KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rabbit Polyclonal Anti-ATXN1 | In house (Servadio et al.27) | 11750, RRID:AB_2721278 |
| Rabbit Polyclonal Anti-CIC | In house (Lam et al.7) | RRID:AB_2721281 |
| Mouse Monoclonal Anti-GAPDH | Jackson ImmunoResearch | Cat # #715-035-150, RRID:AB_2107426 |
| Rabbit Monoclonal Anti-H3K27ac | Cell Signaling | Cat# 8173,RRID:AB_10949503 |
| Rabbit Polyclonal Anti-CAR8 | Proteintech | Cat# 12391-1-AP, RRID:AB_2066277 |
| Rabbit Polyclonal Anti-Mouse IP3R1 | Thermo Fisher Scientific | Cat# PA1-901, RRID:AB_2129984 |
| Rabbit Polyclonal Anti-RFX1 | Bethyl | Cat# A303-043A, RRID:AB_10754499 |
| Rabbit Polyclonal Anti-ZBTB5 | Atlas Antibodies | Cat# HPA021521, RRID:AB_2670736 |
| Critical commercial assays | ||
| miRNeasy Mini Kit RNA Isolation | Qiagen | Cat# 217004 |
| Next II DNA Ultra Kit | New England BioLabs | Cat# E7645S |
| Unique Combinatorial Dual index kit | New England BioLabs | Cat# E6442S |
| Deposited data | ||
| WT, Atxn1154Q/2Q and Atxn1154Q[V591A;S602D]/2Q RNA-seq | This Paper | GEO: GSE218283 |
| CIC & H3K27ac CUT&RUN | This Paper | GEO: GSE218301 |
| Entire RNA-seq & CUT&RUN Dataset | This Paper | GEO: GSE218302 |
| WT and Engrailed-1-Cre; Cicflox/flox RNA-seq | Rousseaux et al.9 | GEO: GSE108254 |
| RFX1 ChIP-seq | Creyghton et al.24 | GEO: GSM594584 |
| ZKSCAN1 ChIP-seq | Yue et al., 201425 | GEO: GSM1003779 |
| Experimental models: Cell lines | ||
| The generation of iPSC-derived neurons from an SCA1 kindred is described in detail in the STAR Methods | This paper | Available upon request |
| Experimental models: Organisms/strains | ||
| Mouse: C57BL6/J | The Jackson Laboratory | RRID:IMSR_JAX:005304 |
| Mouse: Atxn12Q/− (over null) | Matilla et al.28 | RRID:IMSR_JAX:029025 |
| Mouse: Atxn1154Q/2Q | In House (Watase et al.10) | RRID:IMSR_JAX:005601 |
| Mouse: Atxn1154Q[V591A;S602D]/2Q | This Paper | JAX Stock # 037673 |
| Mouse: Atxn12Q[V591A;S602D]/2Q | This Paper | JAX Stock # 037674 |
| Mouse: Engrailed-1-Cre | Kimmel et al., 200029 | RRID:IMSR_JAX:007917 |
| Mouse: Cicflox/flox | Lu et al.18 | RRID:IMSR_JAX:030555 |
| Oligonucleotides | ||
| ssODN for V591A;S602D mice: CAAACTGTATCACGGCCACCCCGGGGCTGTGGCTCTCCTCGATTCTCTCCACAGTACTGGAGTCGATCTTGAGGTCATTGCTAATCTCTGCAtcCTGGATGAAATCtTCtGTtTTtAGaTCtTCggCCTTCTTCAGCTCCCCGTTGGCCAGCTGGATGATGGA | This paper/IDT | NA |
| crRNA for V591A;S602D mice: GGTGGAGGACCTGAAGACGG | This paper/IDT | NA |
| tracrRNA for V591A;S602D mice | IDT | Cat# 1072532 |
| qPCR Primers | This paper/Sigma | See Table S1 |
| Genotyping Primers | This paper/Sigma | See STAR Methods Details |
| Software and algorithms | ||
| IGV v2.11.1 | Robinson et al.30 | https://software.broadinstitute.org/software/igv/ |
| Clusterprofiler v4.0.5 | Yu et al.31 | https://bioconductor.org/packages/release/bioc/html/clusterProfiler.html |
| UpsetR v1.4.0 | Conway et al.32 | https://upset.app/ |
| STAR v2.7.2d | Dobin et al.33 | https://github.com/alexdobin/STAR |
| DESeq2 v1.32.0 | Love et al.34 | https://bioconductor.org/packages/release/bioc/html/DESeq2.html |
| Trimmomatic v0.36 | Bolger et al.35 | http://www.usadellab.org/cms/?page=trimmomatic |
| Bedtools v2.29.1 | Quinlan et al.36 | https://bedtools.readthedocs.io/en/latest/ |
| MACSr v1.00 | Hu, 202237 | https://www.bioconductor.org/packages/release/bioc/html/MACSr.html |
| MEME suite v4.11.2 | Bailey et al.38 | https://meme-suite.org/meme/ |
| Deeptools v3.5.1 | Ramírez et al.39 | https://deeptools.readthedocs.io/en/develop/ |