mta2 monoclonal antibody  (Proteintech)

Journal: Cell chemical biology

Article Title: HDAC3 and HDAC8 PROTAC dual degrader reveals roles of histone acetylation in gene regulation

doi: 10.1016/j.chembiol.2023.07.010

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Mouse monoclonal anti-MTA2 , Proteintech , Cat# 66195–1-Ig, RRID: AB_2877118.

Techniques: Recombinant, Software

Journal: iScience

Article Title: Histone deacetylation regulates nucleotide excision repair through an interaction with the XPC protein

doi: 10.1016/j.isci.2022.104040

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Article Snippet: Mouse monoclonal anti-MTA2 (F-9) , Santa Cruz Biotechnology , Cat#: sc-55566; RRID: AB_831564.

Techniques: FLAG-tag, Virus, Recombinant, Expressing, Transfection, CRISPR, Plasmid Preparation, Stable Transfection, Mutagenesis, Negative Control, Software

Journal: eLife

Article Title: NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency

doi: 10.7554/eLife.54993

Figure Lengend Snippet: ( A ) Representation of NuRD complex according to and ( B ) Expression levels, as normalized counts, of the displayed NuRD subunits (CHD4 in orange, HDAC2 in pink, MTA2 in dark pink, and RBBP4 in dark orange) obtained from RNA-seq data of RH4 cells expressing a tetracycline-inducible shRNA scramble construct at 24 and 48hrs of doxycycline treatment (n=3, see Materials and methods for details). ( C ) Violin plot depicting the expression levels of NuRD subunits in FP-RMS tumor tissue. Displayed are microarray data from three independent studies ( ; ; ) available on the R2 gene expression database (r2.aml.nl). ( D ) Immunoblot depicting Cas9 expression in RH4-Cas9 cells. GAPDH was used as a loading control and wildtype RH4 cells (WT) served as negative control. ( E ) Box plot depicting the tumor dependency scores, calculated as CERES, of the indicated NuRD members in 6 FP-RMS cell lines (CRISPR Avana Public 19Q2, depmap.org ). ( F ) Results of CRISPR/Cas9 double knockoutsdisplayed as ratio between the indicated NuRD members double knockout (DKO) population and the control population (sgAAVS1) at day 12 normalized to day 2. Each point represents the average of 3 biological replicates.

Article Snippet: Antibody , Anti-MTA2 (mouse monoclonal) , Sigma Aldrich , #M7569; RRID: AB_477237 , WB (1:1000).

Techniques: Expressing, RNA Sequencing Assay, shRNA, Construct, Microarray, Western Blot, Negative Control, CRISPR, Double Knockout

Journal: eLife

Article Title: NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency

doi: 10.7554/eLife.54993

Figure Lengend Snippet: ( A ) Pearson correlation heatmap of DNase I hypersensitivity (DNase) and ChIP-seq signal of the indicated epigenetic factors and histone marks in RH4 cells. Datasets are ordered by unsupervised clustering. ( B ) Chromatin states and respective abundance of the depicted NuRD components per state. ( C ) Overlap of CHD4, RBBP4, MTA2, and HDAC2 ChIP-seq peaks. ( D ) Distribution of the peak counts for CHD4/NuRD and NuRD-only regions according to their distance to the transcription start sites (TSSs) and genome functional region. ( E ) Heatmap depicting the ChIP-seq signal of the indicated NuRD subunits, BRD4, histone marks (H3K9ac,H3K27ac, H3K4me1, and H3K4me3), RNA Polymerase 2 (Pol 2), and DNase I hypersensitivity signal at CHD4/NuRD (n=4,599) and NuRD-only regions (n=8,901). The rows show 8kb regions, centered on HDAC2 peaks and ranked by the ChIP-seq signal intensity of H3K27ac. Color shading corresponds to ChIP-seq read counts. ( F ) Density plots displaying the average ChIP-seq signal of H3K27ac, H3K4me1, BRD4, H3K4me3, RNA Polymerase 2, and DNase I hypersensitivity signal at CHD4/NuRD and NuRD-only locations. ( G ) Examples of gene tracks displaying the ChIP-seq signal of the indicated proteins, histone marks and DNase I hypersensitivity signal at a CHD4/NuRD enhancer ( CREB5 ) and a NuRD-only promoter ( TRIM33 ). Figure 3—source data 1. NuRD ChIP-seq locations.

