Meta-Cluster Annotation Gene_1 Gene_2 Gene_3 Gene_4 Gene_5 Gene_6 Gene_7 Gene_8 Gene_9 Gene_10 Gene_11 Gene_12 Gene_13 Gene_14 Gene_15 Gene_16 Gene_17 Gene_18 Gene_19 Gene_20 Gene_21 Gene_22 Gene_23 Gene_24 Gene_25 Gene_26 Gene_27 Gene_28 Gene_29 Gene_30 Gene_31 Gene_32 Gene_33 Gene_34 Gene_35 Gene_36 Gene_37 Gene_38 Gene_39 Gene_40 Gene_41 Gene_42 Gene_43 Gene_44 Gene_45 Gene_46 Gene_47 Gene_48 Gene_49 Gene_50 MC_1 Cerebellar purkinje neurons Car8 Pcp2 Arhgef33 Zfp385c Fam107b Homer3 Pcsk6 Pde5a Grid2ip Col18a1 Foxp4 Ryr1 Ppp1r17 Slc9a3 Plekhd1 Arhgap31 Casq2 Atp2a3 Id2 Cep76 Serinc2 Stac Kitl Iltifb Sycp1 Hes3 Arap1 Rreb1 Svil Plxdc1 Nrk Ptpn13 Kank1 Lhx1 Fam117a Pvalb Arhgef37 Htr1b Gng13 Fam222a Syne2 Itpka Dnah6 Kcnmb1 Stk17b Dipk2a Doc2b Trabd2b Rtel1 Sag Corin MC_2 Striatal, amygdalar, and pallidal MGE neurons, including TH and PV striatal interneurons Sox6 Moxd1 Cntnap3 Egfr St18 Kit Gpr83 Lhx6 Etv1 Hs3st2 Igfbp4 Nkx2-1 Maf Mafb Adamts5 Pde3a Prox1 Sp9 Lamb1 Cox6a2 Lypd6 Pcsk6 Fam210b Gna14 Npy Ccbe1 Opn3 Trpc6 Arx Gpc3 Crhbp Cdca7 Tle2 Pthlh Crabp1 Sst Lhx8 Dlx1 Fndc1 Igsf11 Tgfb3 Lama3 Tacr1 Dlx6 Hmcn2 Necab2 Fbln2 Ahr Dusp10 Dlx5 Ltbp1 MC_3 Pallidal, hypothalamic and amygdalar MGE neurons, primarily BNST Sox6 Prlr Moxd1 Greb1 Gldn Lhx6 Cpne2 Dlx1 Esr2 Scn5a Gda Esr1 Plagl1 Nek10 Pifo St18 Gm12216 Sox2 AW551984 Fndc1 Tmem215 Tacr1 Cyp19a1 Cartpt Rcn1 Esyt3 Pnoc Trpc6 Shisal2b Zim1 Sst Drc1 Ecel1 Arx Rreb1 Pappa Magel2 Hrh1 Nmbr Chil5 Rasal1 Chodl 4933424G06Rik Cntnap3 Prox1 Tnfaip8l3 Gm1604b Crhr2 Myo1h Thbs3 Syt10 MC_4 Long-range projecting interneurons of cortex, striatum, and pallidum Sox6 Sst Npy Tacr1 Nos1 Lhx6 Klf5 Ntn1 Sfrp1 Lypd6 Moxd1 Crhbp Cntnap3 Sox2 Chodl Sytl5 Tent5a Fndc1 Nxph2 Drd1 Arhgap28 Dach2 Npy2r Adgrg6 Plpp3 Masp1 Pcdh18 Gm1604b Sox1 Trpc6 Myo5b Colec12 Stac Svil Pth2r Lemd1 Bace2 Sp9 Maf Slc7a3 Dlx1 Hhip Lama1 Cort Npsr1 Rgma Arx St6galnac2 Plagl1 Ccdc187 Tshr MC_5 Hypothalamic and pallidal MGE neurons Sox6 Lhx6 Stac Kcnmb4 Lhx8 Sytl5 Ccbe1 Arx Lancl3 Sema3c Lama3 Gbx1 Lypd6 Stk32b Kit Cntnap3 Prrg1 Tacr1 Mn1 Dlx6 Fam222a Rgma Hrh2 Il13ra1 Dlx5 Trim43c Isoc1 Klf5 Cracr2a Tshr Dlx1 Npy2r Itga8 Sp9 Sst A830031A19Rik Shh Ptgs1 Gm8113 Pcdh8 Bend5 Kirrel Mme Nkx2-1 Corin Il17d Efcab6 Vegfc Insyn2a Xk Pde3a MC_6 Pallidal and septal MGE neurons Sox6 Gbx1 Lhx6 Kcnmb4 Actn2 Lhx8 Pde3a Sema3c Insyn2a Sytl5 Mn1 Ccbe1 Megf10 Pou3f1 Scube2 Isoc1 Stac Stk32b Dusp10 Adra1b Gpr26 Lancl3 Lama3 Frrs1 Elovl7 A830031A19Rik Kctd12 Arx Htr1a Lmo7 Lrrc55 Il13ra1 Pcdh8 Shh Scn5a Mmp15 Ano1 Lypd6 Robo3 Trim43c Gpat3 Fam210b Tacr1 Hrh2 Fam222a Dlx1 Ror1 Dlx6 Corin Hs3st1 Myo3b MC_7 Pallidal and septal MGE neurons Sox6 Npas1 Gbx1 Megf10 Lhx6 Stac Sema3c Npr3 Elovl7 Pde3a Ccbe1 Gpc3 Kcnmb4 Lhx8 Isoc1 Sytl5 Insyn2a Pnoc Adra1b Slc36a1 Sertm1 Pou3f1 Dysf Ckmt2 Mn1 Zar1l Stk32b Gng12 S100a10 Tacr3 Lrrc55 Rxfp2 Adamts12 Il13ra1 Hrh2 Mboat1 Bend5 Lypd6 Iqcj Pappa Agbl1 Qrfprl Svbp Tacr1 Shh Pwwp3b Hs3st1 Ccdc60 Slc7a3 Fibcd1 Zim1 MC_8 Globus pallidus MGE neurons Sox6 Kcnmb4 Megf10 Cntnap3 Gpr149 Lhx8 Mme Lhx6 Gbx1 Nkx2-1 Ccbe1 Sema3c Lama3 Etv1 Insyn2a Cyyr1 Isoc1 Itm2a Tacr1 Mboat1 Gpr174 Npy2r Mctp2 Antxr2 Sytl5 Shh Pparg Elovl7 Pvalb Gm2115 Tns1 Crhr1 Grin2c Lancl3 Gpr139 Fam131c Ugt8a Fam222a Qrfprl Npas1 Trim43c Skap1 Adgra3 Pde3a Fads6 Sinhcaf Pcdh8 Impa2 Slc36a1 Grem1 Tpcn2 MC_9 Hypothalamic and pallidal MGE neurons Sox6 Sertm1 Pde3a Fam20a Lhx6 Lhx8 Megf10 Insyn2a Mn1 Lmo7 Fam210b Corin Gbx1 Npas1 Stac Lama3 Pappa Pou3f1 Arx Tshr BC030500 Foxg1 Tacr3 Atp8b1 Oprk1 Stk32b Sytl5 Il17d Gpr26 Ccdc141 Mylip Cntnap3 Isoc1 Ccdc60 Rgs12 Lemd1 Kit A830031A19Rik Gm43517 Il13ra1 Postn Foxo6 Dysf Shh Lancl3 Adra1b Lrrc9 Hs3st1 Rgma Dlx5 Ngf MC_10 Hypothalamic and pallidal MGE neurons Sema3c Pde3a Arhgef26 Sox6 Lhx8 Gbx1 Lhx6 Etv1 Plagl1 Megf10 Nr4a2 Insyn2a Gpc3 Adamts5 Sytl5 Scube2 Rxfp2 Pcdh8 Crh Kirrel Myo3b Dgkk Cav1 Ccdc60 Necab2 Adam12 Crhr1 Mpp4 Slc9a2 Asic4 Tacr3 Kcnmb4 Fibcd1 Dusp10 Arx Shisa8 Gng12 Tle2 Slc10a4 Chrna2 Cacna1h Scn5a Lancl3 Lrrc9 Ly75 Tes Adgra3 Dipk2a Fam222a Elovl7 Rgs4 MC_11 Hypothalamic and pallidal MGE neurons Lypd6 Ntn1 Ccbe1 Lhx8 Lhx6 Cntnap3 Nkx2-1 Kcnmb4 Stac Sfrp1 Etv1 Sema3c Slc10a4 Sst Mctp2 Arx C1ql2 Tafa4 Slc5a7 Fam20a Pth2r Abi3bp Dlx1 Htr2a Nppc Ano1 Sox6 Vrk2 Gpr149 Dgkk Zic1 Ptgs1 Antxr2 Foxg1 Pcdh8 Moxd1 Gpr174 Rgs4 Cartpt Svbp A830031A19Rik Shh Mme Stk32b Gm43517 Rpp25 Dlx2 Tacr3 P2ry10b Gm11146 Dab2 MC_12 Pallidal cholinergic neurons Slc5a7 Prima1 Chat Ecel1 Lhx8 Tacr1 Ngfr Dgkk Pdlim5 Isl1 Doc2b Slc10a4 Oprd1 Zic1 Popdc3 Six3 Fhl5 Dysf Tspan18 S100a10 Ntrk1 Pde3a Klf6 B3gnt2 Ccbe1 Slc25a1 Zic4 Nox4 Nkx2-1 Tmc7 Wipi1 Stac Ano1 Ccdc192 Adgrf5 Ntn1 Lrrc75a Insrr Ptger3 Tnfaip8l3 Rbm11 Ntsr1 Rcn1 Sema3c Lrrc9 Spata1 D7Ertd443e Slc18a3 Ccdc60 Stk32b Stum MC_13 Striatal and pallidal cholinergic neurons Slc5a7 Prima1 Chat Qrfprl Tacr1 Ecel1 Isl1 Pde3a Lhx8 Slc17a8 Slc10a4 Ntn1 Rgs12 Ntrk1 Cftr Zic1 Slc25a1 Cxcl14 Klf5 Gdnf Megf10 Oprd1 Sntb1 Fjx1 Tnfaip8l3 Klf6 Mme Arx Slc18a3 Zfp945 Insrr Tpbgl Drd2 Meis3 Rspo1 Frem2 Hopx Parvb Zic4 Nek11 Tmem176b Tacr3 Barx2 S100a10 Maob Gpr83 Eepd1 Rcn1 Adrb1 Nkx2-1 Hrh2 MC_14 Anterior hypothalamic MGE neurons Ccbe1 Dgkk Gm45194 Kcnh8 Lhx6 Prlr Lhx8 Ecel1 Dlk1 Nts Pgpep1l Nkx2-1 Gpc3 Scn5a Kcnk13 Foxo1 Gabrq AW551984 Lrrc9 Stk33 Cntnap3 Gpr149 Spag16 Sema3c Zim1 Fgd5 Ano1 Tes Lypd6 Gck Stk32b Drc1 Crh Angpt1 Esr1 Pzp Shh Smco4 Npy2r Gzmk Peg10 Serpinb1b Rxrg Efhb Dsc2 Vwa5b1 Cpne2 Cfap97d2 Tmem26 Ppfibp2 As3mt MC_15 Hypothalamic and pallidal neurons Tcf7l2 Il31ra Samd3 Gpc3 Gpr149 Sulf1 Gpc4 Rspo3 Frem1 Scn5a Drd3 Iqschfp Pcdh8 Oprk1 Iqcj Stk32b Daam2 Lhx5 Lama1 Cracr2a Uncx Kcnh8 T2 Dmrta2 Ntsr1 Tbr1 Skor1 Coch Adamts18 Nts Rspo1 Tgfbi Nxph4 Ppm1m Stk32a Egflam St3gal1 F13a1 Slc7a3 Tex47 Itga4 Cpne7 Kif6 Rgs2 Klhl14 Galr1 Prkg2 Gpr101 Cnga3 Cerkl Cdh24 MC_16 Septal neurons Myo5b Prdm16 Zic1 Ano1 Palmd Prkcd Gda Zic4 Mob3b Rasd1 Igfbpl1 Slc24a4 Hs3st2 Lbhd2 Dlx1 Cacng5 Sox1 Scn5a Ano2 Npffr1 Ptk2b Clic6 Zic2 Clic4 Bok Cpa6 Prlr Akap5 Gpc3 Inafm2 Ing2 Col6a3 Necab2 Col23a1 Stac Egr4 Sp9 Sik1 C130074G19Rik Efnb3 Ndnf Zic5 Slc12a8 Lrrc10b Nbl1 Dlx6 Tec Matn2 Grid2ip Dlx2 Kcnip2 MC_17 Septal and hypothalamic neurons Prdm16 Zic1 Myo5b Ano1 Zic4 Ano2 Prkcd Clic4 Igfbpl1 Rasd1 Hs3st2 Palmd Zic2 Scn5a Slc24a4 Ptk2b Sox1 Kcnip2 Dlx1 Lbhd2 Zic5 Clic6 Npffr1 Mob3b Sp9 Gpc3 Bok Col23a1 Matn2 Ing2 Sox2 Cacng5 Lrrc10b Egr4 Dlx6 Gda Prlr Akap5 Inafm2 Zdhhc23 Kcng2 Isl1 Itpka Col9a3 Stac Met C130074G19Rik Necab2 Nbl1 Sp8 Stum MC_18 Septal and hypothalamic neurons E130114P18Rik Prdm16 Gda Prlr Spag16 Zic1 Scn5a Vwa5b1 Nek10 Pifo Peg10 Cntnap3 Gck Slc24a4 Zbbx Gpc3 Six3 Plagl1 Trpc6 Dlk1 Igfbpl1 Lhx8 Ddo St18 Spata13 Stk33 Drc1 Clic6 Ano2 Gm12216 Myo5b Zic4 Calcr Hs3st2 Asb4 Fhad1 Wdr66 Cpne2 Spef2 Tes Pnoc Irs4 Cfap44 Togaram2 Nkx2-1 Cmtm8 Efcab6 Hccs Amelx Chst9 Fam189a2 MC_19 Septal and hypothalamic neurons Zic1 Pax6 Igfbpl1 Scn5a Prkcd Gpc3 Palmd Zic4 Dlx1 Angpt1 Sox2 Cacng5 Ddo Ptk2b Gpr39 Eya4 Zic2 Sp9 Inhba Npffr1 Zic5 Lmo2 Enpp1 Sall3 Lama1 Clic6 Gcnt2 Nfix Rassf3 Fmnl3 Prdm12 Pnoc Sik1 Pcdh8 Myh7 Slc35d3 Cpne7 Adam12 Gpr83 Foxg1 Wnt5a 4931422A03Rik Stac Glp2r Gda Tnfaip8l3 Syt10 Spag16 Prdm16 D930020B18Rik Hrh1 MC_20 MGE PV interneurons, likely chandelier Igsf11 Maf Mctp2 Pde11a Lhx6 Kcns3 Cntnap3 Cemip Eepd1 Hapln1 Id2 Ngf Arx Egfr Arhgef37 Unc5b Nek7 Gabrd Sox6 Lamb1 Pnoc Mafb Gfpt2 Nos1 Vcan Gng7 Rassf3 Npy Cox6a2 Pde5a Htra1 Tll1 Sp9 Tacr1 Pde3a Sema3c Frem1 Igfbp4 Pxdc1 Dlx1 Sntb1 Mlip Sox2 Acss1 Crispld1 Cort Hs3st1 Myo3b Nxph2 Myo5b Fgd3 MC_21 MGE SST interneurons of isocortex, amygdala, and hippocampus Sst Cntnap3 Maf Npy Moxd1 Klf5 Trpc6 Sox6 Arx Lhx6 Crhbp Daam2 Mafb Dlx1 Pstpip2 Ets1 Il34 Bche Cort Vegfc Sox2 Akap5 Edaradd Lama4 Golm1 Igfbp4 Pcdh8 Sytl5 Rpp25 Ackr3 Lgals1 Ephx4 Dsc2 Npffr1 Nxpe2 Htr2a Cbln4 Ctsc Iqgap2 Mageb18 Wnt7a Neb Iqcj Prkcq Sox1 Nppc Pcdh18 Ror2 Masp1 Barx2 Gm11146 MC_22 MGE SST interneurons of hippocampus Sst Maf Npy Kcns3 Trpc6 Cntnap3 Klf5 Lhx6 Arx Daam2 Ets1 Dlx1 Igsf11 Pappa Npffr1 Mafb Il34 Sox2 Golm1 Ngf Rpp25 Cort Pstpip2 Arhgap15 Crhbp Pxdc1 Masp1 Stk32a Fgf10 Kif6 Eya4 Ctsc Lgals1 Ackr3 Igfbp4 Nxpe2 Rtkn2 Dlx5 Sema6c Alkal2 Sox1 Oprd1 Npas1 Ephx4 Cbln4 Edaradd Lypd6 Moxd1 Dlx6 Dlx2 Camk1g MC_23 MGE SST interneurons of isocortex, amygdala, and hippocampus Sst Sox6 Cntnap3 Rbp4 Lypd6 Maf Trpc6 Lhx6 Npy Mafb Npas1 Klf5 Arx Iqgap2 Oprd1 Eya4 Lama4 Gda Igf1 Crhbp Sytl5 Kcns3 Dlx1 Masp1 Creb3l2 Kcnmb4 Lgals1 Ephx4 Slc30a3 Cort Filip1 Mageb18 Moxd1 Klhl14 Ifit2 Stk32a Rpp25 Dlx5 Glp2r Gxylt2 Sox2 Akap5 Pxdc1 Dlx6 Ror2 Eya1 Crh Ptgs1 Arhgap15 Abcd2 Barx2 MC_24 MGE PV isocortical interneurons Sox6 Cemip Maf Cntnap3 Iqgap2 Nek7 Oprd1 Igsf11 Myo5b Kcns3 Pvalb Lhx6 Mafb Eya4 Myo1e Pde5a Phlda1 Gabrd Tac1 Mypn Arx Rbp4 Cox6a2 Moxd1 Arhgap15 Pdzrn3 Kcnip2 Nxph2 Hs3st1 Dusp10 Crhbp