characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2022-05-02T12:14:05Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2022-05-02T12:14:05Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA11117746
characteristics.characteristic: External Id
characteristics.text: Biotechnology and Biomedicine Center of the Academy of Sciences and Charles University in Vestec (BIOCEV); First Faculty of Medicine; Charles University
characteristics.characteristic: INSDC center name
characteristics.text: 2022-05-02T12:14:05Z
characteristics.characteristic: INSDC first public
characteristics.text: 2022-05-02T12:14:05Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS8767368
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-11172:AZA-R clone 33
characteristics.characteristic: Submitter Id
characteristics.text: 56
characteristics.unit: year
characteristics.characteristic: age
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: OCI-M2
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0006713
characteristics.characteristic: cell line
characteristics.text: bone marrow cell
characteristics.characteristic: cell type
characteristics.text: human
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_9606
characteristics.characteristic: common name
characteristics.text: Protocols: Genomic DNAs for whole exome sequencing (WES) were isolated from cultured 5-Azacytidine-sensitive (AZA-S) cells (derived from ancestral OCI-M2 line), 5-Azacytidine-resistant (AZA-R) subclones and hematopoietic cells from bone marrow aspirates obtained from patients diagnosed with Myelodysplastic syndrome that were collected in accordance with the patient's informed consent. OCI-M2 AZA-R subclones evolved from AZA-S cells after treatment with bi-weekly 8 µM AZA doses exceeding IC50 for duration of 6 weeks. After their establishment the AZA-R cell lines were maintained by weekly 2 µM doses of 5-azacytidine in IMDM + 20%FBS. AZA-S cells were cultivated in IMDM + 20%FBS without 5-Azacytidine. Genomic DNAs were isolated with DNeasy Blood & Tissue Kit (Qiagen) from a starting material of approximately 5 x 106 nucleated bone marrow cells and cell lines. Genomic DNA libraries were prepared with Roche/NimbleGen SeqCap EZ Library Kit (KAPA HyperCap Workflow v3.0) (Indianapolis, IN) covering 47 Mb of all medically relevant genes (~2000).
characteristics.characteristic: description
characteristics.text: adult
characteristics.characteristic: developmental stage
characteristics.text: myelodysplastic syndrome
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0000198
characteristics.characteristic: disease
characteristics.text: MDS-AML
characteristics.characteristic: disease type
characteristics.text: wild type genotype
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0005168
characteristics.characteristic: genotype
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: Homo sapiens
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_9606
characteristics.characteristic: organism
characteristics.text: bone marrow
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/UBERON_0002371
characteristics.characteristic: organism part
characteristics.text: Homo sapiens
characteristics.characteristic: scientific_name
characteristics.text: male
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/PATO_0000384
characteristics.characteristic: sex
characteristics.text: AZA-R clone 33
characteristics.characteristic: title