Biorepository

 

The CNAG-CRG Biorepository collects, quantifies and stores the DNA and RNA samples for sequencing requests.

 

We work closely with our collaborators to ensure that appropriate DNA/RNA extraction procedures are followed, to determine the sample requirements for the experiments to be conducted by the CNAG-CRG and to coordinate the sample shipment. Barcode labels and tubes are sent to the collaborators for safe tracking of samples.

 

At the CNAG-CRG, samples are checked for purity and integrity before processing. DNA integrity is assessed on agarose gel. The DNA QC includes detection of incidental present inhibitors by regular PCR amplification. Concentration is verified by fluorometry (Picogreen assay). RNA is subjected to rigorous quality control to monitor degradation on the Agilent 2100 Bioanalyzer and quantitated by fluorometry.

 

Samples are stored under highly controlled conditions and, if appropriate, distributed in several aliquots to avoid thawing and refreezing.  

 

    Link

    CNAG-CRG Sample Requirements

    Sequencing Platforms

     

    The CNAG-CRG offers researchers access to state-of-the-art methods for high throughput sequencing for a wide range of applications. The experimental workflow includes library preparation, cluster generation and sequencing.

     

    The CNAG-CRG has two sequencing facilities, the CNAG Sequencing Unit and the CRG Genomics Unit. We currently operate several different types of Illumina sequencers and MinIon sequencers from Oxford Nanopore Technologies offering researchers access to cutting edge technology for high throughput sequencing for a wide range of applications.

     

    The members of the sequencing platforms are postdoctoral research scientists, engineers, and technicians who are professionally trained and form a highly qualified team to accomplish the specialized scientific tasks of sequencing. They have established, and continue to develop, many techniques to analyze the information encrypted in genomes. The platform consists of four teams:

     

     

     

     

    Link

    Illumina

    Data Analysis

     

    The data analysis pipeline includes more than half of the CNAG-CRG staff and it is strongly supported by an extensive informatics infrastructure.

     

    7.6 petabyte of data storage, 3472 of computing cores, an internal 56 Gb/s network and multiple 10 Gb/s direct physical connections to the Barcelona Supercomputing Center which has over 48.000 compute cores.

     

    The CNAG-CRG provides robust state of the art data analysis pipelines for Mendelian disease gene discovery, complex disease gene identification, somatic variant identification, de novo genome assembly, differential gene expression, identification of novel spliced isoforms, cytosine-methylation analysis and epigenetic analysis among others. Final data interpretation is done by our in-house bioinformatics teams or by collaborators who are hosted on site.

     

    The focus of these collaborations is the delivery of results from the analysis of the sequencing data.

     

    Several bioinformatic teams develop methods for different kinds of applications and support the analysis of large-scale sequencing data:

     

     

     

    Link

    Barcelona Supercomputing Center