Need Help?

VIVO Biobank Neuroblastoma Project Data Accession Committee

Contact Information

Ms Fang Chyi Fong
fang-chyi.fong@newcastle.ac.uk

Request Access

This DAC controls 5 datasets

Dataset ID	Description	Technology	Samples
EGAD50000002736	Germline and tumour panel sequencing data from a patient presenting with neurodisability and low-risk neuroblastoma. FASTQ and BAM files available. Germline ALK F1174L variant detected.	NextSeq 550	2
EGAD50000002773	Targeted next-generation sequencing data for a SIOPEN intermediate-risk neuroblastoma subgroup (age >18 months, localised, unresectable, non-MYCN-amplified neuroblastoma with unfavourable histology), with a total of 31 cases analysed. All but one sample have been analysed using the same workflow, with the exception being NB32. VCF files for the analyses are included in this dataset.	NextSeq 550	31
EGAD50000002774	Whole exome sequencing (WES) data analysed for the SIOPEN intermediate-risk neuroblastoma subgroup (age >18 months, localised, unresectable, non-MYCN amplified neuroblastoma with unfavourable histology), data for a total of 30 cases available. Four samples were analysed as part of another relapse neuroblastoma study (NB02 to NB05), of which two have germline comparison available. The remaining 26 cases had a different analysis workflow, with all but one having germline comparison available. VCF files from WES analyses are included in this dataset.	NextSeq 550	57
EGAD50000002882	Whole exome sequencing (WES) data was analysed for 81 neuroblastoma samples from 35 patients at different timepoints, including at diagnosis (D), post-chemotherapy (PC), and/or relapse (R). Seventy-five samples were sequenced using the Illumina TruSeq Rapid Exome kit and NextSeq500 platform at 90x, while the Nextera Library Prep Kit and Illumina’s NovaSeq platform at 90x was used for the 6 remaining samples. Somatic variants were called using GATK HaplotypeCaller v. 4.0.11.0. VCF files from the analyses are included in this dataset.	NextSeq 500	81
EGAD50000002883	Whole exome sequencing (WES) germline data was analysed for 21 samples (G) from 20 neuroblastoma patients. Seventeen samples were sequenced using the Illumina TruSeq Rapid Exome kit and NextSeq500 platform at 30x, while the Nextera Library Prep Kit and Illumina’s NovaSeq platform at 90x was used for the 4 remaining samples. Germline variants were called using GATK HaplotypeCaller v. 4.0.11.0. VCF files from the analyses are included in this dataset.	Illumina NovaSeq 6000 NextSeq 500	21