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Key Resources Table

Journal: Cell reports

Article Title: Depletion of Mettl3 in cholinergic neurons causes adult-onset neuromuscular degeneration

doi: 10.1016/j.celrep.2024.113999

Figure Lengend Snippet: Key Resources Table

Article Snippet: PT 58.5553804, exon location 2-3 IDT Cat#447472065 For all guide RNA and HDR oligo sequences for CRISPR/Cas9 deletion of Mettl3 check Table S2 This study N/A siRNA 1-ON-TARGET plus siRNA METTL3 (Human) SMARTPool Horizon 22 Discovery, Dharmacon N/A Nontargeting siRNA #1 Horizon 22 Discovery, Dharmacon N/A Recombinant DNA lentiCRISPR v2 plasmid Addgene RRID:Addgene_52961 pLKO.1-puro vector Sigma MISSION Cat#SHC001 pLKO.1-puro Non-Mammalian shRNA control transduction particles Sigma MISSION Cat#SHC002H pLKO.1-Ythdf1 Sigma MISSION TRCN0000348429 pLKO.1-Ythdf2 Sigma MISSION TRCN0000197932 pLKO.1-Ythdf3 Sigma MISSION TRCN0000329409 pLKO.1-Mettl3 Sigma MISSION TRCN0000039111 pcDNA3-flag-YTHDF2 Addgene RRID:Addgene_52300 pcDNA-FLAG-METTL3 Addgene RRID:Addgene_53739 pcDNA-FLAG-METTL3-APPA Addgene RRID:Addgene_160251 pRRL-CMV-flag-YTHDF2 This study N/A pRRL-CMV-FLAG-METTL3 This study N/A pRRL-CMV-FLAG-METTL3-APPA This study N/A Software and algorithms GraphPad Prism 9.2.0 GraphPad https://www.graphpad.com/features Fiji (Image J) NIH https://imagej.nih.gov/ij/ Adobe Photoshop Adobe https://adobe.com Nanocompore (Leger et al.) 56 https://github.com/tleonardi/nanocompore_pipeline biomaRt, v2.42.0 (Durinck et al.) 76 (Durinck et al.) 77 https://dec2021.archive.ensembl.org:443/biomart/martservice DESeq2, v1.26.0 (Love et al.) 78 DOI: 10.18129/B9.bioc.DESeq2 MinKNOW (v19.12.6) Oxford Nanopore N/A Guitar package (v2.2.0) (Cui et al.) 79 DOI: 10.18129/B9.bioc.Guitar MEME suite (Bailey et al.) 80 https://meme-suite.org/meme/ clusterProfiler, v3.14.3 (Wu et al.) 81 (Yu et al.) 82 DOI: 10.18129/B9.bioc.clusterProfiler compEpiTools, v1.20.0 (Kishore et al,) 83 DOI: 10.18129/B9.bioc.compEpiTools Nanopolish, v0.13.2 (Loman et al.) 74 https://github.com/jts/nanopolish NanopolishComp, v0.6.11 (Leger et al.) 56 https://github.com/a-slide/NanopolishComp Guppy v3.2.10 Oxford Nanopore N/A pycoQC (2.5.0.21) (Leger et al.) 56 https://github.com/a-slide/pycoQC Minimap2 (v2.10-r761) (Li et al.) 70 https://github.com/lh3/minimap2 GRCm38.p6 Ensembl Genome browser http://nov2020.archive.ensembl.org/Mus_musculus/Info/Index Other Open in a separate window Key Resources Table. . METTL3 downregulation and TDP-43 autoregulation The stable HEK293 TDP-43 cell line expressing human TDP-43 upon tetracycline induction was generated as described 59 .

Techniques: Virus, Recombinant, Purification, RNA Sequencing Assay, CRISPR, Plasmid Preparation, shRNA, Control, Transduction, Software