data papers. Projects may:

* evaluate structured data schemas for embedding metadata on websites (e.g., schema.org, DCAT, etc.),
* partner with existing repositories to expose their metadata utilizing an appropriate data schema via Microdata, RDFa, JSON-LD, or other suitable micro-formats,
* explore mechanisms for extracting metadata,
* provide mechanisms for validation of dataset metadata exposed in microformats.

Applications are welcome from any organization where a subcontract to the University of California can be executed and are due by August 31, 2015 at midnight (PDT). The anticipated start date is October 1, 2015.

Go to https://biocaddie.org/participate/request-application-pilot-project-harvester?utm_source=Announcement+List&utm_campaign=b6cea3b3f4-bioCADDIE_Harvester_RFA_Aug_4_2015&utm_medium=email&utm_term=0_9246735df8-b6cea3b3f4-228238241 for more information on project guidelines and the application process.
URL: https://biocaddie.org/participate/request-application-pilot-project-harvester?utm_source=Announcement+List&utm_campaign=b6cea3b3f4-bioCADDIE_Harvester_RFA_Aug_4_2015&utm_medium=email&utm_term=0_9246735df8-b6cea3b3f4-228238241

Contact Person: Dr. Cleo Maehara, bioCADDIE Project Manager (ckmaehara@ucsd.edu)