WGS for patient specific MRD in pediatric ALL
type: Dataset
description: Data from a study of six children with acute lymphoblastic leukemia (four patients with precursor B-cell ALL (Acute lymphoblastic leukemia) and two patients with T-cell ALL). None had stratifying genetics or central nervous system involvement. The study was approved by the Ethical Review Board at Stockholm County and written informed consent was obtained from the patients’ guardians. The data consits of BAM-files from whole-genome sequencing (WGS) of diagnostic bone marrow samples (30X coverage on an Illumina HiSeqX Ten platform). The Human GRCh37 (hg19) RefSeq was used for annotation and SV detection was performed using CNVnator V0.3.2 with 1kb bins, Delly, TIDDIT V2.0.0 and Manta. Filtering was performed using a list of recurrent aberrations in ALL. Assays for measurable residual disease (MRD) monitoring were designed from SV sequences and used for ddPCR analysis of gDNA and cfDNA from bone marrow, plasma and cerebrospinal fluid samples from diagnosis and follow-up. Data Access Statement The WGS datasets are only to be used for research aimed at advancing the understanding of genetic factors in the development of pediatric acute lymphoblastic leukemia. Applications, including those aimed at method development and bioinformatics, would only be considered as acceptable if proof of approved ethical consent is provided. Access requests should be sent to the email adress below.
conditions of access: https://publications.europa.eu/resource/authority/access-right/NON_PUBLIC
conditions of access: info:eu-repo/semantics/restrictedAccess
creative work status: completed
  type: DefinedTerm
  in defined term set: http://publications.europa.eu/resource/authority/dataset-status
  term code: COMPLETED
creator: Cecilia Arthur
creator: Fatemah Rezayee
  type: Person
  family name: Rezayee
  given name: Fatemah
creator: Nina Mogensen
  type: Person
  family name: Mogensen
  given name: Nina
creator: Leonie Saft
  type: Person
  family name: Saft
  given name: Leonie
creator: Richard Rosenquist Brandell
  type: Person
  affiliation: Science for Life Laboratory
  family name: Rosenquist Brandell
  given name: Richard
creator: Magnus Nordenskjöld
  type: Person
  family name: Nordenskjöld
  given name: Magnus
creator: Arja Harila-Saari
  type: Person
  family name: Harila-Saari
  given name: Arja
creator: Emma Tham
  type: Person
  family name: Tham
  given name: Emma
creator: Gisela Barbany
  type: Person
  family name: Barbany
  given name: Gisela
date modified: 2023-06-01
date published: 2022-05-02
keywords: Medical and Health Sciences
  type: DefinedTerm
  term code: 3
keywords: Medical Genetics and Genomics
  type: DefinedTerm
  term code: 30107
keywords: Medical genetics (excl. cancer genetics)
publisher: Karolinska Institutet
version: 0

PropertyValue
property ID: DOI
value: 10.17044/SCILIFELAB.19678620

Cecilia Arthur
type: Person
affiliation: Science for Life Laboratory
family name: Arthur
given name: Cecilia

Science for Life Laboratory
type: Organization

Karolinska Institutet
type: Organization