Journal: Molecular Cell

Article Title: BAP1 enhances Polycomb repression by counteracting widespread H2AK119ub1 deposition and chromatin condensation

doi: 10.1016/j.molcel.2021.06.020

Figure Lengend Snippet:

Article Snippet: Drosophila: S2 cell line , ATCC , ATCC CRL-1963.

Techniques: Control, Virus, Recombinant, Transfection, Purification, Extraction, Sequencing, Imaging, Plasmid Preparation, Software

Journal: bioRxiv

Article Title: PRMT activity promotes global 3’ UTR shortening in proliferating cells

doi: 10.1101/2025.03.06.641848

Figure Lengend Snippet: a) Violin plot showing proximal to distal usage shifts across each class of significant APA event. Proximal to distal usage shift is calculated as: dPA change in usage - pPA change in usage. White square = median. b) Scatter plots displaying Pearson correlation (r) of DMAi-induced poly(A) site usage change between different cell lines. Upper left = LU-99 vs MCF7, Lower left = NCI-H838 vs SUM149PT, Upper right = PANC0403 vs GP2D. Lower right = HCT116 p53 +/+ vs U2OS. c) Distribution of proximal poly(A) usage across all genes in a patient-derived lung tumour organoid model versus normal lung tissue organoids derived from the same patient. Scale: 0 = 0% usage, 1 = 100% usage. Statistical significance was calculated using the Kruskal-Wallis Test. d) An example of a 3’ UTR ( Prkca) whose shortening upon T cell activation (blue) is prevented by DMAi (red).

Article Snippet: GP2D, NCI-H838, LU-99, PANC0403, SK-MEL-2, SUM149PT and U2OS cells were sourced from the AstraZeneca Global Cell Bank.

Techniques: Derivative Assay, Activation Assay

Journal: bioRxiv

Article Title: PRMT activity promotes global 3’ UTR shortening in proliferating cells

doi: 10.1101/2025.03.06.641848

Figure Lengend Snippet: a) Upper = Scatter plots displaying Pearson correlation (r) in poly(A) site usage change triggered by DMAi versus siPCF11 (left) and CPSF73i (right). Lower = Pearson correlation (r) in poly(A) site usage change triggered by DMAi versus all other APA-inducing perturbation datasets within the 3’ RNA-seq panel. b) Comparison of position-dependent frequency of occurrence of GU-rich motifs within proximal and distal regions at DMAi-lengthened (red), non-DMAi-lengthened (green) and control (grey) sites. Running averages were calculated over 15 consecutive nucleotide positions. GU-rich motif = any 4mer combination of 2Gs + 2Us. c) Comparison of position-dependent frequency of occurrence of GU-rich motifs within proximal and distal regions at DMAi-lengthened (red) and unchanged, control (grey) 3’ UTRs, across three representative cancer lines. Upper = GP2D, Middle = HCT116 p53 +/+, Lower = PANC0403. d) CSTF2 eCLIP binding around poly(A) sites in 3’ UTRs across DMAi-vs non-DMAi-lengthened transcripts (expression matched), calculated from ENCODE consortium data in HepG2 cells. e) Distribution of % GC content within each gene region among DMAi-lengthened (red), non-DMAi-lengthened (green) and control (grey) genes. f) Distribution of baseline proximal poly(A) site usage in control (grey), DMAi-lengthened (red) and non-DMAi-lengthened (green) categories (expression matched). Scale: 0 = 0% usage, 1 = 100% usage. Statistical significance was calculated using the Kruskal-Wallis Test, with Bonferroni method p value adjustment for multiple testing. g) Boxplot showing the nucleotide distance between proximal and distal poly(A) sites at control (grey), DMAi-lengthened (red) and non-DMAi-lengthened (green) sites. Statistical significance was calculated using the Kruskal-Wallis Test, with Bonferroni method p value adjustment for multiple testing.

Article Snippet: GP2D, NCI-H838, LU-99, PANC0403, SK-MEL-2, SUM149PT and U2OS cells were sourced from the AstraZeneca Global Cell Bank.

Techniques: RNA Sequencing, Comparison, Control, Binding Assay, Expressing