The integrated structural variant map of the 1000 Genomes Project phase3 data is available in VCF format here.
Structural Variant VCF: ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/integrated_sv_map/
The README has further information on the encoded SV types, analyzed samples and supporting data.
README: ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/integrated_sv_map/README_phase3_sv_callset_20150224
Accessions are available below.
- Short-read Illumina WGS sequencing: ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/sequence_indices/20130502.analysis.sequence.index
- Complete Genomics WGS seequencing: ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/20130725.phase3.cg_sra.index
- PCR-free Illumina WGS sequencing: SRP047053
- Moleculo WGS NA12878: ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/integrated_sv_map/supporting/NA12878/moleculo
- PacBio sequencing NA12878: ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/integrated_sv_map/supporting/NA12878/pacbio
- PacBio sequencing CHM1: ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/phase3/integrated_sv_map/supporting/CHM1
- Agilent 1M aCGH microarray:
- Illumina Omni2.5 microarray:
- Affymetrix SNP Array 6.0:
- Targeted PacBio sequencing: ERS661321, ERS661355, ERS661356, ERS661358
- Targeted MinION sequencing: ERS661358, ERS661406