characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2020-10-02T04:04:59Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2021-05-07T21:20:28Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA6096658
characteristics.characteristic: External Id
characteristics.text: Istituto Nazionale Genetica Molecolare INGM ‘Romeo ed Enrica Invernizzi’, Milan 20122, Italy.
characteristics.characteristic: INSDC center name
characteristics.text: 2020-10-02T04:04:59Z
characteristics.characteristic: INSDC first public
characteristics.text: 2021-05-07T21:20:28Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS3897052
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-8448:SQ_1960
characteristics.characteristic: Submitter Id
characteristics.text: 82
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: human
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_9606
characteristics.characteristic: common name
characteristics.text: Protocols: Primary colonic normal and tumoral tissues were obtained from the hospital. Normal and tumoral tissues were processed according to Fujii et al (Fujii et al, Nature Protocol 2015). Briefly, surgically resected specimens were reduced to 3-5 mm size, extensively washed with cold PBS and gentamicin (20g/ml) and incubated with PBS-EDTA rocking for 1h at 4°C. After PBS-EDTA, tissues samples were further washed with cold PBS and normal crypts and tumoral cells were released and collected by centrifugation at 400g for 5 minutes 4°C. For RNA-seq analysis, cells suspension from CRC PDOs, primary normal and tumoral tissues were lysed in TRIzol reagent (Thermo Fisher) and processed for total RNA extraction with PureLink™ RNA Mini Kit (Thermo Fisher), according to manufacturer’s procedure. PDOs samples were collected at early (<5 splits) and late passages (>5 splits). The RNA quality was assessed by the RNA Integrity Number (RIN) value with RNA6000 assay (Agilent). Only samples with RIN>7.0 were used in this study. Libraries were prepared using the TruSeq mRNA Stranded preparation kit (Illumina, San Diego, USA).
characteristics.characteristic: description
characteristics.text: adult
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0001272
characteristics.characteristic: developmental stage
characteristics.text: colorectal cancer
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0005842
characteristics.characteristic: disease
characteristics.text: 10
characteristics.characteristic: individual
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: colon
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/UBERON_0001155
characteristics.characteristic: organism part
characteristics.text: normal tissue adjacent to neoplasm
characteristics.characteristic: sampling site
characteristics.text: Homo sapiens
characteristics.characteristic: scientific_name
characteristics.text: female
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/PATO_0000383
characteristics.characteristic: sex
characteristics.text: SQ_1960
characteristics.characteristic: title