Single neuron CNV analysis in mouse brain

Topoisomerase 1 (Top1) conditional f/f mice were crossed with Top1 f/+; NEX-cre mice to generate Top1 f/f; NEX-cre animals where Top1 is conditionally knocked out (Top1 cKO) in cortical and hippocampal excitatory neurons. Whole genome amplification and sequencing were performed on single neurons sorted from Top1 cKO (n=1) and a Top1 WT (NEX-cre negative; n=1) mice at postnatal day 7. FASTQ files are available for 95 neurons sequenced using this protocol. FACS-sorted neurons from additional mice (1 Top1 cKO, 1 Top1 WT) were sequenced following amplification using the 10X Genomics Chromium Single Cell CNV protocol. The data are organized as 2 BioSamples with 16 SRR entries per BioSample; these SRRs contain multiplexed reads from over 100 barcoded single neurons per mouse. Each SRR entry contains R1, R2, and I1 FASTQ files. Successful reanalysis of either mouse using 10X Cell Ranger CNV software will require download of all 16 SRRs, yielding 48 FASTQs.