Plch2 Adgra3 Ngf Pparg Ephx4 Cort Mybpc1 Creb5 Inpp5j Ahr Rbm20 Dlx1 Ets1 Gm1604b Dipk2a Adamtsl5 Sox2 Creb3l2 Htr2a Gfpt2 MC_25 MGE interneurons of isocortex, tyrosine hydroxylase expressing Sst Rbp4 Kcns3 Cntnap3 Creb3l2 Corin Pnoc Lypd6 Mybpc1 Ano1 Oprd1 Phlda1 Cort Rspo3 Gabrd Maf Myof Lama3 Gda Foxg1 Itga9 Sox6 Dlx1 Sp9 Filip1 Klhl14 Tent5a Arx Nos1 Kirrel Wnt5b Tll1 Sox4 Car2 Rassf3 Adra1b Lhx6 Clic4 Paqr5 Dab2 Masp1 Pparg Nr4a2 Eya4 Th Glis3 Matn2 Plekhh1 Eya1 Atp10b Pde5a MC_26 CGE interneurons Rgs12 Igf1 Npas1 Dlx1 Cxcl14 Vip Prox1 Pde5a Cpne2 Svil Egfr Crh Maf Npy1r Gpd1 Adra1b Asic4 Fbln2 Sema3c Htr3a Sox2 Grpr Nr2e1 Pdzrn3 Vav2 Htra1 Tnfaip8l3 Tac2 Gfpt2 Dlx2 Kit Npy2r Nfix Stk32a Wnt5a Wnt5b Arx Cracr2a Fat4 Pcdh18 Ptgds Pnoc Cpne7 Kcnq4 Mob3b Foxg1 Dlx6 Sall1 Adam12 Camk1g Cbln2 MC_27 CGE interneurons of isocortex and amygdala Cxcl14 Rgs12 Prox1 Kit Maf Igf1 Npas1 Tnfaip8l3 Rxfp1 Adra1b Egln3 Igsf11 Sema3c Htr3a Nfix Dlx1 Jam2 Id2 Htra1 Cpne2 Frem1 Npy1r Apbb1ip Npy Tac2 Megf10 Npy2r Pnoc Asic4 Vip Pcdh8 Adam12 Colgalt2 Itga8 Ltbp1 Vav2 Kcnq4 Pdzrn3 Sox2 Pde11a Col14a1 Gnb4 Tbc1d8b Cpne7 Hrh2 Glp2r Teddm3 Pde5a Ramp1 Foxg1 Unc5b MC_28 CGE interneurons of multiple telencephalic areas Npas1 Maf Pde5a Frem1 Igf1 Trp53i11 Rgs12 Pdzrn3 Adam12 Sema3c Yjefn3 Cxcl14 Necab2 Cntnap3 Megf10 Kcnq4 Npy1r Igsf11 Dlx1 Lix1 Glp2r Kctd12 Car2 Hrh2 Ror1 Golm1 Cpne2 Dlx5 Foxg1 Tle2 Acss1 Sox2 Eva1c Plod2 Dlx6 Wnt5a Krt73 Abcd2 Htra1 Arx Lancl3 Kcnk13 Id2 Mob3b Gnb4 Vav2 Gm43517 Clic4 Unc5b Htr3a Tac2 MC_29 CGE interneurons of hippocampus and insula Pde3a Rgs12 Igf1 Ndnf Ror2 Igsf11 Cntnap3 Stk32b Dlx1 Sox2 Cpne2 Maf Arx Npffr1 Nxpe2 Npas1 Htr2a Dlx5 Kcnq4 Pdzrn3 Htr3a Trmt9b Tle2 Dlx6 Vav2 Tnfaip8l3 Cxcl14 Ngf Wnt5a Foxg1 Ccsap Gda Neb Pnoc Kctd12 Golm1 Daam2 Npy Ccbe1 Rgs2 Sox1 Evc2 Vegfc Kif6 Dlx2 Esr1 Cdca7l Ddr2 Septin10 Gm43517 Oprd1 MC_30 CGE isocortical interneurons, primarily layer 1 Kit Igsf11 Egfr Crispld1 Npy Maf Pde11a Nfix Prox1 Pnoc Hapln1 Ndnf Eepd1 Igf1 Myo3b Car4 Mlip Id2 Itga9 Kcns3 Cplx3 Tnfaip8l3 Adra1b Sema3c Cpne7 Sox2 Mmp17 Jam2 Ngf Dlx1 Mei4 Jph1 Atp6ap1l Pdzrn3 Lmo7 Htr2a Kirrel Vcan Iqgap2 Efcab6 Cryab Rassf2 Kcnk13 Gabrd Kcnq4 Teddm2 Acss1 Tent5a Colec12 Apbb1ip Arhgef37 MC_31 Lower layer isocortical neurons Slc17a7 Dkk3 Vxn Rell1 Ankrd33b Trabd2b Nfix Satb2 Gng12 Neurod6 Crym Iqgap2 Rai14 Rprml Rasgrp1 Tbr1 Ier5 Rprm Zdhhc23 Gda Ephx4 Col12a1 Hs3st2 Kcnmb4 Jph1 Serinc2 Arhgap10 Egr1 Icam5 Mmp17 Fezf2 Rasal1 Neurod2 Myl4 Mlip Nxph3 Arhgap25 Ctxn1 Tmod1 Synpo Islr2 Glp2r Mast3 Ramp1 Fhl2 Ptk2b Igfbp4 Arc Muc15 Rxfp1 Ephb6 MC_32 Subicular neurons Sntb1 Nxph3 Grp Rai14 Kcnmb4 Slc17a7 St3gal1 Kremen1 Crym Prss12 Fezf2 Neurod6 Zdhhc23 Etv1 Skap1 Pamr1 Ror1 Cwh43 Islr2 Chrna5 Ctxn1 Pdzrn3 Cbln2 Nfix Nr4a2 Rasgrp1 Ephx4 Lcp1 Rasal1 Ly6g6e Gda Rprml Rell1 Slc9a2 Arhgap10 Mro Jph1 Spry2 Abca12 Trhr Kcnh3 Atp10a Clic5 Pdia5 Fjx1 Gng12 Mlip Neurod2 Arg2 Synpo Hes1 MC_33 Layer 6 isocortical neurons Crym Rai14 Slc17a7 Sntb1 Kcnmb4 Sulf1 Prss12 Prss35 Ankrd33b Hs3st2 Vxn Nfix Mei4 Cobll1 Rspo2 Rprm Syt10 Ptk2b Rprml Rasal1 Ccn3 Sema3d Hpcal4 Ccdc60 Gng12 Nr4a2 Fezf2 Neurod6 Jph1 Rasgrp1 Dpp4 Nxph3 Ctxn1 Ephx4 Gda Islr2 Etv1 Tbr1 Icam5 Krt12 Mmp17 Nek10 Nmbr Wdr95 Neurod2 St3gal1 Mlip Trhr Npr3 Cdkl4 Crip2 MC_34 Layer 6 isocortical neurons Satb2 Vxn Rai14 Slc17a7 Gng12 Ccn2 Kcnmb4 Sulf1 Nfix Nxph3 Prss12 Hs3st2 Rasgrp1 Gda Tmod1 Glp2r Jph1 Cplx3 Scube1 Neurod6 Clic5 Svil Ptk2b Tbr1 Atp10a Hpcal4 Fhl2 Rprml Fam163b Nr4a2 Islr2 Neurod2 Muc15 Rspo2 Arhgap25 Atp8b1 Rell1 Lpar1 Tiam2 Jcad Rasal1 Ankrd33b Bmpr1b Ctxn1 Dkk3 Drd1 Zdhhc23 Synpo Rxfp1 Ephx4 Crip2 MC_35 Entorhinal and endopiriform neurons Nr4a2 Vxn Rai14 Cobll1 Slc17a7 Rasgrp1 Kcnmb4 Satb2 Rxfp1 Sulf1 Neurod6 Nfix Gda Crym Ccn3 Rprml Ptk2b Nxph3 Ccn2 Hpcal4 Nmbr Atp8b1 Htr2a Sema3c Rasal1 Mlip Prss12 Gng12 Hrh1 Atp10a St3gal1 Atp6ap1l Ctxn1 Rgs12 Icam5 Synpo Kcng1 Crip2 Rspo2 Tbr1 Ankrd33b Hs3st2 Syt10 Glp2r Cnih3 Zdhhc23 Ephx4 Efcab6 Jph1 Col8a1 Npr3 MC_36 Cortical neurons Slc17a7 C1ql3 Satb2 Ankrd33b Gda Nfix Itpka Ptk2b Mlip Etv1 Synpo Slc26a4 Icam5 Rprml Lmo7 Cnih3 Npr3 Tiam2 Smad3 Rspo3 Mast3 Ccn3 Arhgap10 Zdhhc23 Ephx4 Crym Adrb1 Efcab6 Kcng1 Jph1 Rasgrp1 Inka2 Ctxn1 Vxn Slc24a4 Krt12 Pdzrn3 Gm19410 Cpne7 Ccsap Kcnh3 Rtn4r Ramp1 Dcn Foxg1 Neurod2 Col23a1 Rbm24 Glp2r Zbtb18 Rasal1 MC_37 Upper layer isocortical neurons Etv1 C1ql3 Slc17a7 Satb2 Stum Ankrd33b Dcn Rspo2 Rspo3 Kcng1 Hs3st2 Cnih3 Gda Smad3 Hes1 Scube1 Icam5 Tiam2 Col23a1 Synpo Fjx1 Cpne7 Crym Neurod6 Islr2 Itpka Rprml Zdhhc23 Ccn3 Rasgrp1 Rxfp1 Nfix Krt12 Vxn Efcab6 Ptk2b Klf10 Prkg2 Susd5 Ctxn1 Kcnmb4 Mast3 Hrh3 Rtn4r Jun Slc26a4 Adamts18 Il34 Itga8 Rasal1 Inka2 MC_38 Claustrum neurons C1ql3 Col23a1 Satb2 Ror1 Nr4a2 Sulf1 Chst9 Slc17a7 Neurod6 Cnih3 Slc24a4 Gda Ptk2b Atp8b1 Icam5 Smad3 Tesc Rspo2 Slc26a4 Nek10 Rasgrp1 Rasl10a Npsr1 Gnb4 Itpka Vxn Fhl2 Dnah14 Pparg Vegfd Prss12 Spag16 Nfix Rspo3 Tiam2 Schip1 Ctxn1 Ccn3 Synpo Gpc4 Etv1 Cpne7 Bmp3 Ankrd33b Itprid1 Tacr1 Npr3 Glp2r Col6a1 Abca8a Rasal1 MC_39 Upper layer isocortical neurons Satb2 Pdzrn3 Slc17a7 Ankrd33b Mlip Mast3 Krt12 Inka2 Nfix Pparg Fhl2 Glp2r Itpka Lhfp Ptk2b Rtn4r Xirp2 Dkk3 Synpo Rprml Boc Slc30a3 Arhgap10 Scube1 Rasgrp1 Neurod6 Jph1 Ovol2 Exph5 Ramp1 Egr1 Vxn Icam5 Car4 Pamr1 Gda Zbtb18 Smad3 Ephx4 Neurod2 Rgs4 Chrm1 Mei1 Kcnh3 Herc6 Arhgap15 Ccsap C1ql3 Gpr26 Dusp14 Efcab6 MC_40 Claustrum neurons Nr4a2 Gnb4 Satb2 Rgs12 Cntnap3 Slc17a7 Rxfp1 Ankrd33b Oprk1 Fap Fhl2 Kcnv1 Slc24a4 Col24a1 Pdia5 Jph1 Arhgap15 Rtn4r Rasgrp1 Id2 Smoc2 Smad3 Dnah14 Tbr1 Mlip Lxn Lepr C1ql3 Inka2 Synpo Cwh43 Klf10 Cracr2a Htr2a Kremen1 Lypd6 Hs3st2 Car2 Sstr2 Trpc6 Kitl Elovl2 Medag Vxn Ptk2b Itga8 Neurod6 Islr2 Kit Itpkb Glp2r MC_41 Layer 6 cortical neurons Satb2 Ankrd33b Slc17a7 Hs3st2 Fhl2 C1ql3 Vxn Arhgap15 Dkk3 Rasgrp1 Jph1 Mlip Inka2 Pparg Smad3 Arhgap10 Mast3 Slc24a4 Synpo Neurod6 Ptk2b Glp2r Kcnmb4 Itpka Icam5 Itga8 Rprml Mmp17 Rxfp1 Rasl10a Rtn4r Lyzl4 Nfix Rspo2 Klf10 Tyro3 Schip1 Gda Tiam2 Vipr1 Lmo7 Tesc Herc6 Ephx4 Chrm1 Mei1 Bmpr1b Iqgap2 Kcnv1 Foxg1 Scube1 MC_42 Entorhinal, insular, and piriform excitatory neurons Slc17a7 Pdzrn3 Mlip Rad51ap2 Lmo7 Krt12 Arhgap10 Itga8 Igsf11 Itpka Gda Foxo1 Icam5 Crym Ccdc3 Boc Rspo3 Lhx2 Cnih3 Ccn3 Efcab6 Igfn1 Synpo Tiam2 Prkg2 Ptk2b Jun Ppfibp1 Ramp1 Stum Akap5 Zfp46 Lacc1 Rasal1 Ctxn1 Ptpn14 Rasl10a Ccsap Chst9 Plxnd1 Gcnt2 Hs3st1 Mast3 Rprml Itga4 Ankrd33b Zdhhc23 Schip1 Slc26a4 Satb2 Chrm1 MC_43 Upper layer excitatory neurons (primarily entorhinal and subicular) Slc17a7 Ankrd33b Itpka Mlip Satb2 Smad3 Rspo2 Zbtb18 Igsf11 Pdzrn3 Nfix Neurod6 C1ql3 Icam5 Itga8 Akap5 Rtn4r Ramp1 Synpo Ctxn1 Dkk3 Jph1 Cdkl4 Col23a1 Cemip Ephx4 Zdhhc23 Klf5 Inka2 Rprml Efcab6 Wfs1 Slc24a4 Fhl2 Foxg1 Lmo7 Kitl Lhx2 Crym Ccsap Tiam2 Pparg Slc26a4 Palmd Gm19410 Gda Ier5 Rasal1 Chrm1 Npy1r Prag1 MC_44 Cortical and piriform upper layer neurons Satb2 Pdzrn3 Dkk3 Cxcl14 Mlip Neurod6 Nfix Igfbp6 Id2 Slc17a7 Ankrd33b Ephx4 Rtn4r Pou3f1 Ier5 Shisa8 Itga8 Inka2 Zbtb18 Smad3 Tbr1 Neurod2 Rassf3 Pparg Adcy10 Foxg1 Klf5 Cd34 Trabd2b Kcnj4 Lmo7 Kcns1 Rprml Pdlim1 Ddit4l Evc2 Mei1 Matn4 Ramp1 Synpo Itpka Sox8 Ccsap Fhl2 Ovol2 Lamc2 Kcnh3 Rhou Mmp17 Igdcc3 Gpr83 MC_45 Subicular neurons Etv1 Ankrd33b Pou3f1 Nr4a2 Stac Dkk3 Rasgrp1 Rspo2 Trmt9b Iqgap2 Rxfp1 Gm2115 Rprml Bcl6 Gm19410 Slc17a7 Crym Nts Gpr161 Lmo7 C1ql3 Fezf2 Lxn Bhlhe40 Fn1 Gda Ptk2b Nfix Rasal1 Vxn Zdhhc23 Ror1 Ier5 Npr3 Prss12 Cdkl4 Foxg1 Zbtb18 Sox8 Icam5 Adamts2 Rasd1 Itpka Aph1b Ramp1 Jph1 Robo3 Shoc1 Mylip Lyzl4 Pde11a MC_46 Layer 5 cortical neurons Crym C1ql3 Pde11a Cpne7 Gda Ptk2b Slc24a4 Nfix Fezf2 Ankrd33b Slc17a7 Rprml Itpka Ccn3 Iqgap2 Npr3 Etv1 Icam5 Pou3f1 Fbn2 Rspo3 Rasgrp1 Dcn Cnih3 Smad3 Rasal1 Cdkl4 Vxn Rspo2 Nr4a2 Ror1 Stum Id2 Itga8 Jph1 Gpr161 Junb Gm2115 Sox8 Ramp1 Plk2 Shoc1 Zdhhc23 Synpo Btg3 Kcng1 Zfp831 Ctxn1 Adamts2 Mlip Foxg1 MC_47 Cortical upper layer excitatory neurons Iqgap2 Vxn Dkk3 Itpka Rasgrp1 Icam5 Ptk2b Slc17a7 Ankrd33b Neurod6 Pkp2 Crym Jph1 Mast3 Rprml Gng12 Zdhhc23 Itga8 Satb2 Ephx4 Nfix Lmo7 Stum Gm2115 Matn2 Gda Ramp1 Ror1 Mlip Rasal1 Zbtb18 Ctxn1 Klf10 Fhl2 Neurod2 Pou3f1 Chrm1 Inf2 Acss1 Glp2r Mmp17 Hs3st2 Synpo Rai14 Foxg1 Cd34 Npr3 Junb Kcnip2 Egr1 Rasl11b MC_48 Hippocampal CA1 neurons Iqgap2 Crym Itga8 Slc17a7 Cpne7 Icam5 Pkp2 Mast3 Stum Ptk2b Itpka Etv1 Ankrd33b C1ql3 Rprml Nfix Jph1 Npr3 Gda Fibcd1 Neurod6 Rasgrp1 Gm2115 Kit Rspo3 Vxn Slc26a4 Dkk3 Zdhhc23 Lmo7 Matn2 Doc2b Mmd2 Kcnip2 Grp Slc24a4 Ramp1 Pde11a Cnih3 Ror1 Chrd Rasal1 Foxg1 Dcn Gpr161 Slc9a2 Synpo Sertm1 Ctxn1 Tesc Glp2r MC_49 Layer 5 cortical neurons Ankrd33b Col23a1 Slc17a7 Nfix Satb2 Pou3f1 Nr4a2 Dkk3 Ptk2b Rprml Kcng3 Mast3 Npsr1 Slc24a4 Etv1 Gda Rxfp1 Angpt1 Kcng1 Gm19410 Id2 Nts Fjx1 Rasgrp1 Iqgap2 Bcl6 Ctxn1 Trmt9b Mlip Cpne7 Tiam2 Foxg1 Icam5 Vxn Adamts2 Efcab6 Crym Itpka Zbtb18 Ramp1 Neurod2 Slc26a4 