Codes and data for "Stable clonal contribution of lineage-restricted stem cells to human hematopoiesis"
https://doi.org/10.48723/vany-1s63
This dataset consists of code for reproducing the figures and statistical analyses from "Stable clonal contribution of lineage-restricted stem cells to human hematopoiesis" and its input data. The code (scripts.zip) is openly available. The files in the "data" folder contain personal data and can only be accessed after completing an assessment process. There are 12 R script files in scripts.zip, and the input data for these scripts are contained within the "data" folder. The input data are stored in text, Newick, or RDS format. The "data" contains 65 files of approximately 247MB total. The file size and path of each file in "data" can be found in the Data_file_list.txt file. For details on each file and instructions on running the code, please refer to README.pdf.
Files with open access (3)
Files with open access (3)
Citation and access
Citation and access
Access level:
Creator/Principal investigator(s):
Research principal:
Data contains personal data:
Yes
Type of personal data:
Genetic data (somatic mutations)
Code key exists:
Yes
Citation:
Language:
Method and outcome
Method and outcome
Population:
Healthy individuals with rigorous inclusion criteria ensuring the absence of current or previous blood disorders or cancer and without ongoing treatment with immunosuppressive or other drugs likely to affect hematopoiesis.
Time method:
Study design:
- Experimentell studie
Sampling procedure:
Description of sampling:
Using bone marrow aspiration samples collected from donors, we performed error-corrected targeted DNA capture sequencing (ECTS), whole-exome sequencing, or single colony whole-genome sequencing to obtain mutation lists.
Time period(s) investigated:
Number of individuals/objects:
93
Data format/data structure:
Samples/material - Collected from scientific collection/biobank
Samples/material - Collected from scientific collection/biobank
Name:
Karolinska Institutet MDS Biobank
Geographic coverage
Geographic coverage
Geographic location:
Administrative information
Administrative information
Responsible department/unit:
Department of Medicine, Huddinge [H7]
Commissioning organisation:
- Karolinska Institutet
Ethical Review
Ethical Review
Reviewer:
- Stockholms etikprövningsnämnd
Registration number:
2018/901-31
Ethical review information:
Studier av ärftliga och förvärvade sjukdomsmekanismer vid myelodysplastiskt och myelodysplastiskt / myeloproliferativt syndrom, MDS-relaterad AML samt angränsande hematologiska tillstånd med behov av förbättrad differentialdiagnostik.
Den senast uppdaterade versionen är 2025-01131-02 (Stockholm).
Funding
Funding
Funding agency:
- Knut och Alice Wallenbergs Stiftelse
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ROR
Award number:
KAW 2016.0105, 2015.0195
Funding agency:
- Tobias Stiftelsen
Award number:
4-1122/2014
Funding agency:
- Torsten Söderbergs Stiftelse
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ROR
Funding agency:
- Centrum för innovativ medicin (CIMED) vid Karolinska Institutet
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ROR
Award number:
613/06
Funding agency:
- Vetenskapsrådet
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ROR
Award number:
538-2013-8995, 2015-03561
Funding agency:
- Medical Research Council
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ROR
Award number:
MC_UU_12009/5
Funding agency:
- Cancerfonden
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ROR
Award number:
22 2178 Pj
Funding agency:
- Radiumhemmets Forskningsfonder
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ROR
Award number:
224132, 244282
Funding agency:
- Dr Åke Olssons stiftelse
Award number:
2021-00087
Topic and keywords
Topic and keywords
Swedish Standard Classification of Research Subjects 2025:
Relations
Relations
Related research data:
Publications
Publications
Citation:
Yoshizato, T., Nilsson, C., Grasso, F. et al. Stable clonal contribution of lineage-restricted stem cells to human hematopoiesis. Nat Genet (2025). https://doi.org/10.1038/s41588-025-02405-w
