Resources
Below, we have listed some resources generated in the lab with links to the publications, the datasets (proteomics, RNA-seq, Cut&Run) and to a repository where you can order the cell lines. Please feel free to get in touch if you have any questions or would like further information.
Cell lines and datasets
*This is a work in progress, and will be updated regularly with new cell lines, links to datasets, and references.
All of our published (and many unpublished) SWI/SNF engineered cell lines have been submitted and can be obtained at CancerTools.org
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PBRM1 (BAF180) knockouts in RPE1, HEK293T, U2OS, 786-O cells
Reference: Lane, et al BioRxiv 2024
Whole proteome from all KO and isogenic parental lines (PRIDE PXD043209)
​SMARCA4 CUT&RUN mapping dataset from parental RPE1 cells, SMARCA4 KO and PBRM1 KO cells (GEO GSE235294)
PBRM1 CUT&RUN mapping dataset from parental RPE1 cells (GEO GSE235294)
H3K9me2 and H3K9me3 CUT&RUN mapping dataset from parental RPE1 and PBRM1 KO cells (GEO GSE235294)
RNA-seq from PBRM1 KO lines and isogenic parental controls in RPE1 and 1BR cells (GEO GSE235342)
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PBRM1 (BAF180) knockouts in 1BR3-hTERT (immortalised human fibroblast cells).
Clones 3 and 5
Reference: Feng et al (2022) Genes Dev 36:790-806
RNA-seq from untreated and irradiated (48h, 2Gy) KO cells and isogenic parental cells: GSE183688
Whole proteome from untreated and irradiated (48h, 2Gy) KO cells and isogenic parental cells: PXD028366
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SMARCA4 (BRG1) knockout in HCT116 cell line.
Clone 2
Reference: Schiavoni et al (2022) Nat Comms 13:1371
Whole proteome from KO and isogenic parental cells cultured for short (<1month), medium (4 months) or long (8 months timeframes: PDX014954