Synpo Jph1 Ephx4 Rspo2 Mmp17 Prex1 Fezf2 Mt1 Smad3 MC_50 Hippocampal CA3 neurons Ptk2b Slc17a7 Crym Ccbe1 Mast3 Nfix Il16 Cpne7 Icam5 Golm1 Pkp2 Kcnip2 Neurod6 Galnt3 Arhgef26 Prdm8 Zdhhc23 Jph1 Itga8 Rprml Tspan18 Smoc2 Tesc Neurod2 Pcdh20 Iqgap2 Mmp17 Arhgap15 Kit Mmd2 Cpne2 Stum Lmo7 Palmd Zbtb18 Kcng2 Foxg1 Schip1 Gda Synpo Slc26a4 Rasgrp1 Iqcj Olfml2b Mas1 Car4 Car2 Ak4 Chrm1 Kcnmb4 Dkk3 MC_51 Amygdalar neurons Slc17a7 Car12 Ptk2b Crym Glp2r Gda Cnih3 Trhr Icam5 Nek10 Col23a1 Rreb1 Chst9 Cpne7 C1ql3 Smad3 Slc24a4 Rasal1 Inhba Nfix Lmo7 Kcnip2 Palmd Gm12216 Pifo Npr3 Mmd2 Itpka Ramp1 Iqgap2 Stum Itga8 Zfp831 Pde11a Kcng2 Esr1 Synpo Otof Dclk3 Foxo1 Mast3 Ccnjl Wdr66 Adamts9 Tiam2 Kcnk13 Fat4 Ptpn14 Drc1 Cfap44 Zfp46 MC_52 Amygdalar neurons Slc17a7 C1ql3 Gda Ptk2b Col23a1 Smad3 Lmo7 Glp2r Mlip Itpka Krt12 Gm12216 Itga8 Tiam2 Icam5 Crym Arhgap10 Itga4 Igsf11 Moxd1 Ptpn14 Fat4 Chst9 Rasal1 Cnih3 Slc30a3 Ano2 Synpo Car4 Smoc1 Nek10 Ankrd33b Lhx2 Pparg Jph1 Prex1 Zfp46 Kcnip2 Nfix Kcnh3 Ramp1 Pdzrn3 Iqgap2 Otof Trabd2b Trhr Bfsp2 Plxnd1 Prkg2 Atp6ap1l Filip1 MC_53 Piriform and amygdalar neurons Angpt1 Esr1 Gda Nek10 Ptk2b Filip1 Tll1 Col23a1 Mlip Slc17a7 Scn5a Glp2r Rreb1 Krt12 Igsf11 Lmo7 Adamts18 Pdzrn3 Iqgap2 Rasal1 Crym Itga4 Inhba Prdm8 Stum C1ql3 Itga8 Trpc6 4930447A16Rik Slc24a4 E130114P18Rik Ntf3 Kcnip2 Plxnd1 Ptpn14 Glis3 Fat4 Zfp831 Ccdc3 Icam5 Lama2 Dclk3 Myo5b Mast3 Ppfibp1 Sh3bp4 Krt20 Cfap44 Pifo Tes Hrh1 MC_55 Olfactory area excitatory neurons Abi3bp Slc17a7 Bmpr1b Lmo7 Ptk2b Pdzrn3 Igsf11 Arhgap10 E130114P18Rik Mlip Lhfp Gda Fhl2 Tiam2 C1ql3 Ankrd33b Emid1 Tfap2d Fjx1 Jph1 Icam5 Rprml Mast3 Ppfibp1 Gpr26 Kcnj4 Rad51ap2 Zfp46 Vxn Itga8 Arhgap15 Itpka Efcab6 Hs3st1 Inka2 Chrm1 Prex1 Cnih3 Synpo Ccn3 Ctxn1 Neurod2 Ccsap Tyro3 Inhba Kitl Arhgap29 Stum Rasl10a Klhl14 Tamalin MC_56 Cerebellar golgi neurons Pax2 Tfap2b Lama1 Scrg1 Zfp385c Tll1 Col23a1 Slc6a5 Litaf Pdgfd Exph5 Abtb2 Etnk2 Pde5a Inpp5j Adgre5 Mpp3 Shroom3 Myzap Vcan Dusp10 Scube1 Kirrel Cnpy1 Tns3 Ddo Bcl6 Kit Etv4 Itpr2 Tfap2a Rasgrp1 Trim67 Nxph4 Gdnf Wnt5b Ntn1 Zic1 Nppc Cdh23 Spsb4 Gldc Megf10 Serpinf1 Pparg Grm2 Pde2a Zic2 Prex1 Ldlrap1 Vangl1 MC_57 Inhibitory olfactory neurons Frmd7 Lix1 Cpa6 Lgr6 Igsf11 Dlx1 Sp9 Slco5a1 Shisa8 Adamts19 Cacng5 Rasl11b Plekha2 Trdn Kcnj4 Tiam2 Gda Sp8 Syt10 Eepd1 Vipr2 Sox4 Arx Itgav Fbn2 Kank3 Litaf Cntnap3 Dlx2 Tll1 Arhgap31 Kcnk13 Pparg Fam102b Notch2 Ccsap Npffr2 Ptk2b Clic4 Inpp5j Dnah11 Pax6 Sall1 Gm13889 Dlx5 Stard8 Slc1a3 Itgb8 Icam5 Cdkn1a Tmod1 MC_58 Inhibitory olfactory neurons Etv1 Dlx1 Sox4 Pde5a Sp8 Sp9 Frmd7 Pax6 Tiam2 Slc1a3 Igfbpl1 Sall3 Smoc1 Dlx2 Cdca7 Tspan15 Cacng5 Cdca7l Arx Sox2 Clic4 Trh Shisa8 Dlx5 Abcb5 Mob3b Egf Apold1 Dlx6 Nppa Th Grin2c Sik1 Cdkn1b Hydin Aox3 Zic1 Lgr6 A930009A15Rik Sall1 Scn5a Cecr2 Igsf11 Tex47 Kcnip2 Scgn Egfr Cfap61 Marcksl1 Rapgef3 Nfix MC_59 Immature olfactory bulb neurons Cd9 Prox1 Slc1a3 Igfbpl1 Nfix Plpp3 Mmd2 Lama2 Shroom3 Thrsp Sox6 Adgrv1 Glis3 Cecr2 Dbi Mfge8 Cd63 Hepacam Atp1a2 Sox4 Gli3 E130114P18Rik Mt1 Gsap Sema3c Notch2 Mertk Gldc Hopx Prdm16 Dbx2 Tnc Egfr Bhlhe22 Nhsl1 Ntsr2 Arhgef26 Emx2 Rftn2 Ezr Eya1 Adamts18 Tspan18 Spata13 Ptgds Ttr Zfp36l1 Zbtb18 Cdk6 Mlc1 Lhx2 MC_60 Brainstem neurons Ebf2 Lmx1b Tacr3 Lmx1a Tspan18 Dgkk Zim1 Dlk1 Dach2 Dkk3 Plagl1 Hs3st2 Adam33 T2 Klhl4 Gabre Npy1r BC035947 Rassf4 Npy5r Svil Cbln1 Kremen2 Itpr2 Plk5 Ston2 Gabrq Ecel1 Otof Ccnd3 Adra1b Nwd1 Kazald1 F13a1 Ddc Creb3l2 Prlr Col9a2 Gm45194 Tmem26 Sertad4 Rps6ka6 Cbln4 Peg10 Ptges Trp53i11 Dctd Usp26 Spink13 Terb1 Adamts2 MC_62 Astrocytes Slc1a3 Plpp3 Atp1a2 Mt1 Lama2 Htra1 Hepacam Mertk F3 Gja1 Sox6 Nwd1 Gpr37l1 Slc39a12 Acsbg1 Phkg1 Aqp4 Ntsr2 Kank1 Nhsl1 Ednrb S1pr1 Bmpr1b Plce1 Mmd2 Gli3 Cdh19 Igsf11 Mt2 Eva1a Sdc4 Hif3a Rfx4 Glis3 Daam2 Slc6a11 Plekhg1 Arhgef26 Dbi Egfr Fam20a Irak2 Gli2 Tcf7l2 Slc7a10 Acot11 Fgfr3 Etnppl Megf10 Cd63 Cldn10 MC_63 Tanycytes Col23a1 Slc1a3 Sox6 Glis3 Adgrv1 Tshr Spag16 Cdc14a Odad1 Slc39a12 Mt1 Hepacam Spef2 Enkur Plpp3 Mertk Ddo Ptgds Palld Ptpn13 S100a6 Lrriq1 Sparc Dnah11 Cd9 Ccdc170 Mlc1 Gm9925 Cfap44 Tcf7l2 Atp1a2 Cd63 Lrrc9 Acss3 Col4a5 Dbi Pdlim5 Kif27 Rax Efhb Spata13 Notch2 Dock5 Plce1 Pdzph1 Cfap43 Shroom3 Ccdc146 Col5a2 Gab1 Ccnd3 MC_64 Ependymal cells Tmem212 Dnah12 Cfap299 Dbi Ak7 Spag16 Spef2 Hydin Dnah6 Pltp Ccdc146 Gm973 Rarres2 Mt1 Cfap44 Ccdc153 Ccdc162 Ccdc170 Dnah11 Ak9 Rgs22 Lrriq1 Enkur Tm4sf1 Cfap43 Rsph1 Odad2 Odad1 Vim Adamts20 T2 Spag17 Rassf9 Lrrc36 Cd9 Ttc21a Dynlrb2 Glis3 Iqcg Wdr49 Cfap65 Dnai3 Zbbx Wdr66 Kif6 Cfap61 Plac9a Spata17 Aebp1 Vwa3a Cdhr3 MC_65 Oligodendrocyte progenitors Vcan Sox6 Arhgap31 Gjc3 Pdgfra Sox10 Bcas1 Olig1 Cd9 Sema3d Neu4 Itpr2 Scrg1 Ppfibp1 Kank1 Abtb2 Cspg4 Tns3 Itga9 Olig2 Stk32a Wipf1 Afap1l2 C1ql1 Rgcc Emid1 Gpr37l1 Vxn Matn4 Pllp Zcchc24 Sox8 Mertk Prkcq Plpp3 Susd5 Atp1a2 Dbi Calcrl Adam12 Tmem100 Hepacam Gpr17 Prex1 Kcnh8 Sh3bp4 Cobll1 Shc4 Svil Itgav Etv4 MC_66 Oligodendrcytes Plp1 Prr5l Mobp St18 Mog Trf Mag Mal Apod Aspa Gjc3 Cldn11 Car2 Gatm Sec14l5 Mast3 Fa2h Daam2 Ermn Bcas1 Ugt8a Cnp D7Ertd443e Cryab Plekhh1 Cdh19 Pstpip2 Hapln2 Ttyh2 Litaf Anln Ppp1r14a Cmtm5 Arhgef10 Csrp1 Hepacam Gab1 Pde8a Plekhg1 Igsf11 Tnfaip6 Plaat3 Pllp Sox10 Tmem63a Gsn Selenop Phldb1 Ndrg1 Serpinb1a Ptgds MC_67 Macrophages Inpp5d Mrc1 Arhgap15 Ms4a6c Ccnd3 Rbm47 Ctss Dock8 Fyb C1qb Lyz2 Ly86 Ptprc Runx1 C1qa C1qc Dab2 Csf1r Nrros P2ry6 Fli1 Arhgap45 Rreb1 F13a1 Cfh Ctsc Ms4a6b Adap2 Unc93b1 Stab1 Mertk Fcer1g Ptgds Ctsh Apobec1 Myo1f Tbxas1 Cd74 Abca9 Maf Rcsd1 Wipf1 Tnfaip8 Ms4a6d Slco2b1 Il6ra Entpd1 Aoah H2-Eb1 Cyth4 Ikzf1 MC_68 Microglia Inpp5d Tgfbr1 Ctss Mertk Csf1r C1qb C1qa Cx3cr1 Selplg C1qc Ccnd3 Slco2b1 Dock8 Ikzf1 Ly86 Arhgap45 Itgb5 Apbb1ip Fyb Runx1 Adap2 Entpd1 Siglech Unc93b1 Vsir Lair1 Rreb1 Fli1 Gpr34 Agmo Trem2 Abca9 Fcrls Myo1f Cyth4 Fgd2 Rbm47 Laptm5 Cfh P2ry6 Rasgrp3 Il6ra Csf3r Sparc Cdh23 Tmem119 Ptprc Tbxas1 0610040J01Rik Havcr2 Cd37 MC_69 Endothelial cells Flt1 Adgrl4 Klf2 Ptprb Mecom Arhgap31 Slc2a1 Clic4 Id1 Epas1 Pltp Heg1 Egfl7 Slco1a4 Ly6a Paqr5 Cldn5 S1pr1 Abcb1a Pecam1 Abcg2 Eng Ramp2 Fli1 Ly6c1 Nfkbia Igfbp7 Rbpms Adgrf5 Pdgfd Nostrin Mal Id3 Pdlim5 Lims2 Klf4 Anxa3 Kank3 Tns1 Esam H2-K1 Atp10a Itm2a Lef1 Ahnak Cyyr1 Acvrl1 Prkch Vwf Tm4sf1 Vim MC_70 Fibroblasts Cped1 Ptgds Apod Atp1a2 Eya2 Bnc2 Lama2 Foxd1 Bmp6 Colec12 Notch2 Uaca Slc6a20a Ranbp3l Arhgap29 Eya1 Cfh Aebp1 Adam12 Slc6a13 Prdm6 Pld1 Slc13a4 Dock5 Gjb6 Phldb2 Lrrk1 Rbp1 Sned1 Slc22a8 Col1a2 Egfr Ptpn13 Nupr1 Zic1 Slc1a3 Dcn Ogn Slc13a3 Cp Zic4 Ror1 Nbl1 Ccnd3 Lpar1 Pdzrn3 Fbln1 Eva1c Slc7a11 Plpp3 Bmp7 MC_71 Endothelial cells Igfbp7 Pdgfrb Rbpms Vtn Adap2 Rgs5 Atp1a2 Plac9a Slc38a11 Atp13a5 Plce1 Myl9 Abcc9 Itga1 Phldb2 Il34 Colec12 Tns1 Slc6a20a Dock6 Kcnj8 Ndufa4l2 Cobll1 Epas1 Lama2 Gjc1 Sparc Cp Ano1 Mfge8 Mylk Mgp Cped1 Pld1 Egflam Slc16a12 Cspg4 Higd1b Art3 Gcnt2 Plekhg3 Pde3a Irag1 Ednra Limd1 Sntb1 Nid1 Arhgap29 Ifitm1 Map3k20 Tm4sf1 MC_72 Triangular septal nucleus neurons Ebf2 Kitl Ctxn3 Samd3 Sln Postn Adgrd1 Pgm5 Corin Lbhd2 Atp6ap1l Uncx Heg1 Hopx Ccdc192 Prkg2 Qrfprl Tbr1 Tex15 Eomes Palld Lhx1 Adamts18 Rasgrp1 Cacng5 Rasa4 Fzd7 Inka2 Sh3bp4 Zfp503 Dmrtb1 Mboat1 Ttr Iqcj Trp53i11 Gm973 Syndig1l Masp1 Zfp114 Niban1 Kcnip2 Kcng2 Sfrp2 Glp1r Fam163a St6galnac4 Arl4d Zic1 Col9a1 Islr2 Lratd1 MC_74 Midbrain neurons Adcyap1 Tcf7l2 Stac Frem1 Pax6 Zim1 Cfap77 Stk32b Lhx1 Rcn1 Doc2b Tacr1 Gm45194 Tpbg Crhbp AW551984 Zfp831 Cartpt Rgma Vip Pcbd1 Scn7a Pappa2 Ddo Igsf11 Gpx3 Stk32a Dkk3 Itga6 Ngb Pde11a F2rl2 Sall1 Pmfbp1 4933424G06Rik Barhl1 Smoc1 Cbln1 Rph3al Ston2 Trp53i11 Gzmk Nudt10 Etnk2 Vat1 Rspo1 Rsph9 Tmc4 Drc1 Gabrq Rps6ka6 MC_75 Hypothalamic neurons, primarily superchiasmatic nucleus Avp Syt10 Kcnh8 Dlk1 Cdc14a Vipr2 Ptgds Stk32a Six3 Prr5l Fam189a2 Gm973 Lhx1 Pros1 Tmem219 Igfbp5 Stk33 Rgs16 Six6 Hccs Ndrg1 Prex1 Tgfa Magel2 Gpc3 Vip Zic1 Rasa4 Zim1 Gm45194 Csta2 Sox2 Tekt1 Slc6a11 Sh2d4b Rasd1 D7Ertd443e Fbxl21 Oxt Cecr2 AW551984 C1ql3 Prokr2 Tmem176b Nms Cobll1 Styk1 Zic4 Per2 Cry1 Dbi MC_76 Brainstem neurons Slc6a5 Prdm16 Pax2 Onecut1 Adra1b Cgnl1 Nr4a2 Kank4 Gm2115 Trim43c Lhx1 Ugt8a Lcp1 Rab37 Spp1 Kcnab3 Impa2 Pvalb Tigar Cubn Catspere1 Eya2 Tfap2a Irx2 Rgma Cd59a Plekhd1 Plcd4 Hsd17b2 Hapln1 Met Rassf4 Dhrs11 Ret Tfap2b Mctp2 Tpcn2 Htr1d Insyn2a Pdgfd Ccdc150 Lancl3 Vav2 Slc4a2 Onecut3 Tfeb P2rx6 Ackr4 Kcns3 Efemp1 H2-T22 MC_77 Hypothalamic neurons Lhx6 Npas1 Dach2 Lypd6 Angpt1 Pmch St18 Dlk1 T2 Hmcn1 Sema3c AW551984 Prlr Pde3a Dlx1 Pnoc Drd2 Mei4 Tafa4 Nox1 Sp9 Mme Slc7a3 Eogt Hcrt Stk32b Scn5a Nkx2-2 Tent5d Tmie Ecel1 Nkx2-1 Inhba Rassf4 Trpc6 Map3k20 Kcnh8 Slc12a1 Tmem176b Zim1 Otof Gpx3 Pkd2l2 Has1 Htr1b Tnip2 Arhgap36 Arx BC035947 Spag6l Angptl3 MC_78 Hypothalamic neurons Lef1 Sulf1 Isl1 Cracr2a Gpc4 Ddc Nek10 Gck Spag16 Zim1 Vwa5b1 Sox14 Dlk1 Myo5b Syt10 Meox2 Skap1 Rxrg Unc5b Chodl Ngb Kl AW551984 Gm973 Fndc1 