= The BIOS Consortium (Biobank-based Integrative Omics Studies) =
'''Welcome to the Wiki of the BIOS Consortium.'''

The mission of the BIOS Consortium is to create a large-scale data infrastructure and to bring together BBMRI researchers focusing on integrative omics studies in Dutch Biobanks.

The advent of the genome-wide association study (GWAS) led to the successful identification of thousands of variants that are robustly associated with complex disease phenotypes. Dutch biobanks played a substantial role in these discoveries. For most of these variants, however, the mechanisms through which they contribute to these phenotypes remain unknown. The BIOS Consortium applies a functional genomics approach that integrates genome-wide genetic data with data on the epigenome and transcriptome to elucidate these mechanisms. Over 4000 samples from BBMRI-NL biobanks with in-depth information on disease phenotypes and GWAS data are being enriched with RNA-sequencing and genome-wide DNA methylation data. The same is true for samples with whole-genome sequencing data from GoNL. This unique data infrastructure provides a powerful platform to evaluate key questions in integrative omics from establishing comprehensive eQTL and meQTL catalogues to linking molecular pathways across omics levels to phenotypic outcomes.

See also [https://www.bbmri.nl/services/samples-images-data/integrative-omics-data-set our BBMRI website]

'''Note:''' Read [wiki:BIOS_Wiki Using this wiki] before making changes to these pages.

= Table of contents =

 * '''BIOS data accessibility and locations'''
   * [wiki:BIOS_RSC_production Launching on-demand BIOS workspace at RSC] - How to start BIOS workspace at SURFsara's new Research Science Cloud.
 
 * '''Main BIOS Papers'''
   * First eQTL paper - 'Identification of context-dependent expression quantitative trait loci in whole blood' (Nature Genetics https://www.nature.com/ng/journal/v49/n1/abs/ng.3737.html), see attached file for RNA-seq QC and processing.
   * First meQTL paper - 'Disease variants alter transcription factor levels and methylation of their binding sites' (Nature Genetics, https://www.nature.com/articles/ng.3721).

* '''BIOS QTL browser'''
   * [http://genenetwork.nl/biosqtlbrowser/ the BIOS eQTL, mQTL and eQTM browser accompanying the main papers]

* [wiki:BIOS_symposium2016 BIOS Symposium September 2016] 

* [wiki:BIOS_BBMRI-omics_course BBMRI omics course March 2017] 

 * '''Acknowledgements'''
   * [wiki:BIOS_team The BIOS team]
   * [wiki:BIOS_ackn Publications acknowledging BIOS]

 * '''[wiki:FgPrivate Private] '''