Data · dataset · 2023
Whole-genome sequencing in B-cell lymphomas for circulating tumor DNA analysis by multiplex digital PCR for disease monitoring
Listed in Researchdata.se and Swedish National Data Service — shown once because both records carry DOI 10.17044/scilifelab.22193854
WGS data of paired tumor and normal samples in 9 patients (6 diffuse large B-cell lymphomas, 1 transformed follicular lymphoma and 2 follicular lymphoma) with a median depth of 37X (range: 27-50X).
Description
The study was approved by the Stockholm Regional Ethical committee (2017/2538-31) and conducted in accordance with the Declaration of Helsinki. Written informed consent was obtained from the patients.
The data consits of BAM-files from whole-genome sequencing (WGS) of diagnostic fresh frozen lymph node biopsies and matching whole blood for germline analysis. Sequencing was performed on a NovaSeq 6000 system (Illumina) using paired-end 150 bp readout, aiming at 300 M paired reads. Pre-processing of raw FASTQ files and variant calling was performed by Bioinformatic Analysis pipeLine for SomAtic MutatIons in Cancer (BALSAMIC) version 10.0.2.
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Data Access Statement The WGS dataset are only to be used for academic research purposes at advancing the understanding of genetic factors in the pathogenesis of B-cell lymphomas. 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.
Links
Where it is published
- DOI doi.org/10.17044/scilifelab.22193854 ↗
DOI / persistent id · from researchdata se
Catalogue records · 2
- OAI-PMH record api.researchdata.se/oai-pmh?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3A… ↗
metadata API · from researchdata se
- OAI-PMH record snd.se/oai-pmh?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3A… ↗
metadata API · from snd se
Topics
- From keywords
- Earth & Environmental Science · Earth & Environmental Science · Life Sciences · Life Sciences · Medicine & Health · Medicine & Health
- Inferred from text
- Cancer 75% · Disease 75% · Genome sequencing 65% · Oncology and carcinogenesis 74% · Sequencing 75%
Related
Provenance · 2 source records, 16 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| Researchdata.se | oai:researchdata.se:doi-10-17044-scilifelab-22193854/0 | 13 d ago | JSON v1 |
| Swedish National Data Service | oai:researchdata.se:doi-10-17044-scilifelab-22193854/0 | 2 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[disease].local:disease:cancer | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[disease].local:disease:disease | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].anzsrc:group:3211 | enrichment · researchdata se | taxonomy-embedding@1.1.0 | title+keywords+description (74%) |
| concepts[field].local:field:earth-environmental | mapping · snd se | connector:snd_se@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · snd se | connector:snd_se@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · snd se | connector:snd_se@1.0.0 | |
| concepts[modality].local:modality:genome-sequencing | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:sequencing | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/description |
| license_text | source · researchdata se | connector:researchdata_se@1.0.0 | |
| publication_date | source · researchdata se | connector:researchdata_se@1.0.0 | |
| title | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/title |