Cfap44 Bcl6 Gda Wdr66 Spag6l Stk32a Cartpt Efhb Gzmk Gnb4 Lrrc9 Stac Drc1 Fam189a2 Hrh3 Pmch St18 Bsx Itm2a Tmem176b Tac1 Zbbx Magel2 Cfap97d2 Kif6 Usp51 MC_79 Hypothalamic and pallidal neurons Lhx8 Pde11a Dlk1 Isl1 Dgkk Stac St8sia2 Prlr Ntn1 Cdh23 Gpc3 Gli3 Stk32a Skap1 Cyp4f17 Adra1b Kcnh8 Zim1 Vwa5b1 Scn5a Pgpep1l Dsc2 Fgd5 Esr1 Kcnk13 Cpne2 Foxg1 Pzp Cartpt AW551984 Ccdc60 Gldn Gpc4 Pnoc Crh Gpr139 Nkx2-1 Ecel1 As3mt Irs4 Ddc Oprk1 Magel2 Rasa4 Arx Gm43517 Smco4 Six3 Tert Parvb Stk33 MC_80 Anterior hypothalamic neurons Pax6 Lhx1 Pnoc Sst Ecel1 Arx Dlk1 Cdh23 T2 Gpc3 Six3 Mme Map3k20 Isl1 Otof Dlx1 St8sia2 Islr2 Gpr139 AW551984 Adgrg2 Sp9 Dgkk Onecut1 Slc6a11 Pdgfd Pmfbp1 Drd2 Pde11a Slc7a3 Npas1 Dlx6 Zim1 Tent5d BC035947 Wdr95 Piezo2 Rcn1 Ppm1m Rassf4 Tmie Stk32a Pcbd1 Nppc Esr1 Lrrc75b Efcc1 Dlx5 Klhl14 Onecut3 Nwd1 MC_81 Hypothalamic and pallidal neurons, primarily MPOA and BNST Otof Prlr Tac2 Satb2 Esr1 Ecel1 Gpr149 Isl1 Scn5a Kcnk13 Gda Zim1 Dlx1 Nek10 Stk32b AW551984 Drc1 Ppm1m Pnoc Trpc6 Cpne2 Hrh1 Magel2 Pifo Zic1 Gpr101 Sox2 Stk32a Kcnh8 4933424G06Rik Adam12 Tert Stk33 Megf6 Spef2 Zan Tent5d Rasal1 Fbn2 Gdpd2 Ap1s3 Ngb Dnah1 Vwa5b1 Gpr165 Pzp Esyt3 Gldn Kir3dl2 Spata13 Amz1 MC_82 Anterior hypothalamic neurons Pmch Igf1 Dach2 Tent5a Rcn1 Plce1 Pdia5 Dysf Otx1 Nkx2-1 Pdlim5 Tacr3 Adgrv1 Sytl5 Ccbe1 Cartpt Kcng3 Abtb2 Dab2 Klhl4 Cftr Palmd Cemip Parpbp Adgrf5 Chodl Fkbp14 Cd59a Zic1 Magt1 Sox2 Sgms2 Htr1d Mup6 Slc9b2 Crb1 Gnb4 Lef1 Hcrt Creb3l2 Gck Mei4 Gk5 Tes Rspo3 Prlr Glis1 Ppfibp1 Gng12 Stk32b Myo3b MC_83 Hypothalamic and pallidal neurons Ntn1 Bnc2 Isl1 Vcan Gpr149 Six3 Scn5a Cntnap3 Prlr Ecel1 Kcnh8 Stac AW551984 Dlk1 Dpp4 Pnoc Dgkk Zim1 Dlx6 Peg10 Rcn1 Cpne2 Galr1 Pgpep1l Mme Foxp4 Dlx5 Sema3c Npffr1 Drc1 Ngb Asb4 Tmie Rgs2 Arhgap36 Rsph9 Ddo Arx Oxt Foxg1 Rgma Fhad1 Tacr1 Dlx1 Zbbx Lhfpl5 Adamts18 Nts Vwa5b1 Gm43517 Slc6a11 MC_84 Reticular thalamic neurons Six3 Isl1 Pvalb Eepd1 Lancl3 Sst Creb5 Gm2115 Ramp3 Hmcn1 Itga6 Shisal1 Plekhd1 Tiam2 Ecel1 Pde8a Tgfbr2 Gem Pappa Actn2 Gypa Fgd5 Fam163a Prag1 Trim43c Inpp5j Mylip Grin2c Slc22a3 Dlx1 Ret Tent5d Adra1b Cntnap3 Gsap Pparg Npy Gnb3 Jam2 Polq Myo1e Itga9 Pmp22 Dysf Serpinf1 Hrh3 Fam102b Frem3 Piezo2 Tmem53 Gldn MC_85 Hypothalamic neurons, primarily zona incerta Pax6 Cdh23 Isl1 Cemip Pnoc Six3 Lypd6 Klhl14 Gpr139 Lhx1 Arx Npffr1 Pde11a Ppfibp1 Kcns3 Otof Gm2115 Cdh24 Fat4 Plxdc1 Qrfpr Stk32a Fndc1 Ltbp1 Lmo2 Coch Vsir Sp9 Mctp2 Cntnap3 Scn5a Ntsr1 Prlr Ttn Sema3c Map3k20 Islr2 Tent5d Itga9 Rassf4 Zim1 Cartpt Phldb2 Fhdc1 Lrrc38 Slc30a3 Trim43c Dlx1 Fam163a Ret Chrna4 MC_86 Midbrain neurons Tcf7l2 Gata3 Tal1 Lhx1 Rpp25 Nkx2-2 AW551984 Asic4 Kirrel Cpa6 Uncx Pnoc Lhx5 Tmie Cbfa2t3 Amn Gata2 Kcnh8 Hcrtr1 Six3 Stac Shox2 Adssl1 Dcaf12l1 Pcbd1 Hexim2 Lrrc75b Sox14 Cbln4 Irx2 Rnd1 Zim1 Selenoh Gng13 Nox4 BC035947 Tent5a Ier3 Tnfsf13b Pcdh20 Gsto1 Smim17 Col8a1 Vat1 Hcn3 Rbm19 Rab13 Kazald1 Sdsl Mea1 Pglyrp1 MC_87 Bed nucleus neurons Pde11a Stk32a Scn5a Gda Isl1 Tac2 Prlr Pgm5 Gpc3 Nt5e Dsc2 Rai14 Cpne2 Kcnh8 Tac1 Impg1 Ecel1 Crh Rasal1 Zim1 Gal Ccdc187 AW551984 Drd2 Adam12 Iqcj Pifo Stac Gng7 Pth2r Hs3st2 Kcnip2 Avp Iqschfp Esr2 Itgb8 Asb4 Gabrq Gm43517 Sema3c Pkp2 Fhad1 Foxg1 Rbm24 Gnb4 Kcnk13 Atp10a Cntnap3 Actn2 Ddc Ptch2 MC_89 Tectal neurons Otx2 Fibcd1 Lmo1 Irx2 Lef1 Fat4 Tal1 Hs3st3b1 Dmbx1 Gata3 Asic4 Irx1 Pax7 Maf Pnoc Lrp4 Stac Sox2 Npffr1 Sox14 Kirrel Pvalb Pcdh20 Rpp25 Kcnh8 Lhx1 Wnt3 Cd63 Cxcl14 Uncx Lhx5 Chrna3 Mt1 Pcdh18 Rasa4 Fam163a Plk5 Drd2 Dbi Ptgds Glp1r Cyp4f17 Kazald1 Itm2a Tnnt1 Sparc Syndig1l Kcnab3 Car2 Rgs3 Tacr3 MC_90 Midbrain neurons Tcf7l2 Gata3 Asic4 Ror1 Htr2a Kcng1 Cacna1h Tal1 Maf Fam163a Otx1 Prlr Ttn Irx2 Igf1 Npnt Sox14 Lhx1 Myo5b St3gal1 Pvalb Necab2 Cbln2 Nrtn Kcnj2 Stac Nr4a2 Lhx5 Irx1 Kcnab3 Stk32b Kirrel Adamts18 Cbfa2t3 Ddit3 Wnk4 Pde3a Klhdc8a Hcn4 Ccbe1 Slc36a1 Rps6ka6 Diras1 Gata2 9630041A04Rik Rgs2 Otx2 Vav2 Hs3st3b1 Ccnjl Car2 MC_91 Hypothalamic and midbrain neurons, primarily subparafascicular area Tcf7l2 Pnoc Six3 Tal1 Tacr1 Kirrel Gata3 Lmo1 Ccdc141 Lhx1 Col8a1 Ror1 Lypd6 Nkx2-2 Doc2b Ppfibp1 Gpr101 Asic4 Otx2 T2 Qrfpr AW551984 Otof Ttn 6430628N08Rik Cbfa2t3 Gpc3 Npy Prag1 Cpne2 Cd59a Scn5a Gdpd2 Palld Tac1 Slc7a3 Rpp25 Ppm1m Gata2 St18 Drd1 Stk33 Trpc6 Hccs Tspan18 Rsph9 Htr2a Lhx5 Efcc1 Pifo Etnk2 MC_92 Tegmental neurons Tcf7l2 Gata3 Lhx1 Tal1 Kirrel Asic4 Col8a1 Uncx Pnoc Irx2 Mme Cbfa2t3 Prlr Lancl3 Lhx5 Gpr139 Lmo1 Htr2a Slc30a3 Chrna4 Gata2 Rpp25 Vav2 Kcnab3 Otx1 Nos1 Nwd1 Pvalb Isoc1 Npy Pcdh8 Foxp4 St3gal1 Eogt Smim17 Diras1 Dgcr2 Lrrc75b Tbkbp1 Cntnap3 Hapln1 Angpt1 Lrrc55 Mecom Fads6 Lrtm2 Ppm1m Rgl2 Lmo2 Il31ra Kcnh8 MC_93 Tegmental neurons, primarily interstitial nucleus of Cajal Pvalb Esrrb Gata3 Six3 Onecut1 Ccbe1 Pnoc Rpp25 Ugt8a Dach2 Tal1 Slc30a3 Fam131c Lhx1 Lrrc8a Kank4 Kcnab3 Slc36a1 Slc29a4 Onecut3 Htr1d Col16a1 Klhdc8a Gpr139 Impa2 Lancl3 Phpt1 Serpinf1 Tll1 Pparg Cacna1h Agmat Slc25a20 Inpp5j Ankrd9 Lama1 Sdsl Kctd9 Bmp6 Timm8a1 Pde8a Fgf18 H2-T22 Adgra3 Adssl1 Pus1 Grin2c Fndc10 Sall3 Prss12 Cracr2a MC_95 Tectal neurons Tfap2b Lef1 Pax7 Gata3 Sox14 Tal1 Asic4 Emx2 Kit Plk5 Pnoc Lhx5 Rpp25 Amn Cyp4f17 Otx2 Egflam Hs3st3b1 Egfl6 Kirrel Mei4 Trp53i11 Cd63 Id2 Masp1 Ptgds Dbi Selenoh Car2 Mt1 Nppc Axin2 Pcdh8 Lmo1 Car8 Lhx1 L3hypdh Smco4 Sparc Ramp2 Gstp1 Wnt3 Ptgfrn Oprk1 Efna2 Itm2a Isoc1 Mme Rassf4 Oat Dbp MC_96 Midbrain neurons Tfap2b Sst Otx2 Lef1 Tal1 Pax7 Lmo1 Sox14 Hs3st3b1 Asic4 Rpp25 Ptgds St18 Gata3 Dcn Plac9a Kirrel Cd63 Masp1 Tfap2a Amn Nkd2 Ror1 Cubn Hs3st3a1 Igf1 Pappa Plp1 Uncx Emx2 Lhx1 Plk5 Dbi Car2 Pde3a Ltbp1 Qrfpr Mt1 Stk33 Lhx5 Chrna3 Tnnt1 Prag1 Pparg Nfix Kcnmb1 Htr2a Epyc L3hypdh Fgf10 Fat4 MC_97 Midbrain and pontine neurons Lhx1 Vmn1r207 Pax7 Vmn1r209 Pax3 Mme Foxo1 Uncx Vmn1r206 Tafa4 Sema3c Irx2 Nos1 Esrrb Antxr2 Otp Nox4 Svep1 Adamts5 En1 Slc30a3 Irx5 Lhx5 Fam163a Gpr149 Irx3 Vwa5b1 Col4a4 Pwwp3b Col6a5 Tmie Prdm8 En2 Tac1 Cnpy1 Nhlh2 Dach2 Pappa Adam12 Cd63 Rgma AW551984 Nanos1 Boc T2 Pax8 Pax5 Lgr6 Tshr Oat Spsb4 MC_98 Midbrain neurons, primarily periaqueductal gray Gata3 Tal1 Slc6a5 Slc30a3 Tfap2b Rpp25 Nkx2-2 Asic4 Uncx Pnoc Lhx1 Pax5 AW551984 Sst Col8a1 Gstp1 Zim1 Lhfpl5 Lhx5 Pcbd1 Cbfa2t3 Amn Mme Irx2 Npy Gsto1 Hsd17b2 Gpr139 Kcns3 Trh Rnd1 Gpx3 Lmo1 Abhd11 Prlr Egfl7 Selenoh Mcee Phpt1 Otx1 Hexim2 Doc2b Slc7a3 Ier3 Ankrd9 L3hypdh Naa38 Sulf1 Mea1 Dgkk Alkbh2 MC_99 Pontine and medullary neurons, primarily raphe Lhx1 Otp Pnoc Slc30a3 Irx2 Npas1 Ntn1 Irx5 AW551984 Mme Lhx5 Irx3 Tmie Gpr149 Pax2 Nmur2 Irx1 Cgn Otof Npnt Rnd1 Trp53i11 Cdh23 Mn1 Onecut1 Erfl Selenoh Pcbd1 Rgma Cyp4f17 Tac1 Rassf4 Pmfbp1 Rab13 Adgrg2 Lrrc75b Spsb4 Kazald1 Dcaf12l1 Smim17 Prlr Sncg Pax5 T2 Alkbh7 Smoc1 En1 Lhfpl5 Nhlh2 Chrna4 Tafa4 MC_100 Midbrain neurons Pax5 En1 Gata3 Tal1 Sox14 Pnoc Lhx5 Irx2 Lmo1 Klhl14 Irx5 Mn1 Rpp25 Lhfpl5 Irx3 Nmur2 Lhx1 Zim1 Insyn2a Fam131c Pax8 Tmie Cgn Hcn3 Pcbd1 Cbln4 Rasa4 Irx1 Lrrc9 Cebpzos Phpt1 Hydin Lancl3 Prkg2 Npas1 Tmem53 Smim17 Prlr Crlf2 Vat1 En2 Stac AW551984 Slc30a3 Ptges2 Ppif Pdcd2 Rab13 Abhd11 Hddc2 Alkbh7 MC_101 Midbrain neurons Otx2 Sox14 Hs3st3b1 Stac Asic4 Lef1 Lhx1 Gata3 Lmo1 Lypd6 Uncx Tal1 Fat4 Igf1 Rpp25 Kirrel Gabrr2 Tnnt1 Cxcl14 Chrna3 Ccdc141 Tac1 Prima1 Wnt3 Pde3a Ptgds Mt1 Cd63 Slc6a11 Pcdh20 Hmcn1 Chrna6 Plk5 Foxp4 Marcksl1 Gm19410 C1ql3 Rasa4 Dbp Chrnb3 Lhx5 Gli3 Cdhr1 Pax7 Scube2 Hs3st3a1 Car2 Cplx3 Dbi Axin2 Hopx MC_102 Midbrain neurons Six3 Lmo1 Tal1 Gata3 Rpp25 Lhx1 Asic4 Slc30a3 Uncx Cgnl1 Cbfa2t3 Ano1 Otx1 Pcsk6 Otx2 Lhx5 Shisal1 Sdsl Hapln1 Pvalb Irx2 Kcnab3 Nrtn Ugt8a Nts Kcng2 Selenoh Pnoc Fgf18 Kirrel Irx5 Naa38 Fbn2 H2-T22 Ankrd9 Anapc13 Timm8a1 Mea1 Isoc1 Sephs2 Ifi27 Car8 Chpf Diras1 Pdcd2 Irx3 Tspan4 Gng13 Sox14 Eif1ad Tceal8 MC_103 Midbrain neurons Six3 Uncx Gata3 Lhx1 Asic4 Maf Pvalb Tal1 Rpp25 Cbfa2t3 Kirrel Sox14 Npy Sox2 Pnoc Lhx5 Tll1 Ccbe1 Kcnab3 Hapln1 Hs3st3b1 Hs3st1 Spp1 Pax5 Tuft1 Lancl3 Colgalt2 Emx2 Ccdc126 Cd302 Racgap1 Cep128 Phlda1 Vav2 Sdsl Dusp10 Timm8a1 Amigo2 Spry4 4930590J08Rik Spsb4 Fgf18 Gata2 Palld Rbm20 Slc25a20 Diras1 Cbln4 Prrt3 Etv4 Impa2 MC_104 Midbrain neurons Six3 Gata3 Car8 Rpp25 Tal1 Asic4 Pax5 Uncx Isoc1 Kcnh8 Lhx1 Emx2 Gpr139 Ano1 Cbfa2t3 Adgra3 Kcnj2 Lhx5 Pvalb Lancl3 Slc30a3 Cgnl1 Necab2 Pcdh8 Pnoc Kcnab3 Nrtn Lmo1 Fgf18 Kank4 Nts Pcbd1 Bves Sdsl Irx5 Cacna1h Mme Lhfpl5 Popdc3 Anapc13 Naa38 Npy Ggh Rnd1 Diras1 Klhdc8a Spsb4 Pyurf Amot G0s2 Alkbh7 MC_105 Midbrain neurons Six3 Gata3 Asic4 Sox14 Tal1 Lhx1 Maf Nos1 Pvalb Cbfa2t3 Rpp25 Lhx5 Ccbe1 Kirrel Uncx Onecut1 Emx2 Otx1 Necab2 Nrtn Pnoc Tuft1 Kcnab3 Prlr Slc30a3 Plk5 Tcf7l2 Rasa4 Gata2 Pcbd1 Onecut3 Cacna1h AW551984 Naa38 Alad Eci1 Chpf Amn Phpt1 Pmfbp1 Relt Lhfpl5 Selenoh Tmem215 Alkbh7 Adssl1 Npnt Kazald1 Cd63 Oat Dnajc4 MC_106 Midbrain neurons, primarily reticulata Six3 Pvalb Gata3 Ccbe1 Uncx Sema3c Cacna1h Adam12 Col8a1 Tal1 Mme Asic4 Rgma Serpinf1 Klhdc8a Ctxn3 Spp1 Col16a1 