organism: Homo sapiens
description: Protocols: Cells were cooled using ice-cold PBS with 0.1 mg/ml cycloheximide, then scraped, pelleted and flash frozen after aspiration of the supernatant. Cells were then lysed and riboseq libraries were prepared as described in McGlincy and Ingolia, 2017, except that RNase H-based rRNA depletion was used (Adiconis et al 2013), and libraries were made using an iCLIP-related protocol. For quantseq, a small aliquot was kept aside before RNase I digestion. RNA was extracted after pelleting of ribosomes through a sucrose cushion with trizol and zymo RNA miniprep columns. For quantseq, RNA was trizol extracted from the above frozen lysates. iCLIP related protocol (Huppertz et al 2014) was used for Riboseq. Lexogen Quantseq Fwd was followed for Quantseq.
attributes.tag: ENA first public
attributes.value: 2021-03-23
attributes.tag: ENA last update
attributes.value: 2020-12-16
attributes.tag: External Id
attributes.value: SAMEA7725512
attributes.tag: INSDC center alias
attributes.value: Francis Crick Institute
attributes.tag: INSDC center name
attributes.value: Francis Crick Institute
attributes.tag: INSDC first public
attributes.value: 2021-03-23T08:57:08Z
attributes.tag: INSDC last update
attributes.value: 2020-12-16T15:09:29Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: E-MTAB-9921:Quantseq_MutDelta2_1
attributes.tag: age
attributes.value: 4
attributes.tag: broker name
attributes.value: ArrayExpress
attributes.tag: cell line
attributes.value: SH-SY5Y
attributes.tag: common name
attributes.value: human
attributes.tag: developmental stage
attributes.value: juvenile stage
attributes.tag: disease
attributes.value: neuroblastoma
attributes.tag: genotype
attributes.value: MAPT-AS1 mutDelta2 mutation
attributes.tag: organism part
attributes.value: bone marrow
attributes.tag: protocol
attributes.value: Quant-seq
attributes.tag: sample name
attributes.value: E-MTAB-9921:Quantseq_MutDelta2_1