Key resources table.
| Reagent type (species) or resource |
Designation | Source or reference |
Identifiers |
|---|---|---|---|
| Gene (Mus musculus) | Shank3; SH3 and multiple ankyrin repeat domains 3 | NA | ENTREZ_ID: 58234 |
| Gene (Mus musculus) | Per3; period circadian clock 3 | NA | ENTREZ_ID: 18628 |
| Gene (Mus musculus) | Hlf; hepatic leukemia factor | NA | ENTREZ_ID: 217082 |
| Gene (Mus musculus) | Tef; thyrotroph embryonic factor | NA | ENTREZ_ID: 21685 |
| Gene (Mus musculus) | Nr1d1; nuclear receptor subfamily 1, group D, member 1; | NA | ENTREZ_ID: 217166 |
| Gene (Mus musculus) | Bhlhe41; basic helix-loop-helix family, member e41; | NA | ENTREZ_ID: 79362 |
| Strain, strain background (Mus musculus) | Shank3ΔC; Shank3tm1.1Pfw/J | Kouser et al., 2013; The Jackson Laboratory | RRID:IMSR_JAX:018398 |
| Commercial assay or kit | RNAeasy kit | Qiagen | 74104 |
| Commercial assay or kit | High Sensitivity RNA Analysis Kit | Advanced Analytical Technologies | DNF-472 |
| Commercial assay or kit | High Sensitivity NGS Fragment Analysis Kit | Advanced Analytical Technologies | DNF-474 |
| Commercial assay or kit | KAPA Library Quantification Kit | Kapabiosystems | KK4824 |
| Commercial assay or kit | TruSeq Stranded mRNA Library Prep Kit | Illumina | RS-122–2101 |
| Software, algorithm | HiSeq Control Software version (v. 2.2.68) | Illumina | 15073358 Rev A |
| Software, algorithm | bcl2fastq (v. 2.17.1.14) | R/Bioconductor | SCR_015058 |
| Software, algorithm | Rsubread (v. 1.26.1) | R/Bioconductor | SCR_016945 |
| Software, algorithm | NOISeq (v.2.22.1) | R/Bioconductor | SCR_003002 |
| Software, algorithm | RUVSeq (v. 1.12.0) | R/Bioconductor | SCR_006263 |
| Software, algorithm | edgeR (v. 3.20.9) | R/Bioconductor | SCR_012802 |
| Software, algorithm | R package nlme (v. 3.5.0) | CRAN | SCR_015655 |
| Software, algorithm | R package mgcf (v. 3.5.0) | CRAN | |
| Software, algorithm | R package pheatmap (v. 1.0.10) | CRAN | SCR_016418 |
| Software, algorithm | Database for annotation, visualization, and integrated discovery (v 6.7) | DAVID; https://david.ncifcrf.gov | |
| Software, algorithm | VitalRecorder | Kissei Comtec | 3, 0, 0, 0 |
| Software, algorithm | SleepSign for Animal | Kissei Comtec | 3, 0, 0, 812 |
| Software, algorithm | Wheel manager | Med Associates Inc | SOF-860 |
| Software, algorithm | ClockLab (v. 3.5.0) | Actimetrics | 6.0.50 |