Epigenetic alterations affecting hematopoietic regulatory networks as drivers of mixed myeloid/lymphoid leukemia
22 pages, 7 figures, supplementary information https://doi.org/10.1038/s41467-024-49811-y.-- Data availability: The raw RNA-seq data of AML patients have been previously used in another study152 and are available at the European Genome-phenome Archive (EGA) under accession number EGAS00001004684. Al...
| Autores: | , , , , , , , , , , , , , , , , , , , , , |
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| Tipo de recurso: | artículo |
| Estado: | Versión publicada |
| Fecha de publicación: | 2024 |
| País: | España |
| Institución: | Consejo Superior de Investigaciones Científicas (CSIC) |
| Repositorio: | DIGITAL.CSIC. Repositorio Institucional del CSIC |
| OAI Identifier: | oai:digital.csic.es:10261/365728 |
| Acceso en línea: | http://hdl.handle.net/10261/365728 |
| Access Level: | acceso abierto |
| Palabra clave: | http://metadata.un.org/sdg/3 Ensure healthy lives and promote well-being for all at all ages |
| Sumario: | 22 pages, 7 figures, supplementary information https://doi.org/10.1038/s41467-024-49811-y.-- Data availability: The raw RNA-seq data of AML patients have been previously used in another study152 and are available at the European Genome-phenome Archive (EGA) under accession number EGAS00001004684. All the other raw sequencing data derived from donors or patients have been generated in this study and are deposited at the EGA under accession number EGAS00001007094. This EGA study includes the following datasets: MCIP-seq, RNA-seq, ATAC-seq, ChIP-seq (H3K27ac, CTCF, SPI1, CEBPA, TCF7), and Hi-C. Since these data are derived from human subjects, they are only available under restricted access, which can be requested for each dataset separately on the EGA website. Requestors must sign a data access agreement outlining the terms and conditions for data use and fill in a form specifying their research question. Requests will be processed within 1 week, and the data will be available for a maximum of 2 years unless an appeal for extension is submitted. Processed data are publicly available in ArrayExpress with the following identifiers: E-MTAB-13117 (CTCF ChIP-seq), E-MTAB-13118 (ATAC-seq), E-MTAB-13119 (H3K27ac ChIP-seq), E-MTAB-13120 (MCIP-seq), E-MTAB-13121 (RNA-seq), E-MTAB-13122 (Hi-C), E-MTAB-14060 (TF ChIP-seq). The remaining data are available within the Article, Supplementary Information, and Source Data that accompany this article. In addition, we have used publicly available data from the ENCODE78 and FANTOM93 consortia, as well as a single-cell RNA-seq dataset of hematopoietic cells obtained from the Gene Expression Omnibus (GEO) database under the accession code GSE149938143. We also used Illumina Infinium MethylationEPIC data from T-ALL25 (GSE147667) and AML26 (GSE159907). Source data are provided with this paper.-- Code availability: All software tools employed in this study are freely or commercially available (see Methods). R code used in the analysis of the data presented here can be found in Supplementary Code 1 |
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