Kcnab3 Car8 Npas1 Gpr139 Isoc1 Ror1 Ano1 Impa2 Lhx1 Slc29a4 Fgf18 Abtb2 Otx1 Rpp25 Ccdc192 Scube1 Fam131c Kank4 Ccdc126 Adgra3 Mro Slc38a11 Irx5 Sstr1 Insyn2a Slc25a20 Irx3 Cntnap3 Eogt Rreb1 Chrna4 Ankrd9 Foxp4 MC_107 Pontine and medullary neurons Onecut1 Gata3 Sox2 Sall3 Lhx1 Tal1 Slc6a11 Fam163a Otx1 Pmfbp1 Stk32b Crhbp Fam189a2 Prdm16 Pnoc Lancl3 Gata2 Cpa6 Gpr139 Adamts18 Palld St8sia2 Elovl7 Myo5b Lhx5 Col8a1 Cd59a Asic4 En1 Zim1 Pvalb Hcn3 Irx2 Tmem53 Slc30a3 Rgma Rassf4 Etnk2 Sdsl Cyp4f17 Pdlim3 Insyn2a Onecut3 Chrna4 Fgd5 Spsb4 Rgs2 Myh7b Npas1 Tuft1 Pcbd1 MC_108 Pontine and medullary neurons Pax7 Ebf2 Chrna5 Dach2 Fam163a Pax3 Nos1 Cacng5 Sox6 Irx2 Vmn1r207 Otp Ecel1 Gpr149 Stk32b Cd63 Lhx5 Gm19410 Gulo Pde3a Rgs12 Lmo1 Kit Irx5 Boc Egfr Irx3 Chrna2 Vmn1r206 Mn1 Svil Tmod1 St18 Mme Nhlh2 Sst Rgma Nxph4 Ntrk1 Chrna3 Tmem176b Irx1 T2 Nox4 Stk32a Pthlh Scn7a Gng12 Abtb2 En2 Uncx MC_109 Raphe serotoneregic and excitatory neurons Lmx1b Slc18a2 Ddc Fgd5 Gata3 Tph2 Vwa5b1 Tns1 Slc6a4 Slc17a8 Gch1 Gchfr Zim1 Maob AW551984 Adra1b Slc22a3 Myo5b Dgkk Stk32b En1 Sncg Slc10a4 Lpar1 Pappa2 Dysf Pde8a Htr1b Spata1 S100a10 Cpne7 Gata2 Lancl3 Necab2 Gpc3 Dennd3 Fev Cntnap3 Stk32a Esr2 Idh1 Zbed5 Tspan18 Fam189a2 Stard13 Fkbp14 Pwwp3b Itpr2 Parvb Vat1 Hspa12b MC_110 Raphe serotonergic and inhibitory neurons Dlk1 Lmx1b Tph2 Ddc Fgd5 Tns1 Gata3 Pappa2 Zim1 Gch1 Slc18a2 Slc6a4 Maob Vwa5b1 Htr1b Prlr AW551984 Sncg Gchfr Necab2 Gucy2f Shox2 Slc17a8 Lypd6 Pde8a Stk32a Cpne7 Lancl3 Tspan18 Slc22a3 Myo5b Dach2 S100a10 Gata2 Ptger3 Hrh1 Dysf Gnb4 Adra1b Itpr2 Adamts2 Htr1d Pwwp3b Cpa6 Trh Spata1 Dgkk Peg10 Wipi1 Mei4 Ndnf MC_111 Pontine and medullary neurons Slc6a5 Dlk1 Kcns3 Cdh23 Hoxb3 Gata3 Tal1 Dgkk Skap1 Pnoc Sox14 Slc30a3 Pax6 Hoxc4 Sncg Lmo1 Nmur2 Fbn2 Mab21l2 Col8a1 Adra1b Myo5b Hoxb2 Hoxd4 Rasef Stk33 Irx2 Hoxd3 Irx5 Peg10 Vav2 Pappa Npas1 Cbln4 St18 Sst AW551984 Hoxb4 Hoxb5 Slc12a1 Mme Nxph2 Ptprq Gng12 Gm16223 Drd2 Lss Trim43c T2 Asb4 Lhx5 MC_112 Midbrain and pontine neurons Gata3 Sox2 Lmo1 Tal1 Kcnh8 Irx5 Irx3 En1 Htr2a St18 Irx2 Kcns3 Rpp25 Pnoc Plod2 Slc30a3 Mme Lhx5 Prag1 Zim1 Esrrb Gpr149 Sox1 Adgrg1 Stk33 Vav2 Kank4 Lrrc38 Oprk1 Ptgfrn Nmur2 Gpr101 Lancl3 Kcnab3 Kirrel T2 Cbln4 Sdsl Gpr26 Hcn3 Gm16223 Shisal1 Col8a1 Lrrc8a Rgma Pax6 Sertm1 Pglyrp1 Dglucy Sox13 Trim43c MC_113 Pontine neurons, primarily nucleus incertus (PMID 34239421) Gata3 Nr4a2 Vwa5b1 Nmb Tent5a Rln3 Tal1 Egflam Vav2 Cbfa2t3 Irx5 Pappa Irx2 Pamr1 Gata2 Prlr Rai14 Tafa4 Zim1 Masp1 Peg10 Creb3l1 Pwwp3b Asic4 Fos Gpx3 T2 Rcn1 0610040J01Rik Shoc1 AW551984 Gpr101 Fjx1 Tll1 Irx3 Rgma Itga9 Fgf7 Tspo2 Lrrc9 Stk33 Adam12 Mn1 Lmo1 Insyn2a Slc30a3 Nos1 Tmie Tes Sox2 Gabrq MC_114 Red nucleus neurons C1ql2 Pvalb Sncg Ttc6 Mctp2 Kcns3 Kank4 Colgalt2 Htr1d Npas1 Uncx Tll1 Rab37 Rassf4 Fam210b Ugt8a Spp1 Mme Vav2 Kctd9 Klhdc8a Tesc Scn4b Ahnak2 Gpat3 A2ml1 Crhr1 Hsd17b2 Lepr H2-T22 Gm2115 Ddo Spata6 Col16a1 Agbl1 Impa2 Esrrb Kank1 Trim43c Acadl Iqcj Pou4f1 Slc25a20 Ankrd9 Pparg Anxa5 Kcng4 Ccbe1 Gas2l3 Gpr156 Tpmt MC_115 Brainstem neurons Prdm16 Gab1 Prlr Mecom Slc6a5 Nr4a2 Svil Tll1 Pax2 Lhx1 Zim1 Slc30a3 Irx2 Spata1 Tfap2b Greb1 Slc18a2 Qrfpr Oprk1 Cd59a Tfap2a Mab21l2 Itga8 Pnoc Lhx5 Fads2 Nmur2 Il13ra1 Myo3b Pwwp3b Fbn2 Eya2 Cabcoco1 Uncx Myo5b Irx4 Dgkk Col4a4 AW551984 Kctd15 Hcn3 Fam114a1 Tacr1 Drd2 Vat1 Ltk Lrrc75b Spata6 Stard4 Pdyn Gnb4 MC_116 Pontine and medullary neurons Mecom Tcf7l2 Pax2 Myo5b Ccbe1 Nmur2 Sema3d Lhx1 Bmpr1b Sulf1 Trim43c Plcd4 Poln Otp Kcnab3 Insyn2a Cgnl1 Scn4b Impa2 Rab37 Npas1 Fam163a Rassf4 Eci1 Plekhd1 Ccdc150 Tpcn2 Gal3st1 Trim67 Spp1 Gpat3 Prdm16 Wwtr1 Ube2cbp Mapk12 Abcb4 Tfeb Pappa Itgae 4930590J08Rik Fgf11 Hgf Atad2 Ccdc126 Ugt8a Slc36a1 Zfp946 Fhdc1 Lrrc75b Vegfc Lrp2 MC_117 Pontine and medullary neurons Dach2 Slc6a5 Pax2 Cdh23 Mab21l2 Pnoc Ebf2 Otp Prox1 Kcns3 Slc30a3 Slc7a2 Nxph4 Trim43c Svil Maf Irx5 E130114P18Rik Fam20a Sst Adam12 Irx3 Cgnl1 Lemd1 Ecel1 Hmcn1 Npsr1 Kank4 Klhdc8a Col27a1 Ndnf Ppfibp2 Nmur2 Litaf Vav2 Dusp10 Tfeb Tpcn2 Nos1 Igfbp5 Ugt8a Spsb4 Myo1e Gli2 Glis1 Frem1 Lhx5 Cbln2 Vwa5b1 Etaa1 D830030K20Rik MC_118 Dorsal cochlear nuclei interneurons Slc6a5 Prkcd Pvalb Ddo Pax2 Bhlhe22 Tll1 Inpp5j Arhgef37 Shc4 Trim67 Tfap2a Tmem151b Fam107b Col27a1 Trmt9b Shroom3 Plekhd1 Rasa4 Synpo2 Pappa Pparg Pde5a Kcnab3 Rreb1 Lamb1 Esrrb Slc36a1 Rgs3 Exph5 Fads6 Mettl24 Cgnl1 Zic1 Kit Ccdc85c Psg16 Ntn1 Zfp385c Alpk1 Ror1 Hopx Tspan11 Cnpy1 Megf10 Smad3 Homer3 Wnt3 Neurod2 Skor1 Spp1 MC_119 Cerebellar interneurons (MLI, PLI) Kit Ntn1 Tfap2b Trim67 Pvalb Arhgef37 Dusp10 Cnpy1 Tfap2a Adamts2 Megf10 Dnah11 Gldc Bhlhe22 Prdm8 Arhgap10 Afap1l2 Nos1 Ccnjl Shc4 Ddo Smad3 Pparg Prkcd Kirrel Pax2 Zbtb18 Shroom3 Tmem151b Cdh1 Unc5b Antxr2 Rasa4 Tbxas1 Fam107b Adamts18 Masp1 Epha8 Lrrc38 Chst9 Nfix Trmt9b Zic1 Prom1 Homer3 Itga8 Lancl3 Abtb2 Lamb1 Jup Sla MC_120 Pontine and medullary neurons Slc6a5 Pax2 E130114P18Rik Nxph4 Pnoc Nfix Prox1 Slc30a3 Tfap2a Sst Gpr139 Esr1 Bhlhe22 Svil Col8a1 Adamts18 Nhsl1 Sema3d Hoxb3 Masp1 Tacr3 Plpp3 Pax8 Nmur2 Asl Galr1 St8sia2 Skor1 Cgnl1 Rtp4 Itga4 Adamtsl3 Efcc1 Lmo2 Uncx Hoxa5 Slc7a3 Amn Pde3a Hoxb5 Klhl14 Hoxc4 Thrsp Gpr101 Cyp39a1 Oprk1 Skap1 Neurod2 Stk32a Ltbp1 Trim43c MC_121 Pontine and medullary neurons Slc6a5 Pax2 Pax8 Slc30a3 Prlr Tns3 Irx2 Zim1 Nmur2 Pnoc Tfap2a Rassf4 Lhx1 Sst Kcns3 Prrxl1 Stk32a Irx4 Ppfibp2 Stk32b Filip1 Gm1604b Ikzf1 Gpr139 Eya2 Popdc3 Fndc1 Cd302 A830031A19Rik Lhx5 Fat4 Synj2 Abcb4 Tspan18 Hmcn1 Stox1 Trp53i11 Hsf4 Prag1 Rnasel Hs3st3b1 Tfeb Fgf18 AW551984 Haus6 Wdr25 Smim17 Ak7 Pth2r Cd59a Klhl14 MC_122 Pontine and medullary neurons Pax2 Hoxb3 Hoxb5 Ebf2 Hoxc4 Slc6a5 Pax8 Skap1 Hoxb4 Nxph4 Hoxb6 Hoxa5 Nxph2 Trim43c Vcan Irx2 Nppc Uncx Hoxd4 Itga4 Lepr Hoxb2 Sytl5 Irx3 Nmur2 Slc30a3 Rgs12 St8sia2 St3gal1 Irx5 Irx1 Trim67 Klhl14 Galr1 D7Ertd443e Fgf10 Ppfibp2 Dgkk Hoxb8 Cgnl1 Slc5a7 Slc29a4 Fat4 Lmo2 Itga8 Stard4 Tmie Mab21l2 Asap3 Pwwp3b Slco4c1 MC_123 Pontine and medullary neurons Slc6a5 Gata3 Nmur2 Tal1 Trim43c Nxph2 Rab37 Kcns3 Cda Mab21l2 Pvalb Trmt9b Ccdc150 Poln Dysf Gpr139 Tpcn2 Vav2 Gxylt2 Ugt8a Gas2l3 Oma1 Abcb4 Sncg Abtb2 Slc30a3 Hoxb3 Trim67 Trim43a Kctd9 Kank4 Slc25a20 Glis1 Rgs2 Gata2 Cgnl1 Gpat3 Tpmt Impa2 Tigar Plcd4 Ahnak2 Spp1 Eya2 Slc4a2 Scn4b Atad2 Gm2115 Lancl3 Wdr25 Dglucy MC_125 Pontine and medullary neurons Slc6a5 Pax2 Pax8 Trim43c Cgnl1 Pvalb Nmur2 Kcnab3 Plcd4 Ccdc150 Ugt8a Mab21l2 Gpat3 Tpcn2 Lhx1 Rab37 Kcns3 Impa2 Spsb4 Spp1 Slc30a3 Scn4b Abcb4 Gal3st1 Poln Tfeb Gm2115 Hoxb3 Rassf4 Klhl14 Oma1 4930590J08Rik Hapln1 Kctd9 Trim67 Atad2 Itpr2 Arhgap10 Eya2 Gpr139 Fgf18 Oprd1 Gas2l3 Wdr25 Tesk2 P2rx6 Vav2 Sptssb Trim43a Slc4a9 Eif5a2 MC_126 Pontine and medullary neurons Slc6a5 Pax2 Tfap2b Esr1 Nxph4 Pax8 Mab21l2 Kcns3 Slc30a3 Hoxb3 Sncg Trim43c Popdc3 Nmur2 Ston2 Onecut1 Lhx1 Crispld1 Tfap2a Pdzrn3 Klhl14 Pappa Gpr139 Hoxc4 Hoxb2 Htr2a Tacr1 Pmfbp1 Asap3 Coch Tfeb Vcan Gm2115 Ret Plcd4 Ccdc150 Itpr2 Smim17 Spink13 Stard4 Tpcn2 Trim43a Lama1 Fibin Trim67 Skor2 Impa2 Abcb4 Kctd9 Agmat Pde11a MC_127 Pontine and medullary neurons Slc6a5 Pax2 Mecom Hoxc4 Kcns3 Klhl14 Cgnl1 Trim43c Hoxb3 Eya4 Plcd4 Hoxb5 Rassf4 Hoxd4 Slc30a3 Pax8 Lhx1 Kcnab3 Nmur2 Spp1 Abcb4 Htr2a Rab37 Col4a5 Nxph4 Ccdc150 Sst Lepr Hoxb4 Myo5b Iqcj Nxph2 4930590J08Rik Rsph10b Ugt8a Impa2 Hoxb2 Acp6 0610040J01Rik Sema3d Gal3st1 Tpcn2 Poln St3gal1 Oprd1 Hsd17b2 Oma1 Ak7 Kank1 Cd59a Gpr139 MC_128 Pontine and medullary neurons Slc6a5 Pax2 Sema3a Pax8 Myo5b Pvalb Gpr139 Mab21l2 Klhl14 En1 Ugt8a Trim43c Hoxb3 Otp Spsb4 Nos1 Bhlhe22 Slc30a3 Fam131c Nmur2 Adamts5 Kcnab3 Plcd4 Cabp7 Tfeb Pnoc Abtb2 Esrrb Grin2c Kank4 Kcns3 Mme Kctd9 Tmem151b Tpcn2 Adgra3 Litaf Glis1 Dach2 Cgnl1 Ccdc150 Gpat3 Hoxb2 H2-T22 Gal3st1 Klhdc8a Trim67 Fgf18 Gpr149 Popdc3 Adra1b MC_129 Pontine and medullary neurons Slc6a5 Pax2 Pvalb Mab21l2 Pax8 Adamts5 Abtb2 Grin2c Hoxb3 Adgra3 Lmo1 Otp Nxph4 Vegfc Vcan Cabp7 Esrrb Trim43c Glis1 Fam131c Ugt8a Slc30a3 Rspo3 Tfeb Kcnab3 Klhl14 Gpr139 Nmur2 Tmem151b Bhlhe22 Irx3 Fgd5 Spsb4 Cgnl1 Kctd9 Plcd4 Tpcn2 Adamts19 Prox1 Klhdc8a Ttr Kank4 Colq Fgf18 Pkhd1l1 4930590J08Rik Irx5 Asap3 Kitl Cyp26b1 Slc25a37 MC_130 Pontine and medullary neurons Slc6a5 Pax2 Pax8 Nmur2 Trim43c Slc30a3 Klhl14 Plcd4 Mab21l2 Gpr139 Tfeb Ccdc150 Cgnl1 Kcnab3 Hoxb3 Rab37 Rassf4 Tpcn2 Abcb4 Nxph4 Impa2 Lhx1 Ugt8a Gal3st1 Gm2115 4930590J08Rik Trim67 Poln Fgf18 Rsph10b Smim17 Glis1 Tesk2 Gpat3 Otof Hoxb2 Vmn2r85 Spsb4 Abtb2 En1 Scn4b Slc4a9 Kctd9 Vav2 Kank4 Plekhd1 Tigar Dmbx1 Hoxc4 Wdhd1 Rsad1 MC_131 Pontine and medullary neurons Slc6a5 Nxph4 Mab21l2 Slc30a3 Lhx1 Dach2 Lemd1 Otp Sncg Onecut1 Nmur2 Grin2c Abtb2 Npnt Hoxb3 Pax8 Mecom Met Cartpt Eogt Spsb4 Ttr Tfeb Kcnh8 Kank3 Trim43c Lhx5 Cyp4f17 Kirrel Hcn3 Lrrc75b Rab13 Pglyrp1 Nwd1 Zfp503 Txnrd3 Vegfc Slc29a4 Tmie Klhdc8a Cd59a Car8 Colq Eci1 Lhfpl5 Trim67 Onecut3 Hmx2 Fam131c Hoxd4 Nos1 MC_132 Pontine and medullary