Data för: Principles of subclonal gene dosage across human cancers Data for: Principles of subclonal gene dosage across human cancers 2026-47-1 https://doi.org/10.48723/gr42-ja30 Swedish National Data Service Svensk nationell datatjänst Landing page Data för: Principles of subclonal gene dosage across human cancers Data for: Principles of subclonal gene dosage across human cancers 2026-47-1 https://doi.org/10.48723/gr42-ja30 oai:swepub.ki.se:1061050 10.1093/nar/gkaf919 oai:swepub.ki.se:467288 10.1016/j.molcel.2020.09.025 Kolbeinsdottir, Solrun Kolbeinsdottir, Solrun Enge, Martin Enge, Martin 2023-02912 2023-02912 232839 Pj 232839 Pj PR2024-0108 and MT2023-0014 PR2024-0108 and MT2023-0014 Swedish National Data Service Svensk nationell datatjänst Landing page Gene Expression Regulation Genreglering Mutation Mutation Genetic Variation Genetisk variation Gene Expression Genuttryck Biotechnology Bioteknik The data shared here are joint single-cell Whole genome sequencing (WGS) and single-cell mRNA sequencing from primary patient material from different cancer types. Primary samples from pediatric acute lymphoblastic leukemias, acute myeloid leukemias, breast cancers, melanomas and sarcomas were processed using Direct nuclear tagmentation and RNA-sequencing (DNTR-seq). For more information on DNTR-seq, see ‘A Highly Scalable Method for Joint Whole-Genome Sequencing and Gene-Expression Profiling of Single Cells’, DOI:10.1016/j.molcel.2020.09.025. Data shared here are the fastq files of all single cells sequenced in this study (21826 read 1 and 21826 read 2 files). The size of the dataset is approximately 2 TB. De data som delas här är kombinerad single-cell Whole genome sequencing (WGS) och single-cell mRNA-sekvensering från primärt patientmaterial från olika cancertyper. Primära prover från pediatriska akuta lymfoblastiska leukemier, akuta myeloiska leukemier, bröstcancer, melanom och sarkom bearbetades med Direct nuclear tagmentation and RNA-sequencing (DNTR-seq) För mer detaljerad information om DNTR-seq se ‘A Highly Scalable Method for Joint Whole-Genome Sequencing and Gene-Expression Profiling of Single Cells’, DOI:10.1016/j.molcel.2020.09.025. Data som delas här är fastq-filerna för alla enskilda celler som sekvenserades i denna studie (21826 read 1 och 21826 read 2 filer). Datasetet storlek är ca 2 TB. Sweden Sverige The group of samples come from cancer patients diagnosed in Swedish hospitals. The cancer patients had been diagnosed with pediatric acute lymphoblastic leukemia (n:15), acute myeloid leukemia (n:5), melanoma (n:2), sarcomas (n:11) or breast cancer (n:11). Proverna kommer från cancerpatienter som har varit diagnoserat av svenska sjukhus. Cancerpatienterna hade diagnostiserats med pediatrisk akut lymfatisk leukemi (n=15), akut myeloisk leukemi (n=5), melanom (n=2), sarkom (n=11) eller bröstcancer (n=11). Other Cross-sectionCross-section TvärsnittTvärsnitt We selected different cancer types, known to have different levels and types of CNVs for this study. This included pediatric acute lymphoblastic leukemia (known to have few but large CNVs) acute myeloid leukemia (large CNVs), melanoma (mainly characterized by Single nucleotide variants, SNVs) or breast cancer (multiple small and large CNVs). The leukemia samples originated from bone marrow aspirations taken at diagnosis of the disease. Breast cancer and sarcoma samples originate from surgical resection (without neoadjuvant treatment), following diagnosis. The melanoma samples were metastatic and originated from surgical resections.We selected different cancer types, known to have different levels and types of CNVs for this study. This included pediatric acute lymphoblastic leukemia (known to have few but large CNVs) acute myeloid leukemia (large CNVs), melanoma (mainly characterized by Single nucleotide variants, SNVs) or breast cancer (multiple small and large CNVs). The leukemia samples originated from bone marrow aspirations taken at diagnosis of the disease. Breast cancer and sarcoma samples originate from surgical resection (without neoadjuvant treatment), following diagnosis. The melanoma samples were metastatic and originated from surgical resections. Access to data through SND. Access to data is restricted. Åtkomst till data via SND. Tillgång till data är begränsad. restrictedAccess Kolbeinsdottir, S., Zachariadis, V., Sommerauer, C., Lohi, O., Heinaniemi, M., & Enge, M. (2025). Absolute copy number aware CNV calling of sub-megabase segments in ultra-low coverage single-cell DNA sequencing data. In NUCLEIC ACIDS RESEARCH (Vol. 53, Issue 17). https://doi.org/10.1093/nar/gkaf919 Kolbeinsdottir, S., Zachariadis, V., Sommerauer, C., Lohi, O., Heinaniemi, M., & Enge, M. (2025). Absolute copy number aware CNV calling of sub-megabase segments in ultra-low coverage single-cell DNA sequencing data. In NUCLEIC ACIDS RESEARCH (Vol. 53, Issue 17). https://doi.org/10.1093/nar/gkaf919 10.1093/nar/gkaf919 oai:swepub.ki.se:1061050 2025 Zachariadis, V., Cheng, H., Andrews, N., & Enge, M. (2020). A Highly Scalable Method for Joint Whole-Genome Sequencing and Gene-Expression Profiling of Single Cells. In MOLECULAR CELL (Vol. 80, Issue 3, pp. 541-553.e5). https://doi.org/10.1016/j.molcel.2020.09.025 Zachariadis, V., Cheng, H., Andrews, N., & Enge, M. (2020). A Highly Scalable Method for Joint Whole-Genome Sequencing and Gene-Expression Profiling of Single Cells. In MOLECULAR CELL (Vol. 80, Issue 3, pp. 541-553.e5). https://doi.org/10.1016/j.molcel.2020.09.025 10.1016/j.molcel.2020.09.025 oai:swepub.ki.se:467288 2020