eSSENCE and SeRC researchers publish manuscript on “Recommendations on e-infrastructures for next-generation sequencing”

 

“Recommendations on e-infrastructures for next-generation sequencing”
O. Spjuth, E. Bongcam-Rudloff, J. Dahlberg, M. Dahlö, A. Kallio, L. Pireddu, F. Vezzi, and E. Korpelainen,
GigaScience, vol. 5, no. 1, pp. 1-9, 2016.
DOI: 10.1186/s13742-016-0132-7

URL: http://www.gigasciencejournal.com/content/5/1/26

Abstract
With ever-increasing amounts of data being produced by next-generation sequencing (NGS) experiments, the requirements placed on supporting e-infrastructures have grown. In this work, we provide recommendations based on the collective experiences from participants in the EU COST Action SeqAhead for the tasks of data preprocessing, upstream processing, data delivery, and downstream analysis, as well as long-term storage and archiving. We cover demands on computational and storage resources, networks, software stacks, automation of analysis, education, and also discuss emerging trends in the field. E-infrastructures for NGS require substantial effort to set up and maintain over time, and with sequencing technologies and best practices for data analysis evolving rapidly it is important to prioritize both processing capacity and e-infrastructure flexibility when making strategic decisions to support the data analysis demands of tomorrow. Due to increasingly demanding technical requirements we recommend that e-infrastructure development and maintenance be handled by a professional service unit, be it internal or external to the organization, and emphasis should be placed on collaboration between researchers and IT professionals.

Big Data and e-Science in Medical Science

Big Data and e-Science in Medical Science
Annual SeRC meeting 2014

The Swedish e-Science Research Center (SeRC) welcomes you to the conference “Big Data and e-Science in Medical Science”, co-located with the SeRC annual meeting 2014, at Karolinska Institutet. Invited international speakers and SeRC scientists will share their views on how e-Science and Big Data are becoming integral parts of medical science:

  • Prof. Gilean McVean, Director Oxford Big Data Institute, Oxford, UK
  • Dr. Niklas Blomberg, Director ELIXIR
  • Prof. Mads Melbye, Director National Health Surveillance and Research, Statens Serum Institut, DK
  • Prof. Joakim Lundeberg, Science for Life Laboratory
  • Prof. Anders Ynnerman, Linköping University
  • Prof. Juni Palmgren, Karolinska Institutet

The conference is free of charge and includes lunch and dinner on Day1, and lunch on Day 2. The deadline for registration is March 31st. The conference website with a link to registration is at: http://www.e-science.se/annualmeeting2014.