neurons Slc6a5 Pax2 Mab21l2 Abtb2 Gm2115 Trim43c Pax8 Cgnl1 En1 Nmur2 Spp1 Klhl14 Plcd4 Col16a1 Fam163a Rab37 Htr1b Cdh23 Mei4 Ccdc150 Lhx1 Pvalb Gal3st1 Sncg Kank4 Nxph2 Vav2 Kcnab3 Tesc Sh3bgr Gpat3 Nr5a2 Nos1 Kctd9 Tigar Oma1 Rgma Nxph4 Scn4b Poln Spsb4 Dysf Tpcn2 Kcng4 Impa2 Trim43a Insyn2a Trim67 Ugt8a Gas2l3 Aard MC_133 Pontine and medullary neurons Slc6a5 Onecut1 Pax2 Mab21l2 Abtb2 Trim43c Sncg Hoxb3 Nxph2 Nmur2 En1 Hoxc4 Pmfbp1 Kcns3 Slc30a3 Lepr Ret Onecut3 Dgkk Cgnl1 Ccdc150 Rab37 Hoxd4 Lhx1 Ugt8a Gm2115 4930590J08Rik Mapk12 Hoxb5 Plcd4 Nxph4 Gpat3 Dysf Spsb4 Tfeb Trim43a Tpcn2 0610040J01Rik Impa2 Gal3st1 Trim67 Acp6 Vav2 Pde3a Plekhd1 Tesk2 Slc4a9 Atad2 Oma1 Smim17 Gli3 MC_134 Pontine and medullary neurons Slc6a5 Pax2 Pax8 Hoxc4 Cgnl1 Hoxb3 Mab21l2 Hoxb5 Pvalb Trim43c Kcns3 Klhl14 Nmur2 Slc30a3 Kcnab3 Rab37 Plcd4 Scn4b Lhx1 Vav2 Ugt8a Ccdc150 Rassf4 Gpat3 En1 Gm2115 Atad2 Tpcn2 Spsb4 Mapk12 Lepr Hoxd4 Hoxb4 Gal3st1 Trim43a Abtb2 Slc4a9 Tesk2 Abcb4 Acp6 4930590J08Rik Abcd2 Oprd1 Gas2l3 Impa2 Tfeb Poln Trim67 Hoxb2 Cdr2 AI854703 MC_135 Pontine and medullary reticular neurons Slc6a5 Pax2 Pnoc Otp Slc30a3 En1 Mab21l2 Cgnl1 Lhx1 Mme Gpr139 Myo5b Rassf4 Foxd3 Kcnab3 Lhx5 Scn4b Rab37 Fgf10 Gpr149 Dkk3 Otof Bhlhe22 Smim17 Rnd1 Trim43c Nmur2 Gpat3 Pax5 Ugt8a Npas1 Sdsl Lrrc75b Npsr1 Plcd4 Tacr1 Gng13 Kctd9 Kank4 Ccdc150 Abcb4 Tfeb Fads6 Eif5a2 Lrrc8a Kazald1 St3gal1 Dglucy Hapln1 Mapk12 Impa2 MC_136 Pontine and medullary neurons Ebf2 Lmx1b Lmx1a Pde11a Kcnh8 Mme Cgnl1 Cbln1 Sall1 Tle2 Ptch2 Adam12 Col12a1 Cracr2a Bnc2 Grp Kazald1 Tdrd5 Eepd1 Cbln4 Tlx1 Plekhd1 Scn4b Tpbg Nppc Hs3st3b1 Tfeb Prrxl1 Spata6 Cd59a Kcnab3 Pawr Zim1 Chst9 Lrrc75b Insyn2a Pvalb Tesk2 Tex14 Lhx2 Sertm1 Impa2 Tshr Fads6 Maf Nmur2 Itgae Col16a1 Dchs1 Asap3 Drc3 MC_137 Pontine and medullary neurons Slc6a5 Gata3 Pvalb Maf Rbm20 Spp1 Vav2 Oprd1 Trim43c Inpp5j Tal1 En1 Dysf Kank4 Adamtsl5 Nmur2 Itpr2 Enpep Tesc Ptprq Plekhd1 Mctp2 Lancl3 Ugt8a Esrrb Spsb4 Tigar Rab37 Kcnab3 Plce1 Tfeb Acan Pdzd7 Scn4b Rpp25 P2rx6 Impa2 Tmod1 Ttn Phlda1 Asap3 Fads6 Kctd9 Sh3bp4 Atp10a Cd59a Abtb2 Tpst2 Ccbe1 Scrt2 Spata6 MC_138 Pontine and medullary neurons Ebf2 Pde3a Pvalb Nppc Scn4b Crhr1 Maf Atp10a Necab2 Lmx1b Kcnab3 Htra1 Cgnl1 Kcnh8 Acan Fn1 Cbln1 Tmod1 Kank4 Mctp2 Adamts2 Adamtsl5 Actn2 Dchs1 Tgfbr2 Vmn1r207 Ugt8a Tle2 Tfeb Usp43 Tesc Trim67 Prkcq Vmn1r196 Plekhd1 Bves Plagl1 Prrxl1 Kcnq4 Col24a1 Nmur2 Pde5a Trim43c Lingo4 Cep128 Lhx2 Tpcn2 Hs3st2 Rbm47 Tdrd5 Efemp1 MC_139 Pontine and medullary neurons Lhfp Maf Mafb Slc7a2 Nmur2 Pvalb Cgnl1 Spp1 Adam12 Lhx9 Kcnab3 Adamtsl5 Lypd6 Rbm20 Onecut1 Trmt9b Cacng5 Plk5 Pde3a Rab37 Mab21l2 Rgs3 Fam163a Kcnq4 Tigar Ttn Pdzrn3 C1ql3 Tll1 Tgfb2 Pdgfrl Gm1604b Crhr1 Scn4b Trim43c St3gal1 Igf1 Lama3 Ccdc126 Pmfbp1 Palld Irx2 Rasa4 Kank1 Ppfibp1 Fhdc1 Ptpn22 Acan Trim67 0610040J01Rik Lhx2 MC_140 Pontine and medullary neurons, primarily nucleus of the lateral lemniscus Prdm6 Lhx9 Onecut1 Maf Mab21l2 Pvalb Kcnq4 Ttn Pmfbp1 Anxa5 Spp1 Nek7 Plk5 Rasa4 Adamtsl5 Tpbg Scn4b Hs3st1 Rab37 Kcnab3 Enpep Nmur2 Nr4a2 Cacng5 Bcar3 Tesc C1ql3 Crhr1 Synj2 Hcn4 Ccbe1 Inpp5j Pparg Ccdc126 Pde3a Rgs2 Rgs3 Cgnl1 Relt Crispld1 Palld Cln3 Plekhd1 Acan Gm13889 Zfp52 Sh3bp4 Acadl Fam53b Diras1 Grin2c MC_141 Medullary neurons Slc6a5 Pax2 Hoxb3 Klhl14 Tspan18 Hoxc4 Arhgap15 Pax8 Zic1 Tfap2b Hoxb4 Hoxb5 Serpinb1b Hoxb2 Sst Tfap2a Slc37a1 Hoxd4 Hoxa5 Hoxd3 Mab21l2 Cgn Slc30a3 Nppc Pnoc Ccbe1 Nhsl1 Ston2 Syndig1l Zic4 Vwa5b1 Cemip Lama1 Lemd1 Esr1 Kirrel St8sia2 Skor2 Ndnf Rsph9 Col12a1 Skap1 Gnb4 Lhfpl5 Rgs12 Npy2r Neurod1 Asb18 AW551984 Il13ra1 Trhr MC_142 Pontine and medullary neurons Slc6a5 Pax2 Hoxb3 Pax8 Sall3 Cgnl1 Rbm20 Hoxb5 Nppc Serpinb1b Klhl14 Hoxb6 Kank1 Hoxa5 Lhx1 Hoxc4 Hoxb4 Nxph2 Gbx1 Hoxb2 Kirrel Hoxd4 Rab38 Plekhd1 Gpc3 Fat4 Adamts5 Eepd1 Drd2 Rassf4 Hoxb8 Ugt8a Stac Kcnab3 Nox4 Maf Gpat3 Kcnh8 Hs3st3b1 Pvalb Gsap Prkcq Lingo4 Mme Arhgap31 Mab21l2 Cd302 Tmod1 Eya2 Trim43c Scn4b MC_143 Pontine and medullary neurons Pax2 Slc6a5 Nppc Hoxb3 Serpinb1b Stac Sall3 Pax8 Hoxb5 Hoxb6 Hoxa5 Gpc3 Dkk3 Shisa8 Hoxb8 Gsap Hoxb4 Hoxb2 Prkcq Eepd1 Ndnf Kirrel Kcnh8 Hoxc4 Gbx1 Zic1 Arhgap15 Cgnl1 Klhl14 Plekhd1 Pcsk6 Hoxb7 Kank1 Hs3st3b1 Mab21l2 Maf Fam163b Itga4 Rab38 Col18a1 Ppfibp2 Fbn2 Cdh3 Pde3a Adra1b Skap1 Pnoc Otof Vwa5a Creb3l2 Hoxd4 MC_144 Medulary vestibular neurons Slc6a5 Pvalb Mab21l2 Gpr139 Adgra3 Sema3c Grin2c Inpp5j Col16a1 Esrrb Nmur2 Kcnab3 Hoxb3 Wnt5a Ugt8a Gata3 Trim43c Dmbx1 Kcng4 Kank4 Tfeb Kctd9 Eif5a2 Spp1 Itga6 Cracr2a Lrrc8a Rassf4 Zfp503 Tpcn2 Gm2115 Scn4b Fam131c Fhdc1 Pstpip2 Klhdc8a Spata6 Slc25a20 Impa2 Trim67 Tpmt Cables2 Ntf3 Ttr Eogt Ccdc126 Cbfa2t3 Ccbe1 H2-T22 Colq Bag2 MC_145 Medulary vestibular neurons Hoxb3 Zic1 Nppc Ebf2 Myo5b Zic4 Cabp7 Nxph4 Iqcj Dach2 Kank4 Cgnl1 Adamts20 Tpcn2 Poln Pvalb Scn4b Gm1604b Iqschfp Gm2115 Mme Osbpl5 Skap1 Cpa6 Hoxc4 Rassf4 Tpbg Ak7 Itga4 Rnd1 Mtap Spata6 Fgf10 Ube2cbp 4930590J08Rik Gpr149 Ccdc150 Lemd1 Neurod2 Colec12 Hoxb2 Tfeb Sfrp1 Tacr1 Hapln1 Spink13 Itgae Eif5a2 Impa2 Slc25a20 Zfp503 MC_146 Pontine and medullary neurons Irx2 Lama1 Cdh23 Adamts2 Spp1 Serinc2 Oprd1 Slc17a7 Crhr1 Itgb5 Col18a1 Ldlrap1 Atp10a Rab37 Zic1 Osbpl5 Fam107b Fam163a Nfix Abtb2 Rhobtb1 Medag Tll1 Col27a1 Iqcj Gm2115 Hs3st2 Slco2a1 Pax6 Prima1 Tnfrsf23 Phldb2 Hoxb3 Sapcd1 Lemd1 St3gal1 Irx1 Kank4 Cabp7 Fibin Iqschfp Fat2 Neurod2 Mpp3 Trim67 Rhoj Anxa4 Hrh1 Hsd17b7 Creb5 Lhfp MC_147 Posterior medullary neuronns Lama1 Rab37 Hs3st2 Lemd1 Irx2 Serinc2 Abtb2 Tll1 Fam163a Sgcg Cdh23 Zic1 Spp1 Ldlrap1 Slc17a7 Hoxc4 Col27a1 Osbpl5 Ngf Adamts2 Oprd1 Rhobtb1 Ucma St8sia2 Fam107b Col12a1 Nppc Col4a4 Trim43c Slc22a3 Hoxb3 Crhr1 St18 Ddo Fibin Grin2c Pax6 Acrbp Fam131c Tnfrsf23 Trim67 Gm2115 Medag Nfix Zic4 Nxph4 Mpp3 Vegfc Hrh1 Hoxb5 Tnfrsf12a MC_148 Cerebellar and dorsal cochlear interneurons (granule cells and unipolar brush) Zic1 Tll1 Gabra6 Il16 Ror1 Fat2 Lmx1a St18 Etv1 Exph5 Rab37 Pax6 Cnksr3 Cbln3 Cbln1 Neurod1 Grin2c Tmod1 Slc17a7 Cnpy1 Nfix Serinc2 Zic4 Cemip Tpbg Zic2 Lnx2 Boc Adamts18 Mob3b Mpp3 Shf Crtam Ccnjl Pde3a Col27a1 Zbtb18 Samd3 Uncx Bcl6 Eomes Ttyh2 Vegfc Jph1 Creb5 Dusp5 Rell1 Neurod2 Sln Prom1 Cerkl MC_149 Pontine and medullary neurons Lama1 Abtb2 Iqcj Irx2 Grin2c Zic1 Iqschfp Rab37 Prima1 Dach2 Crh Fam131c Lemd1 Osbpl5 Cabp7 Fam107b Hs3st2 Col27a1 Hoxc4 Sncg Zic4 Met Hoxb3 Pvalb Rhobtb1 Fam163a Stpg2 Gm2115 Insrr Nxph4 Inhba Neurod2 D7Ertd443e Oprd1 Trim43c Mab21l2 Adamts2 Slc7a15 Tbc1d2 Ddo Irx1 Gpr139 St8sia2 Asap3 Col4a4 Sapcd1 Cpa6 Nppc Dysf Slitrk2 Shc4 MC_150 Deep cerebellar nuclei neurons Pvalb C1ql3 Cabp7 Esrrb Ccbe1 Spp1 Fam163a Ugt8a Cbln1 Nxph4 Kcng4 Scn4b Rbm20 Mctp2 Inpp5j Gpr139 Trim43c Fam131c Fgf18 Slc25a20 Rab37 Osbpl5 Actn2 Ebf2 Kctd9 Kank4 Abtb2 Pparg Tsen54 Rreb1 Serpinf1 Ddo Spata6 Tfeb Uncx Angpt1 Klhdc8a Tnfrsf23 H2-T22 Impa2 Tdrd5 Tpcn2 Fhdc1 Rassf4 Pdzd7 Sh3bp4 Slc4a9 Tmem151b Slc4a2 St3gal1 Cdr2l MC_151 Ventral cochlear nuclei neurons Maf Pvalb Ccbe1 Rbm20 Bnc2 Mafb Tll1 Bmp6 Slc17a7 Kcnq4 Slc7a2 Hs3st2 Ankrd33b Myo5b Spp1 Trim43c Scn4b Myo1e Kitl Lancl3 Pdzrn3 Tmod1 Arid5a Kank4 Ebf2 Col27a1 Ror1 Tns1 Lama3 Ugt8a Itgav Adamts2 Pstpip2 Pparg Ndnf Dach2 Cyp11a1 Hcn4 Actn2 Cyp27a1 Zfp365 Tigar Plekhd1 Bmpr1b Heg1 Atp10a Sh3bp4 Tfeb Inpp5j Cbln4 Esrrb MC_152 Medullary reticular neurons Phox2b Eya2 Cbln2 Dach2 Mab21l2 Nmur2 Rassf4 Kank4 Rab37 Grin2c Cgnl1 Fads6 Trim43c Osbpl5 Poln Scn4b Adamts2 Lepr Hs3st2 Vav2 Asap3 Tpcn2 Ccdc150 Ugt8a Cyp26b1 Pvalb Tfeb Kctd9 Atad2 P2rx6 Gpr139 Cdr2 Neurod2 Tigar Rnd1 Esrrb Trim67 Mapk12 4930590J08Rik Prrxl1 Eif5a2 Cabp7 Ahnak2 Cdr2l Lmo2 Klhdc8a Tns1 Ak7 Abcb4 Mme Lemd1 MC_153 Pontine and medullary neurons Sst Ebf2 Sema3d Lmx1b E130114P18Rik Tfap2a Prlr Bmp6 Tfap2b Arhgef26 Tacr1 Rtp4 Lmo1 Uncx Mme Ston2 Plp1 Dkk3 Masp1 Drd2 Gng12 Calca Abcc2 Ap1s3 Irx5 Nfix Tlx3 Cobll1 Cdh23 Fbn2 Itga8 Slc5a7 Lhx2 Fat4 Cpa6 Col23a1 Tac1 Irx3 Arhgap15 Cyp39a1 Gpr149 Nmur2 Chst9 Poln Adam33 Otof Plk5 Ccdc150 Angpt1 Esr1 Ptgds MC_154 Midbrain and pontine neurons Lhx1 Nxph4 Sncg Shox2 Otof Cbln2 Adcyap1 Vsx2 Lemd1 AW551984 Tmie Dgkk Zim1 Rnd1 Lhx5 Pcbd1 Onecut1 Prlr Foxd3 Skap1 Rassf4 Tafa4 Plk5 Trp53i11 Gpr156 Nmur2 Kazald1 Npas1 Sh2b2 Tspan18 Palld Pmfbp1 Nkx6-1 Pou4f1 Pnoc Pitx2 Fads2 Cd59a Nwd1 Lrrc75b Hoxb3 Armcx6 Cyp4f17 Hoxb5 Rab9b Tmc4 Mab21l2 Hsf4 Dcaf12l1 Agbl1 Etnk2 MC_156 Medullary neurons, primarily vestibular nuclei Mab21l2 Fam163a Nmur2 Grin2c Sncg Nxph4 Rab37 Hoxc4 Abtb2 Trim43c Kank4 Dach2 Hoxb3 C1ql3 Lemd1 Sst Rassf4 Kcns3 Lhx9 Pvalb Kcnab3 Spp1 Tpcn2 Crybg3 Asap3 Ugt8a Dchs1 Ccdc150 Kctd9 Col16a1 Scn4b Ret Adamts19 Tfeb Osbpl5 Cd59a Shc4 Cracr2a Cgnl1 Poln Htr2a Esrrb Spsb4 Trim67 Adamts2 Prlr Spink13 Hapln1 Hoxb2 Gpr156 Sgms2 MC_157 Pontine and medullary reticular neurons Pax2 Hoxb3 Kcns3 Mab21l2 Nmur2 Hoxc4 Tacr1 Trim43c Kcnab3 Poln Rab37 Rassf4 Plcd4 Abcb4 Ccdc150 Lhx1 Klhl14 Iqcj Hoxb2 