Connecting single-cell transcriptomes to projectomes in the mouse visual cortex

Animal care and use Experimental procedures that involved the use of mice were all conducted with approved protocols in accordance with NIH (US National Institutes of Health) guidelines. They were also approved by the Allen Institute for Brain Science Institutional Animal Care and Use Committee. Mice were housed with five or less mice per cage and were maintained on a 12-h light–dark cycle, in a humidity-controlled and temperature-controlled room with water and food available ad libitum. Transgenic mice and sparse labelling Transgenic driver and reporter mice used in Patch-seq and WNM studies are listed in Supplementary Table 1 (Patch-seq only) and Supplementary Table 2 . Characterization of the expression pattern of many of the transgenic mouse lines can be found in the AIBS Transgenic Characterization database ( http://connectivity.brain-map.org/transgenic/search/basic ) 51 . Many of the brains used for WNM studies were described in a previous article 28 . Additional brains were sparsely and robustly labelled for WNMs studies using Supernova virus, which was provided as a gift by M. Luo as pAAV-TRE-fDIO-GFP-IRES-tTA (Addgene plasmid #118026; http://n2t.net/addgene:118026 ; RRID: Addgene 118026), and variants. Tissue processing and slicing procedure For preparation of acute brain slices, adult male and female mice (postnatal day 45 (P45)–P70 of age) were first fully anaesthetized by 5% isoflurane inhalation. …