This page describes which BIOS files are backed up and where on the SRM of life science grid.

The following directories are copied to the SRM backup folder where all files are backed up by SURFsara on their tapes.

 /pnfs/grid.sara.nl/data/bbmri.nl/RP3/RNASeq
 /pnfs/grid.sara.nl/data/bbmri.nl/RP3/IlluminaHumanMethylation450k
 /pnfs/grid.sara.nl/data/bbmri.nl/RP3/Phenotypes
 /pnfs/grid.sara.nl/data/bbmri.nl/RP3/GWAS_ImputationGoNLv4/
 /pnfs/grid.sara.nl/data/bbmri.nl/RP3/GWAS_ImputationGoNLv5/

RNAseq

Raw data from ErasmusMC

• Files: <flowcell ID>-<lane ID>-<index ID>_R1.fq.gz, <flowcell ID>-<lane ID>-<index ID>_R2.fq.gz
• Location
  • /pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/20140305/RNASeq/
• Backup log
  • xxx files are backed up. MD5 checksum are verified. From MDB.

Results of standard analysis using LSG pipeline

• Files: *.exon.count, *.transcript.count, *.gene.count, *.sorted.bam, *.run.log.
• Location
  • Freeze 1 pipeline: srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/20140305/production/5ddcae7/

Methylation

Raw data from ErasmusMC

• Files: <biobank>_sample_sheet.csv, *.idat
• Location
  • /pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/20140305/IlluminaHumanMethylation450k/
• Backup log
  • xxx files are backed up. MD5 checksum are verified. From MDB.

Phenotype

• Files: <biobank>-phen-20140123.txt
• Location
  • /pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/20140305/Phenotypes/

Imputed Genotype

• Location
  • /pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/20140305/GWAS_ImputationGoNLv4/
  • /pnfs/grid.sara.nl/data/bbmri.nl/backup/RP3/20140305/GWAS_ImputationGoNLv5/