wiki:GccStart

News

Visual Analytics for Bio-Workflows at BIOINFORMATICS-2013

"Visualization of bioinformatics workflows for ease of understanding and design activities" paper will be presented at the BIOSTEC-BIOINFORMATICS-2013 conference, on February 11th, 2013, Bercelona, Spain. [http://www.molgenis.org/raw-attachment/blog ...

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  • Posted: 2013-01-31 10:57 (Updated: 2013-01-31 10:59)
  • Author: george
  • Categories: MCF
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MOLGENIS/compute workshop at BioAssist meeting

MOLGENIS/compute workshop took place at the NBIC Bio Assist meeting, in Utrect, Oct.12, 2012

  • Posted: 2012-11-22 13:41 (Updated: 2012-11-22 13:42)
  • Author: george
  • Categories: MCF
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MOLGENIS/compute at IWSG-Life 2012

MOLGENIS/compute demo was given at the 4th International Workshop on Science Gateways for Life Sciences, May 23-25 2012, Amsterdam, Netherlands

MOLGENIS/compute at NBIC-2012

MOLGENIS/compute demo was given at the NBIC-2012 conference in Lunteren, Netherlands, Apr.23, 2012

MOLGENIS/compute at BIOINFORMATICS-2012

MOLGENIS/compute was accepted as a full paper and presented at the International Conference on Bioinformatics Models, Methods and Algorithms, Algarve, Portugal, Feb.3 2012. (BIOINFORMATICS 2012 received 109 submissions, of which 14% were accepted as ...

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  • Posted: 2012-11-22 13:17 (Updated: 2013-01-31 10:50)
  • Author: george
  • Categories: MCF
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Welcome to the Genomics Coordination Centre

  • Analysis pipelines for NGS, GWA, GWL studies
  • Research portals for multi-omics laboratory, biobanks, consortia
  • Large data infrastructure in software and hardware

Organization

GCC is a growing team of 10 researchers, programmers and system managers headed by Dr. Morris Swertz (m.a.swertz@…) set up to develop, manage and exploit new bioinformatics models, software and tools to enable and support the next generation of GWA, GWL and NGS experiments. In the past two years GCC is organized as a bridge between the UMCG Department of Genetics providing bioinformatics support for the next generation sequencing facility (Prof. C. Wijmenga), the RuG Centre for Information Technology building towards  ‘petabyte’ scale storage and compute infrastructure, and the Groningen Bioinformatics developing new bioinformatics method for high-throughput data (Prof. R.C. Jansen). Moreover, GCC is strongly rooted in national and international including the European Bioinformatics Institute,  Netherlands Bioinformatics Center, Netherlands Proteomics Center,  BigGrid,  EU-GEN2PHEN, EU-CASIMIR, EU-PANACEA and  BBMRI-NL. All GCC tools are collected in the open source MOLGENIS software project.

Contact head Morris Swertz (m.a.swertz@…) for more information or check Internships or AboutGcc

Our team members: TeamMembers

Study Capturing and Sharing Applications

Analysis Applications

  •  Sequencing - Pipelines for NGS data analysis and annotation
  •  Imputation - Pipelines for imputation
  • R/QTL - R package QTL analysis
  •  OntoCAT - ontology toolkit
  • Design GG - experimental design of QTL experiments
  • Genomic Islands - genomic islands
  • PeakML format - file format for mass spectrometry data
  • MzMatch - pipeline for mass spectrometry experiments in the area of metabolomics

Shared Modules

Intranet

See GccIntranet for a complete overview

Collaborations & Projects

  •  GBIC - Groningen Bioinformatics Center, our method partner
  •  Genetics - UMCG genetics department hosts the GccTeam
  •  CIT - Groningen Center for Information Technology hosts our data and computations
  •  BBMRI.NL - Project lead of BBMRI-NL Bioinformatics
  •  NBIC - Lead Biobanking task force Netherlands BioInformatics Center
  •  LifeLines - Developing IT infrastructure for 30yr/165.000 people cohort study
  •  EBI - Visitor European Bioinformatics Institute
  •  EU-GEN2PHEN - Associated partner Genotype to Phenotype project
  •  CASIMIR - Invited partner Coordination and Sustainability of International Mouse Informatics Resources
  •  SYSGENET - European systems genetics network
  •  PANACEA - Pathway analysis in C. elegans