Scn4b Gpat3 Cgnl1 Abcb1b Hapln1 Spsb4 Vcan Gal3st1 Tpcn2 Trim67 Hoxd4 Gm1604b Nppc Ugt8a Abcd2 Sncg Peg10 Tigar Angpt1 Oma1 Phldb2 Esr1 Smim17 Mapk12 Cdr2 P2rx6 Sox6 Hsd17b2 Impa2 Ebf2 Pvalb Htra1 MC_158 Medullary neurons, primarily vestibular nuclei Pax2 C1ql3 Mab21l2 Trim43c Pvalb Nmur2 Ugt8a Onecut1 Cgnl1 Sncg Rab37 Grin2c Ccbe1 Kcnab3 Spp1 Plcd4 Tpcn2 Scn4b Rassf4 Fam163a Kcns3 Ccdc150 Tfeb Abtb2 Lhx1 Col16a1 Kctd9 Impa2 Poln Spsb4 Gpat3 Kank4 Gal3st1 Abcb4 Myo5b Cabp7 Hoxb3 Cdr2 Gas2l3 Ret Otp Crhr1 Fhdc1 0610040J01Rik Atad2 Slc25a20 Sh3bgr Vav2 Eif5a2 Met Esrrb MC_159 Pontine and medullary reticular neurons C1ql3 Otp Lhx1 Lemd1 Nmur2 Adcyap1 Tcf7l2 Pax2 Rassf4 Grin2c Sall3 Nxph4 Trim43c Zim1 C1ql4 Cd59a Rab37 Mme Kazald1 Lhx5 Rgma Dlk1 Smim17 Klhdc8a Mapk12 Hsd17b2 Nwd1 Gal3st1 Tmc4 Skap1 Kcnab3 Crhr1 Tfeb Lrrc75b Abcb4 Hsf4 AW551984 Fibin Poln Ccdc150 Plcd4 Tent5a Cabp7 Rab13 Fam163a Impa2 Col16a1 F8 Cdr2 Abracl 4930590J08Rik MC_160 Pontine and medullary reticular neurons Slc6a5 Pax2 Serpinb1b Hoxc4 Pax8 Pvalb Hoxb5 Hmcn1 Tfap2b Cgnl1 Nxph4 Klhl14 Trim43c Kcns3 Ndnf Hoxb3 Kcnab3 Ugt8a Hoxa5 Adamts18 Scn4b Abcb4 Rassf4 Plcd4 Col12a1 Rab37 Vav2 Impa2 Ccdc150 Spsb4 Hoxd4 Gm2115 Scn7a Itpr2 Nmur2 Tpcn2 Lhx1 Atad2 Gpat3 Hgf Tfeb Kank4 Slc4a9 Hapln1 Drd2 Oprd1 Eya2 Slc30a3 Fbxo32 Hoxb6 Nmrk1 MC_161 Pedunculopontine cholinergic neurons Slc5a7 Nos1 Prima1 Chat Eva1c Tgfbr2 Tns1 Adamts2 Ano1 Npas1 Plekhg1 Colgalt2 Ngb Bche Slc10a4 Npnt Lemd1 Egflam Angpt1 Cnih3 Prkg2 Irx2 S100a10 Wnt2 Ppfibp1 Dysf Slc18a3 Sncg Coch Crhr1 Hs3st1 Nxph4 Kcns3 Nmur2 Hcrtr1 Rprm Spry1 Wipi1 Slc12a3 Slc29a1 Pde2a Slc7a3 Mdk C1ql4 Mn1 Stk32a Ism1 Irx4 Stac Fam189a2 Stab2 MC_162 Pontine and medullary neurons C1ql4 Prdm6 Npas1 Adamts2 C1ql3 Dgkk Zim1 Sncg Bnc2 Lhx9 Nmur2 Onecut1 Spx Dlk1 Pmfbp1 Rassf4 Pde11a Nr4a2 Crh Lrrc75b Ebf2 Lemd1 Onecut3 Cd59a Col16a1 Tigar Cracr2a AW551984 Esr1 Trim43c Svep1 Hcn3 Vat1 Agmat Sgms2 Pwwp3b Scube1 Tppp3 Tnc Crhr1 Pcbd1 Spata6 Klhdc8a Plp1 Lhfpl5 Nek7 Cgn Rnd1 Grin2c Pdia5 Gpr149 MC_163 Pontine and medullary noradrenergic neurons Ddc Tfap2b Dbh Phox2b Th Slc18a2 Pmfbp1 Zim1 AW551984 Ston2 Peg10 Nxph4 Smoc1 Eya2 Lmx1b Dlk1 Sncg Lrrc36 Gch1 Cartpt Calcr Phox2a Agtr1a Slc6a2 Gck Spata1 Tppp3 Vwa5b1 Drc1 Sall3 Esr1 Pgpep1l Gpx3 Gabrq Vat1 Tspan18 Nr4a3 Gsap Ecel1 Rhobtb1 Gnb4 Pwwp3b Map3k19 Pcbd1 Slc10a4 As3mt Nek10 Cacng5 F13a1 Parvb Gpr156 MC_164 Pontine and medullary neurons, primarily nucleus solitarius Phox2b C1ql3 Lmx1b Hoxc4 Mab21l2 Nxph4 Adamts2 Hoxa5 Hoxb3 AW551984 Irx2 Adcyap1 Cartpt Hoxb4 Gal Ston2 Hoxb5 Ecel1 Sncg Vwa5b1 Syt10 Nmur2 Skap1 Irx3 Ddc Stk32a Irx1 Cbln2 Hoxb2 Irx5 Hoxd4 Pou3f1 Shox2 Hnf4g Acot11 As3mt Dlk1 Dsc2 Dkk2 Uncx Cgn Hoxb6 Parvb Gpx3 Gfpt2 Drc1 Mylip Dgkk Cage1 Stk32b Tmie MC_165 Cholinergic neurons of the nucleus solitarius Slc5a7 Chat Sncg Prph Phox2b Adcyap1 Zim1 S100a10 Prima1 Ecel1 Dysf Tbx20 Adam12 Gal Rph3al Plscr4 AW551984 A4galt Pdia5 Hoxc4 Clic1 Gnb4 Angpt1 Cklf Ddc Sync Mill2 Tppp3 Acadl Cd59a Nr4a2 Spata1 Pde5a Sema3c B3gnt2 Runx1 Anxa5 Spata6 Msn Esyt3 Gcnt2 Parvb Stk32a Slc9b2 Septin10 Trim36 Lhfpl2 Herc6 Mab21l2 Fat4 Ret MC_166 Noradrenergic neurons of the nucleus solitarius Ddc Phox2b Ston2 Hoxc4 Lmx1b Gcnt2 4930469K13Rik Tfap2b Nxph4 Hoxb3 Hoxb4 Gpr156 Hoxb5 Hoxa5 Syne2 Dbh Tshr Npffr2 Ror2 Gch1 Sctr Sh3bp4 Rph3al Drc1 Fgd5 Sncg Uncx Bace2 Hs3st2 Esr1 AW551984 Etv1 Casr Slc17a8 Wdr66 Skap1 Pirt Rfx2 Npff Tfap2a Ecel1 Ccdc187 Gfral Rbm24 Acot11 Hoxb2 Kcnh8 Cartpt Th Tmie Tle3 MC_167 Pontine and medullary neurons, primarily nucleus solitarius Tfap2b Lmx1b Phox2b Gal Shox2 Hoxb3 Drc1 Tfap2a Hoxc4 Pwwp3b Sst AW551984 Ston2 Mab21l2 Adcyap1 Hoxb4 Tmem219 Fgd5 Tpbg Hs3st2 Gpx3 Cgn Hoxb2 Hoxb5 Dclk3 Hoxa5 Smoc1 St8sia2 Chodl Parvb Tlx3 Palld Zbbx Gcnt2 Dsc2 Ccdc187 Uncx Cacna1h Stox1 Stum Itgb8 Ramp3 Rsph9 Gpr156 Vat1 Pgpep1l Lhfpl5 Tes Cemip Cyp4f17 Nxph4 MC_168 Pontine and medullary neurons Lmx1b Phox2b Eya2 Dlk1 Tacr1 Shox2 Dgkk Cbln2 Adcyap1 Nmur2 Gm45194 Irx2 Fgd5 Hoxb3 AW551984 Plagl1 Mab21l2 Trp53i11 Megf10 Angpt1 Eya1 Tac1 Fat4 Stk32b Stox1 Morc4 Dach2 BC035947 Mme Gpr149 Rassf4 Pwwp3b Peg10 Poln F13a1 Ston2 Kcns3 L3hypdh Dkk3 Nxph4 Fads2 Rasgef1c Adamts2 Tfap2b Cpa6 Rsph10b Zbbx Nwd1 Efcc1 Otof Egfl7 MC_169 Tegmental neurons Pitx2 Iqcj Nxph4 Adcyap1 Uncx Iqschfp Adgrv1 Dmrta2 Gpr149 Sulf1 Adamts2 Ttc6 Rgma Npas1 Bhlhe22 Crhbp Rspo3 Calca Sim1 Foxa2 Nxph3 Dach2 Mme Sncg Csrp2 Isoc1 Rassf4 Pdzrn3 T2 Adamts18 Fibin Hs3st1 Lhx5 Gng13 Klhdc8a Nppc Lmo1 Arhgap15 Tspan4 Borcs6 C1ql1 Selenoh Fat4 A2ml1 Trim7 Ppif Fam163a Pcdh20 Frem1 Cidea Irx2 MC_170 Hypothalamic neurons, primarily zona incerta Dgkk Lhx1 Cgnl1 Otof Prlr Dlk1 Gpr139 Cdh23 Rab37 Rassf4 Plxdc1 Mme Npas1 Kcng2 Foxd1 Tdrd5 Agbl1 Plcd4 Hapln1 Mdfic2 Pax6 Dchs1 Onecut1 Hrh2 Trim43c Ugt8a Chrna4 Dlx6 Map3k20 Pmfbp1 Impa2 Col15a1 Crhr1 Pnoc Sp9 Dlx1 Crispld1 Zan Scn4b Abcb4 Aard Tnfsf13b 4930590J08Rik Ccdc150 Gpat3 Esr1 Tnfrsf11a Pvalb Glis1 Vav2 Poln MC_171 Pontine and medullary reticular neurons Lmx1b Hoxb3 Hoxb5 Hoxb6 Kcnh8 Fat4 Maf Pou4f1 Nppc Htra1 Svil Hoxb4 Hoxa5 Pde3a Cgnl1 Hoxb8 Eepd1 Hoxb2 Nmur2 Rassf4 Slc24a4 Gm1604b Tacr1 Uncx Cbln2 Lrig1 Kank4 Drd2 Hoxd4 Mab21l2 Hoxc4 Kcnmb1 Medag Evc2 Arhgap15 Gpr149 Cdr2l Zic1 Abcd2 Cd302 Colgalt2 Wwtr1 Scn4b Scn7a Sntb1 Prrxl1 Gpat3 Tac1 Megf10 Ebf2 Igsf11 MC_172 Pontine and medullary reticular neurons Ebf2 Hoxb3 Bnc2 Lmx1b Adam33 Dach2 Cbln1 Hoxc4 Hoxb2 Tlx3 Nmur2 Cgnl1 Adcyap1 Synj2 Hoxd4 Pwwp3b Sst Rassf4 Hoxb4 Ism1 Gng12 Poln Oprd1 Fat4 Impa2 Hoxb5 Itgb8 Kank4 Scn4b Plpp3 BC035947 Vcan Vav2 Hs3st3b1 T2 Plk5 Skap1 Kazald1 Ndnf Cbln4 Kcnab3 Uncx Ccdc15 Creb3l2 Pxn Evc2 Ugt8a Tacr3 Ccdc150 Mtap Cdr2l MC_173 Pontine and medullary reticular neurons Ebf2 Lmx1b Sst Hoxb6 Hoxb3 Serpinb1b Hoxb5 Fat4 Hoxb8 Tlx3 Fbn2 Hoxb4 Prrxl1 Gpr149 Hoxa5 Myo5b Gmnc Otof F2rl2 Hoxb7 Pde11a Mme Tex15 Grp Hoxb2 Tac1 Dclk3 Adamtsl3 Adcyap1 Syt10 Colgalt2 Tspan18 Cacna1h Skap1 Gna14 C1ql3 Ltbp1 Pamr1 Kcnh8 Skor2 Svil Stum Spata13 Arhgap15 Cpne2 Nmur2 Hccs Mctp2 Car12 Bmp3 Npy1r MC_174 Pontine and medullary reticular neurons Ebf2 Kcnh8 Atp10a Lmx1b Glis1 Sntb1 Hoxb6 Prrxl1 Slc24a4 Hoxb3 Nts Mctp2 Cbln1 Kcng2 Nppc Fat4 Mafa Hoxb5 Pcsk6 C1ql3 Serpinb1b Hoxb8 Maf Tunar Hoxb4 Plch2 Bmp6 Necab2 Sst Hoxb2 Pdzrn3 Hoxb7 Pde11a Actn2 Medag Lamb1 Cbln2 Tlx3 Hepacam Hpgd Kit Slc30a3 Vav2 Pde3a Bnc2 F2rl2 Adcyap1 Adam12 Tll1 Dclk3 Stac MC_175 Medullary neurons, primarily nucleus of the solitary tract Mecom Prdm16 Hoxc4 Sncg Hoxb3 Nmur2 Hoxb5 Mab21l2 Trim43c Rassf4 Tfap2a Sst Lhx1 Tacr1 Sh3bgr Gpr149 Sema3d Agbl1 Stpg2 Aard Popdc3 Poln Cgnl1 Nxph2 Acot11 Hoxa5 Hoxb4 Onecut1 Hoxd4 Ccdc150 Hsf4 Chat Hoxb2 Rab37 Lepr Klhdc4 Hsd17b2 Tm7sf2 Spink13 Wdr25 Mapk12 Vegfc Spata6 Tppp3 Pcbd1 Egfl7 Cd59a Gm2115 Vmn2r85 Sync Cpa6 MC_176 Reticular medullary neurons Prdm16 Hoxb3 Hoxc4 Mab21l2 Gpr149 Gli3 Hoxb5 Car8 Mecom Lhx1 Nmur2 Mme Hs3st2 Rassf4 Vip Hoxd4 Hoxb4 Col12a1 Sncg Adamtsl3 Uncx Hoxb2 Rab37 Hmx2 Acot11 Cgnl1 Hoxa5 Poln Trim43c Kazald1 Abcb4 Vcan Vegfc Tfap2a Rad51c BC035947 Mapk12 Sema3d Nxph2 Hsf4 Tac1 Col8a1 Ccdc150 Gal3st1 Nwd1 Tacr1 Eya2 Impa2 Gm1604b Rec8 Hapln1 MC_177 Pontine and medullary neurons Lmx1b Tac1 Mab21l2 Nxph4 Prlr Kcnh8 Nmur2 Lama1 Tlx3 Lmx1a Sncg Hoxb3 Abcc9 Hoxc4 Uncx Tfap2a Sst Dgkk Tfap2b Gpr149 Scn7a Cbln1 Plce1 Hoxb5 Rassf4 Nmu Pou4f1 Tpbg Col12a1 Kcns3 Gm2115 Cd59a AW551984 Ston2 Stk32b Zim1 Oprd1 Hoxb4 Adra1b Slc22a4 Ndnf Rab37 Hsf4 Col8a1 Adgrg2 BC035947 Poln Egflam Adamts2 Pdzrn3 Gpr156 MC_178 Posterior medullary neurons, primarily spinal nucleus Tpbg Hoxb3 Lhx2 Hoxb5 Lpar1 Pvalb Nmur2 Hoxc4 Cbln2 Htra1 Hoxb4 Crhr1 Cbln1 Lhx9 Hoxa5 Hoxb6 Adamts2 Mab21l2 Trmt9b Fgf10 Eya2 Hoxb2 Kitl Kcnab3 Pde3a Mylk Plekhd1 Kcnh8 Scn4b Spata6 Sst Hoxd4 Adamtsl3 Ube2cbp Trim43c Mctp2 Lrig1 Pde5a St8sia2 Nppc Tacr1 Gpat3 Stpg2 Tppp3 Spsb4 Hoxb8 Rassf4 Skap1 Stac Plxdc1 Rab37 MC_179 Immature olfactory bulb neurons Trp73 Ndnf Ramp1 Eln Diablo Gm49027 Ptgds Lhx1 Unc5b Lrig3 Emx2 Cd274 E130114P18Rik Cobll1 Cxcl12 Nfix Islr2 Angpt1 Vmn2r1 Mboat1 Tbr1 Insyn2a Fkbp9 Fjx1 Nhlh2 Rspo3 Atp6ap1l Igsf9 Pik3c2g Eya1 Samd3 Shisal2b Tmem176b Ggt5 Eya2 Tnfrsf19 Cdkn1c Lhx5 Twsg1 Mab21l3 Vmn1r209 Cdhr1 Kit Nxph4 Dkk3 Wnt7b Vmn1r206 Ankrd35 Creb5 Islr Clic1 MC_180 Main olfactory bulb neurons Cdhr1 Filip1 Atp6ap1l Rspo3 Rbm20 Rapgef3 Eomes Ppfibp1 Abi3bp Igf1 Scube1 Rab37 Slc17a7 Ms4a15 Rasa4 Itgav Doc2g Jam2 Svil Insyn2a Slc38a3 Tgfa Arhgap10 Ndnf Trmt9b Sox4 Rasgrp1 Hs3st1 Cacng5 Nmb Abca1 Vmn1r209 Hpgd Krt12 Ptpn13 Elovl7 Cyp27a1 Scube2 Exph5 Id2 Olfr111 Kitl Car2 Bmpr1b Hs3st2 Crybg3 Lancl3 Zdhhc23 Fbxo30 Lmo7 Olfr115 MC_181 Septal neurons, primarily septofimbrial nucleus Isl1 Onecut1 Zic1 Pde3a Vwa5b1 Fam163a Trhr Bmp7 Kcnh8 Onecut3 Sulf1 Wdr95 Zic4 Sall1 Ret Stac Scn7a Acvr1c Scn5a Ddc Pgpep1l Slco1c1 Wnt4 C1ql1 Sncg Cpne2 Col8a1 Nostrin Stk32b Zim1 Galnt12 Tmem176b