The GSC is an open-member international community consisting of over 200 biologists, bioinformaticians, and computer scientists and includes representatives from the International Nucleotide Sequence Database selleck Oligomycin A Collaboration (DDBJ/ENA/GenBank) and major sequencing centers including Argonne National Laboratory (ANL), the J. Craig Venter Institute (JCVI), Joint Genome Institute (JGI), Institute for Genome Sciences (IGS), and Wellcome Trust Sanger Institute (WTSI). The GSC creates, maintains, and adopts a range of genomic metadata standards and collaborative projects. The GSC has developed three well-described, minimal information checklists that cover genomes and metagenomes (MIGS and MIMS [2];) and marker gene sequences (MIMARKS [3,4]); that are combined under the ��Minimal Information about any Sequence�� (MIxS) specification [4].
These checklists are now accompanied by detailed environmental metadata packages that provide standard formats for recording the myriad of environmental parameters (e.g., ammonia concentration, conductivity, wind speed, patient health). The GSC is constantly striving to facilitate easy adoption of its minimal information standards, including the launch of the GSC journal, Standards in Genomic Sciences (SIGS) [5]. Implementation and adoption projects include the Genomic Contextual Data Markup Language (GCDML, an XML data format to support GSC minimal standards) [6], the Genomic Rosetta Stone (GRS, a resolving service for top-level genome and metagenome project information from different resources) [7], Habitat-Lite (a lightweight vocabulary for the environment of any organism or biological sample) [8], and M5 [9,10] which aims to describe tools and infrastructure to cope with the large quantities of metagenomic data generated by projects such as the Earth Microbiome Project [11-14].
GSC13 was structured like a traditional scientific meeting, with keynote presentations and 11 plenary sessions, and a parallel workshop session for two GSC working groups. The workshop was recorded on video by BGI; all talks are accessible on SciVee [15]. Day 1 The theme for Day 1 was genomics enabled by standards, focusing on animal, plant, fungi and viruses. Session I: Keynote and introduction to the GSC Day 1 started with a keynote address and welcome session introduced and chaired by Jack Gilbert (Argonne National Laboratory and University of Chicago, USA). The keynote address was provided by Rita Colwell Carfilzomib (University of Maryland, USA), who highlighted the power of genomics and metagenomics in uncovering human disease, through comparative genomics of Vibrio species, and the use of the metagenomics to determine the environmental etiology of persistent diseases in developing countries.
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