Article Snippet: Antibody , Anti-MTA2 (mouse monoclonal) , Sigma Aldrich , #M7569; RRID: AB_477237 , WB (1:1000).

Techniques: ChIP-sequencing, Functional Assay

Journal: eLife

Article Title: NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency

doi: 10.7554/eLife.54993

Figure Lengend Snippet: ( A ) Overlap between P3F and CHD4/NuRD ChIP-seq peaks. ( B ) Density plots depicting the average H3K27ac and BRD4 ChIP-seq as well as DNase I hypersensitivity (DNase) signal in RH4 cells at P3F+CHD4/NuRD (orange, n=1,538) and P3F-only locations (red, n=2,158). ( C ) Expression levels as normalized counts, obtained from RNA-seq data of RH4 cells, of the genes located nearest, within TADs, to P3F-only, P3F+CHD4/NuRD and CHD4/NuRD-only locations (one-way ANOVA; adjusted p-value=0.0411; *p< 0.1, **p < 0.01, ***p < 0.001). ( D ) Representative plot of the presence of the indicated NuRD subunits at the 810 super-enhancers (SEs) identified in RH4 cells (top). Density plot showing the average ChIP-seq signal of RBBP4, MTA2, HDAC2, CHD4, and H3K27me3 at SEs (bottom). ( E ) Distribution (in percentage) of P3F-bound SEs according to the presence of NuRD subunits. ( F ) Density plots depicting the average DNase I hypersensitivity signal, P3F, H3K27ac and BRD4 ChIP-seq signal in RH4 cells at SEs upon 48hrs of CHD4 knockdown (orange). Figure 4—source data 1. PAX3-FOXO1 and CHD4/NuRD co-occupancy at enhancers and SEs.

Article Snippet: Antibody , Anti-MTA2 (mouse monoclonal) , Sigma Aldrich , #M7569; RRID: AB_477237 , WB (1:1000).

Techniques: ChIP-sequencing, Expressing, RNA Sequencing Assay

Journal: eLife

Article Title: NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency

doi: 10.7554/eLife.54993

Figure Lengend Snippet: ( A ) Overlap between P3F and CHD4/NuRD ChIP-seq peaks found in at least 2 out of the 3 FP-RMS cell lines analyzed (RH4, RH5, and SCMC). ( B ) Heatmap depicting the ChIP-seq signal of P3F and the indicated NuRD subunits at CHD4/NuRD (n=3,916) and P3F+CHD4/NuRD regions (n=778). Color shading corresponds to ChIP-seq read counts. ( C ) Density plots showing the average ChIP-seq signal of RBBP4, MTA2, HDAC2, and CHD4 in RH5 and SCSMC cells at the 810 super-enhancers (SEs)identified in RH4 cells.

Article Snippet: Antibody , Anti-MTA2 (mouse monoclonal) , Sigma Aldrich , #M7569; RRID: AB_477237 , WB (1:1000).

Techniques: ChIP-sequencing

Journal: eLife

Article Title: NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency

doi: 10.7554/eLife.54993

Figure Lengend Snippet:

Article Snippet: Antibody , Anti-MTA2 (mouse monoclonal) , Sigma Aldrich , #M7569; RRID: AB_477237 , WB (1:1000).

Techniques: Recombinant, Plasmid Preparation, Expressing, Construct, shRNA, Sequencing, CRISPR, Enzyme-linked Immunosorbent Assay, Bicinchoninic Acid Protein Assay, Sample Prep, Software