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of Systems Pharmacology, Harvard Program in Therapeutic Science, Harvard Medical School"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA777261"],"scientific_name":["Homo sapiens"],"tag":["xref:PubMed:35737447"],"long_description":["CRISPR KO RNA-seq data: To generate knockouts, we used a commercially available arrayed CRISPR-Cas9 library targeting 81 out of ~100 DUBs and 13 additional proteins in the ubiquitin-proteasome system, including ubiquitin-like proteins the library was constructed with four, pooled, guides per target. mRNA profiling was performed 96 hours after guide RNA transfection using a high-throughput, low-cost RNA-sequencing method (3’ Digital Gene Expression or 3’DGE-seq) in the MDAMB231 breast cancer cell line. Inhibitor RNA-seq data: For the small molecule inhibitor signatures, MDAMB231 or MCF7 or MCF7 TP53 shRNA breast cancer cells were treated with a panel of DUB inhibitors for 24 hours, then 3'DGE-seq was used to perform the mRNA profiling. Overall design: mRNA profiles following DUB KO or DUB inhibition with small molecule inhibitors"],"repository":["ENA"],"description_synonyms":["antagonists, inhibitors, inhibiteur, inhibitor, inhibidor, antagonists and inhibitors."],"name_synonyms":["antagonists, inhibitors, inhibiteur, inhibitor, inhibidor, antagonists and inhibitors."],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomics following CRISPR KO of individual DUBs or inhibition of DUBs with small molecule inhibitors","description":"Transcriptomics following CRISPR KO of individual DUBs or inhibition of DUBs with small molecule inhibitors","dates":{"last_updated":"2025-09-24","first_public":"2021-11-05"},"accession":"PRJNA777261","cross_references":{"GEO":["GSE187008"],"taxon":["9606"],"PubMed":["35737447"]}}