• Special issue of OMICS from the Genomic Standards Consortium (GSC) (23 June 2008)
• Putting Molecules on the Map (23 June 2008)
• Silva runs contextual data survey for rRNA sequences (21 May 2008)
• RDP runs Habitat survey (14 May 2008)
• MIGS paper published in Nature Biotechnology (12 May 2008)
• GSC at Microbial Commons International Workshop (24 April 2008)
• Feedback requested from GSC on MINSEQE (04 April 2008)
• GSC vote: Genomic Rosetta Stone and LinkOut implementation (01 April 2008)
• GSC FAQ available to give a quick overview of all GSC activities (11 March 2008)
• Members of GSC working to complete example MIGS/MIMS report in ISA-Tab format (11 March 2008)

The Genomic Standards Consortium

• About the GSC - GSC Membership - GSC and the INSDC
  • GSC Blog - blog for news relating to the Genomic Standards Consortium and the Genome Catalogue
  • GSC Strategy - includes yearly Roadmaps, updates and the GSC process of building consensus
  • GSC Meetings - now includes recent notes from telecons and GSC Presentations
  • GSC Presentations
  • GSC Publications - a list of GSC publications
  • GSC Case Studies - a list of case studies that have informed the development of MIGS/MIMS
  • GSC Source Forge site - includes the GSC Mailing Lists
  • GSC Logo

MIGS/MIMS Development

• MIGS/MIMS - contains the MIGS checklist and the MIGS Change Log pages
  • MIGS/MIMS compliance with other standards - MIBBI, FuGE, OBO Ontologies, GML

GCDML

The Genomic Contextual Data Markup Language (GCDML) is a core project of the Genomic Standards Consortium (GSC) that implements the “Minimum Information about a Genome Sequence” (MIGS) specification and its extension, the “Minimum Information about a Metagenome Sequence” (MIMS). Genomic Contextual Data Markup Language

• Introduction to GCDML
• GCDML Extensions: ribosomal RNA and biodiversity. This discussion originated from participants of the 5th GSC Workshop in December 2007.

Extension of MIGS/MIMS for ribosomal RNAs

• MIGS/MIMS for 16S - this page is an attempt to leverage existing interest in the rRNA community (submitters and data providers) to enrich ribosomal RNA sequences (16S/18S/23S/28S) with contextual data. Key aspects are: Which fields are most relevant for the users and how can sequence submission to the INSDC effectively be handled. These are key goals to be able to retrieve, for example, all 16S sequences related to specific habitat parameters (i.e. soil, marine, freshwater, contaminated, temperature, salinity, oxygen etc.).

The Genomic Rosetta Stone

• Genomic Rosetta Stone - discussion of permanent unique identifiers

The Genome Catalogue

• Genome Catalogue - also called GCat, other Implementations of MIGS/MIMS
  • Enter a report - step by step instructions for entering a MIGS/MIMS compliant report
  • The GCat submission policy - including a list of MIGS/MIMS compliant reports
  • GenCat software - GCat is run by GenCat, or the "Generic Catalogue" software
  • Work Packages - introduction of a project management framework to support collaboration in the development of the Genome Catalogue and related work
  • Genome Report Ownership Policy

The Published MIGS Checklist

MIGS has been published as free content in

fulltext and PubMed Citation

Special Issue of OMICS from the 5th GSC Workshop

Read about core GSC projects like GCDML, the Genomic Rosetta Stone, and Habitat-Lite in the special June 2008 issue of OMICS produced as a result of the 5th GSC workshop. Many thanks to the more than 50 authors who contributed to the articles in this issue! Read More...

GSC Calendar

Wiki Design

A new wiki design has been published. Learn how to update the wiki design selected when you are logged in.. GSC Wiki

GenCat - Generic XML Data Catalogue

• GenCat software - GCat is run by GenCat, or the "Generic Catalogue" software

Controlled Vocabularies and Ontologies

• CVs and Ontologies - including a list of CVs and Ontologies used by MIGS and the EnvO Project

Collaborations, Related Projects and Guidelines

• Related Projects - includes the Sequence Read Format (SRF) project
• Submission of high-throughput sequence data involving expression analysis (pyrosequencing, SOLEXA etc) to GEO
• EnvO Project, GAZ_Project, Food Ontology Project

Site Map

• Wiki Site Map : - a complete list of pages in the GSC Wiki