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Data from: Genomic characterization of relapsed acute myeloid leukemia reveals novel putative therapeutic targets

dataset
posted on 2021-02-11, 10:55 authored by Linda HolmfeldtLinda Holmfeldt, Svea Stratmann

Data Set Description

These data are collected from a total of 73 participants (48 adult; 25 pediatric), all of which had relapsed or primary resistant acute myeloid leukemia. The data, which here are separated into an adult and a pediatric dataset, were generated as part of a study by Stratmann et. al., 2021 (https://doi.org/10.1182/bloodadvances.2020003709).

Please note that separate applications are necessary for the adult and pediatric dataset, respectively. When applying for access, please indicate which of the datasets that the application applies for.

The adult dataset contains whole genome sequencing data from 62 diagnosis (D), relapse (R1/R2/R3) and/or primary resistant (PR) leukemia samples, and 37 normal (G) DNA samples from 37 patients, as well as whole exome sequencing data from 20 leukemia samples and one (1) normal DNA sample from 15 patients.

The pediatric dataset contains whole genome sequencing data from 49 diagnosis (D), relapse (R1/R2/R3), persistent relapse (R1/2-P) and/or primary resistant (PR) leukemia samples and 24 normal (G) DNA samples from 23 patients, as well as whole exome sequencing data from seven (7) leukemia samples from five (5) patients.

The leukemia samples originate from bone marrow or peripheral blood. The patient-matched normal DNA samples originate from either complete remission bone marrow or peripheral blood cells, or from normal bone marrow stromal cells cultivated from leukemia bone marrow. Further details regarding the samples are available in the Supplemental Information part of Stratmann et. al., 2021 (https://doi.org/10.1182/bloodadvances.2020003709).

Whole genome sequencing libraries and associated next-generation sequencing were carried out by the SNP&SEQ Technology platform, SciLifeLab, National Genomics Infrastructure Uppsala, Sweden. Libraries were prepared using the TruSeq PCR-free DNA sample preparation Kit, followed by paired-end 150bp read length sequencing on a HiSeqX (Illumina Inc.).

Whole exome sequencing libraries and associated next-generation sequencing were carried out by the Uppsala Genome Center, SciLifeLab, National Genomics Infrastructure Uppsala, Sweden. Libraries were performed using the Ion AmpliSeq Whole Exome Library Preparation kit, followed by sequencing on the Ion Proton System using Ion PI Chip v2 and Ion PI Sequencing 200 Kit v3 chemistry (Thermo Fisher Scientific).

Terms for access
The adult and pediatric datasets are only to be used for research that is seeking to advance the understanding of the influence of genetic factors on human acute myeloid leukemia etiology and biology.

Use of the protected pediatric dataset is only for research projects that can merely be conducted using pediatric acute myeloid leukemia data, and for which the research objectives cannot be accomplished using data from adults. Applications intending various method development would thus not be considered as acceptable for use of the pediatric dataset. Further, the pediatric dataset may not be used for research investigating predisposition for acute myeloid leukemia based on germline variants.

To apply for conditional access to the adult and/or pediatric dataset in this publication, please contact datacentre@scilifelab.se.

Funding

Knut and Alice Wallenberg Foundation (KAW 2013-0159)

The Swedish Research Council (2013-03486)

The Swedish Cancer Society (CAN2013/489)

The Swedish Childhood Cancer Foundation (PR2013-0070)

The Kjell and Märta Beijer Foundation

History

Publisher

Uppsala Universitet

Access request email

datacentre@scilifelab.se

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