Tmie Slc37a1 Pcbd1 Dgkk Smoc1 Stk26 Serpinb1b Dach2 Ngb Slc22a3 Hrh1 Kitl Dlk1 Rspo1 Pmfbp1 Kcns3 Agbl1 Kcnj5 Mmp15 MC_182 Lateral septal neurons Zic1 Six3 Kcnh8 Isl1 Dlk1 Prox1 Zic4 Pmfbp1 Scn5a C1ql1 Scn7a Crb1 Sncg Kitl Agbl1 Ntn1 Trhr Serpinb1b Zic2 Onecut1 Trp53i11 Otx2 Lypd6 Vcan Kank1 Slc22a3 Ttn Onecut3 Baiap2l1 Cpne2 Necab2 Stk33 Adamts18 Fibcd1 Slc1a3 Ano1 Sntb1 Npy2r Tmie Galnt12 Smoc1 Pcbd1 Bmp7 Tppp3 Cacna1h Mei4 Zic5 Kirrel Lhfpl5 Ddo Six6 MC_183 Anterior hypothalamic neurons Dlk1 Nos1 Etv1 Rasgrp1 Zbbx Gldn Spag16 Wdr66 Tns3 Ddo Sulf1 Tmem176b Wipi1 Gldc AW551984 Drc1 Rxfp1 Zic4 Zic1 Adamts2 Samd3 Lhx2 Gck Slc12a7 Efhb Nek10 Lrrc9 Agtr1a Nxph4 Pifo Igsf11 Npr1 Lrriq1 Lrguk Gng8 Clic1 Cfap44 Cnga3 Ttr Adcyap1 Emx2 Stk33 Cpne2 Slc16a6 Rasa4 Kif9 Ngb E130114P18Rik Cfap70 Galnt12 Agbl1 MC_185 Midbrain dopaminergic neurons Ddc Th En1 Ret Dlk1 Slc18a2 Ntn1 Drd2 Slc6a3 Nr4a2 Ttc6 Cpne7 Iqcj Slc10a4 Lmx1b Bnc2 Chrna6 Slco2a1 Prima1 Chrnb3 Mob3b Fam210b Ntsr1 Trpc6 Iqschfp Oprk1 Gch1 Rreb1 Tll1 Kcns3 Sncg Lix1 Pappa AW551984 Lmx1a Gucy2c Cnpy1 Uncx Il13ra1 Aldh1a1 Mboat1 Ntf3 Fam167a Sox6 Iqgap2 Palmd Itgb8 Plcg2 Vat1 Colgalt2 Phldb2 MC_186 Tegmental neurons, primarily co-releasing (PMIDs 2797622 33619763) Lmx1a Sulf1 Ebf2 Ddc Ret Bnc2 Lmx1b En1 Ntn1 Nr4a2 Crhbp Dlk1 Ttc6 Iqcj Chrnb3 Slc18a2 Cnpy1 Cbln1 Wnt5a Vcan Frem1 Fgf10 Ptprq Pld1 Chrna6 Slc26a7 Iqschfp Lepr Sntb1 Pwwp3b Trpc6 Phldb2 Pde11a Pde3a En2 Avpr1a Fgd5 Tmie Itgb8 Adgrv1 Prima1 Th C1ql3 Wnt7b Col12a1 Atp8b1 Pcbd1 Kcnk13 Selenoh Gpr26 Slc7a3 MC_187 Tegmental neurons Adcyap1 Sncg Pou4f1 Sntb1 Irx2 Vwa5b1 Gpr156 Cbln4 C1ql4 Dmrta2 Uncx Lhx1 Fibin Chodl Palld AW551984 Rspo1 Cartpt T2 Ecel1 Iqcj Gpr83 Stac Tmie Emx2 Mei4 Wipf1 Rxrg Rgma Vat1 C1ql1 Klhdc8a Pcbd1 Fads2 Doc2b Slc7a3 Rsph9 Cd63 Myo3b Irx5 Nr4a2 Ttc6 Lrrc75b Irx1 Egfl7 Ccnd3 Lemd1 Gstp1 Lhx5 Hs3st3b1 Sema6c MC_188 Hypothalamic and tegmental neurons Adcyap1 Prlr Nr4a2 Iqgap2 Lmx1a Adamts2 Zim1 AW551984 Sulf1 Ttc6 Pitx2 Dmrta2 Vwa5b1 Scn5a Ret Slc7a3 Cbln4 Lepr Nos1 Doc2b Uncx Ddc Wdr95 Myo3b Tspan18 Gpx3 Dlk1 Tmie T2 Rcn1 Cpne7 Cdk18 A2ml1 Ets2 Ppm1m 4933424G06Rik Skap1 Cbln1 Lemd1 Plk5 Rxrg Pcbd1 F13a1 Col16a1 Rsph9 Sncg Dgkk Pwwp3b Adamts18 Greb1 Medag MC_189 Hypothalamic and tegmental neurons Pitx2 Sim1 Adcyap1 Adamts2 Robo3 Ttc6 Dlk1 Gpr139 Cgnl1 Uncx Npas1 Rassf4 Ptpn13 Inhba Lemd1 Poln Nwd1 Lhx1 Nkx2-2 Chrna4 Rgs22 Has1 Rgma Sema3f Zan BC049352 Ugt8a Siae BC035947 Palld Abcb4 Tac1 Rnd1 Plk5 Olfr239 Maf Tle2 Spink13 Dctd Smim1 9630041A04Rik Angptl1 Rab37 Dchs1 Tunar Ccdc150 Col16a1 Nfkb2 P4ha3 Slc12a1 Hapln1 MC_190 Hypothalamic neurons Lmx1a Ttc6 Lmx1b Pitx2 Cdh23 C1ql3 Adamts2 Tac1 Mctp2 Adcyap1 Nts Pappa2 Npsr1 Sema3d Vwa5b1 Nos1 Col16a1 Fgd5 Uncx Ndnf AW551984 Prlr Iqcj Zim1 Sulf1 Pwwp3b Odad2 Lrrc9 Ebf2 Scn5a Ccdc187 Skap1 Iqschfp Irx5 Col24a1 Ntn1 Ret Ston2 Htr1b Spag6l Cntnap3 Adgrg1 Dsc2 Adgra3 Nek10 Kirrel Nox1 Cidea Hrh2 Usp43 Ddc MC_191 Hypothalamic neurons Lmx1a Lmx1b Cbln2 Adamts2 AW551984 Ttc6 Adcyap1 Irx5 Fgd5 Vwa5b1 Zim1 Pitx2 Skap1 Tspan18 Nos1 Prlr Kirrel Irx3 Slc7a3 Tac1 Uncx Gpx3 Nr4a2 Pwwp3b Rxrg Scn5a 4933424G06Rik Rsph9 Dmrta2 Sulf1 Rcn1 Cbln4 Ccdc187 Drc1 Cdk18 Tmie T2 Vat1 Ppm1m Lemd1 Nts Pifo Ngb Doc2b Adgrg1 Col16a1 Amz1 Rprm Cacna1h Nek10 Stox1 MC_192 Hypothalamic neurons, primarily subthalamic nucleus Lmx1a Ttc6 Cdh23 Pitx2 Tac1 Prlr Iqcj Iqschfp C1ql3 Pappa2 Adcyap1 Ebf2 Lmx1b AW551984 Dgkk Sema3d Rgma Zim1 Ston2 Dsc2 Vwa5b1 Igsf11 Nts Plk5 Gpr101 Hs3st2 Slc7a3 Iqgap2 Sulf1 Dock6 Ppfibp1 Slc6a11 Rcn1 Pwwp3b Cidea Steap3 Zdhhc23 Rxrg Vsir Gpx3 Stk32b Uncx Skap1 Gzmk H2-Q2 Tmie Cbln2 Ngb Rsph9 Scn5a Gnb4 MC_193 Hypothalamic neurons, primarily mammilary body nuclei Lmx1a Pitx2 Nr4a2 Adamts2 Adcyap1 Ttc6 Arhgap15 Uncx Vwa5b1 Lmx1b Doc2b Rgma Scn7a Ntn1 Adgrv1 Tspan18 Iqcj Pthlh Col18a1 Ebf2 Cbln1 Emid1 C1ql1 Crhbp Csf2rb2 Ntsr1 Calcrl Fbn2 Cdk18 Fam210b Vat1 Tmie Cd63 Tes Prdm8 Pappa Slc18a2 Fhad1 Trpc6 Pgpep1l Medag Adam12 Lhfpl5 Cmbl Ston2 Cidea Iqschfp Fmnl3 Antxr2 Lrrc9 Tac1 MC_194 Posterior hypothalamic neurons Lmx1a Pitx2 Adamts2 Adcyap1 Lmx1b Nr4a2 Ebf2 Vwa5b1 Syt10 Skap1 T2 Hrh1 Nek10 Doc2b Tspan18 Prkcq Rprm Cbln1 Fat4 Slc7a3 Tac1 Irx5 Dlk1 Zbbx Zim1 AW551984 Uncx Pwwp3b Rspo2 Cdk18 Frem1 Scn5a Rsph9 Plk5 Efcab6 Fgd5 Drc1 4933424G06Rik Gpx3 Cpne2 Sulf1 Pifo Efcc1 Tpbg Adgrg1 Slc6a11 Ston2 Cbln4 Calcrl Gzmk F13a1 MC_195 Tegmental neurons Adamts2 Lmx1a Nxph4 E130114P18Rik C1ql1 Adgrv1 Ttc6 Ebf2 Pitx2 Iqcj Uncx Nr4a2 Doc2b Prlr Gpr149 Adamts18 Adcyap1 Sulf1 Pde3a Dmrta2 Sim1 Iqschfp Ntn1 AW551984 T2 Ret Rsph9 Cbln4 Sema3d Nfix Vwa5b1 Cidea Ston2 Cdk18 Slc7a3 Igfbp5 Lmx1b Nos1 Scn7a Scn5a Rcn1 Frem1 A2ml1 F13a1 Cd63 Smoc1 Lhfpl5 Vat1 Adgrg1 Zim1 Pwwp3b MC_196 Tegmental neurons C1ql1 Ttc6 Mctp2 Onecut1 Cbln1 Nr4a2 Ret Igf1 Htr2a Zim1 Cd63 Gm2115 Foxd2 Sim1 Crhr1 Nkx6-1 Pmfbp1 Drd2 Gm12830 Adcyap1 Nkx6-2 Ddc Sall1 Uncx Gucy2c Ddit3 Rbp4 Lhx1 Mn1 Prss12 Foxp4 Mob3b Cacna1h Chrna4 Rgma Klhdc8a Shisal1 C1ql2 Tgm6 Kcnab3 Kcnh8 Tpbg T2 A2ml1 C1ql4 Hrh2 Fkrp Tac1 Rnd1 Npas1 Epha8 MC_197 Hypothalamic neurons, primarily periventricular and mammilary nuclei Sim1 Cartpt Adcyap1 Zim1 Nxph4 Lhx1 Rprm Pitx2 Foxb1 Nkx2-1 Uncx Gpx3 Mamdc2 Dlk1 Rasgef1c Oxt Myo5b Slitrk6 As3mt Scn5a Cd63 Stk32a Tgfb2 Pmch Cd44 Shisal1 Angpt1 Avp Tmie Itgb8 Kit Otp Vat1 Dgkk Rgs3 Rbm24 Kcnh8 F13a1 Sparc Cd59a Tle2 Grm2 Ptgds Cyp4f17 Lhx5 Actn2 Magel2 Nos1 Tns1 Serping1 Kif26a MC_198 Brainstem neurons Lhx4 Vsx2 Shox2 Ebf2 Adcyap1 Dach2 Dgkk Vwa5b1 Irx2 Mab21l2 AW551984 Lemd1 Lhx5 Mn1 Frem1 Irx5 Kit T2 Sst Tmie Ecel1 Skor1 Foxp4 Prkg2 Zim1 Nr4a3 Irx3 Trp53i11 Nxph4 Oprk1 Skap1 Sntb1 Ndnf Tafa4 Gpr101 Mme Cbln2 Plagl1 Selenoh Rtl5 Pcbd1 Plekhg1 Nhlh2 Masp1 Rsph9 Rnd1 St8sia2 Adgrg1 Sertm1 Tacr1 Dcaf12l1 MC_199 Tegmental and pontine neurons Pax5 Adamts2 Prlr Necab2 Ebf2 Doc2b C1ql3 Hrh1 Adcyap1 Zim1 AW551984 Lhx9 Cpne2 Peg10 Vwa5b1 Otof Lypd6 Tmie Nos1 Egfl7 Klhl14 C1ql1 Adgrg1 Fhad1 Vat1 Sst Cd63 Drc1 Nxph4 Cbln2 Hmcn1 Rsph9 Oprk1 Iqcj Cbln1 Dgkk Col8a1 Stum Stk32b Selenoh Gpr149 Adra1b T2 Nek10 Rspo1 Dkk3 Vav2 Tppp3 Trp53i11 Cd59a F13a1 MC_200 PAG and SCm neurons Ebf2 Lef1 Pde3a Shox2 Hgf Kit Barhl1 Lhx9 Irx2 Pou4f2 Angpt1 Irx5 Mab21l2 Cabp7 Crhr1 Sox6 Nppc Npr3 Hpse2 Plk5 Epha8 Otof Cd63 Ptgfrn Prkg2 Selenoh Lhx2 Rnd1 Ak8 Cdh24 Nxph3 Dkk3 Pcdh8 Kazald1 Tacr1 Plscr4 Amigo2 T2 Sostdc1 Gstp1 Npl Grcc10 Mybpc1 Car2 Cartpt Dbp Kcnj12 Tspan6 Dbi Mab21l1 Commd1 MC_201 PAG and SCm neurons Tcf7l2 Tac1 Lhx9 Shox2 Bnc2 Tfap2d Ebf2 Pou4f1 Plk5 Nptx2 AW551984 Lef1 Cbln2 Sncg Ngb Nptx1 Otof Nxph4 Doc2b Gstp1 Tacr1 Selenoh Gpr149 Rnd1 Barhl2 Lypd6 Naa38 Adcyap1 Prlr Sema3f Dgkk Lbhd2 Adamts18 Grcc10 Gm4779 Doc2a Onecut1 Tspan6 Gpr135 Commd1 Pcbd1 Lhfpl5 Hsf4 Dkk3 Efcc1 Mab21l2 Col8a1 Lor Adamts19 Barhl1 Cemip MC_202 Tegmental neurons, including cuneiform nucleus C1ql4 Ebf2 Pax5 Bnc2 C1ql3 Gpr149 AW551984 Tmie Slc5a7 Lhfpl5 Npnt Rnd1 Lhx9 En1 Tll1 Dkk3 Kcnh8 Gstp1 Ngb Evx2 Alkbh7 Zim1 Selenoh Tppp3 Sfrp2 Plxdc1 Rgs3 Lrrc75b Tacr1 Pitx1 Grcc10 Tnfaip8 Htr1b Tspan6 Prph Sec61b Rasa4 Kazald1 Dcaf12l1 Armcx6 Cebpzos Cyp4f17 Igfbp5 Crispld2 Bmp6 Irx5 Pcbd1 Naa38 Plch2 Angpt1 Syndig1l MC_203 Tectal neurons Pitx2 Lef1 Bnc2 Gli3 Tfap2d Ebf2 Foxp4 Ror2 Lhx9 Pmfbp1 Ptgfrn Irx2 Rnd1 Hs3st2 Barhl2 Adcyap1 Pcdh18 Hddc2 Uncx Mab21l2 Sall1 Lhx2 Tcf7l2 Cabp7 Chrna4 Fam163a Igfbp5 Fibcd1 Tac1 Rasa4 Vcan Onecut1 Scube3 Alkbh7 Naa38 Stk32b Lypd6 Sema3f Hs3st1 Pcsk6 Ccbe1 Colgalt2 Col16a1 Npas1 Tmem18 Selenoh Tmie Anapc13 Igf1 Marcksl1 Kazald1 MC_204 Tectal neurons Bnc2 Tfap2b Lhx9 Adcyap1 Tcf7l2 Tfap2d Onecut1 Sncg Esr1 Dgkk Dlk1 Prlr Tac1 Lbhd2 Syt10 Ebf2 Shox2 Pcbd1 Serpinf1 Pitx2 Lef1 Egfl7 AW551984 Zim1 Plk5 Lhfpl5 Barhl2 Gstp1 Gstt2 Naa38 Sfrp1 Selenoh Onecut3 Mab21l2 Sst Doc2a Chst9 Rnd1 Doc2b Gng13 Dcaf12l1 Amn Nek7 Grcc10 Hsf4 Commd1 Adamts19 Sec61b Rab9b Oat Lrrc75b MC_205 Tegmental neurons Tcf7l2 Shox2 Cbln4 Cbln2 E130114P18Rik Lhx9 Adcyap1 Htr1b Irx2 AW551984 Adamts18 T2 Col8a1 Adamts2 Dnah11 Pde3a Lhx2 Crb1 Plk5 Lepr Neurod6 Rprm Mei4 Slc7a3 Efcc1 Tmie Sema3c Prdm8 Dach2 Ngb Mn1 Nxph3 Gpr139 Ppm1m Rgma Adgrg1 Dcaf12l1 Tmem176b Dkk3 Neurod1 Plagl1 Nos1 Lin9 Hexim2 Rsph9 Cerkl Npsr1 Fbn2 Slc22a4 Selenoh Arhgef26 MC_206 Subparafascicular neurons Tcf7l2 Sema3c Cbln2 Cbln4 Shox2 Lhx9 Crb1 Lhx2 Pdlim5 Adamts18 Npsr1 Adam12 Mei4 Nek7 Vwa5b1 AW551984 Tmem176b Htr1b 4933424G06Rik Kitl Ngb Gpc3 Nos1 Sp9 F13a1 Diaph3 Igfbp7 Nts Tmem176a Tmie Rsph9 Slc7a3 Fbln1 Rcn1 Nr5a2 Plagl1 Nek10 Rprm Adamts19 Vat1 Amz1 Inhba T2 Zim1 E130114P18Rik Glp2r Gck Nkd1 Map3k20 Slc6a11 Rreb1 MC_207 Tegmental neurons Tcf7l2 Cbln2 Shox2 Lhx9 AW551984 Kcnk13 Lhx2 Adcyap1 Ngb Kitl Rprm Dlk1 Zim1 Map3k20 Gpx3 Vat1 Sp9 Nek7 Gpc3 Prlr Nek11 Rsph9 Gnb4 Rcn1 Gck Stk32b Tmie Necab2 Rspo1 Pth2 4933424G06Rik Cbln4 Vwa5b1 Etv1 Peg10 Tspan18 Tppp3 Cpne2 Drc1 Tent5a Lemd1 Pcbd1 Adam12 Arhgap36 Nts Rbm24 Gng8 Gbx2 Doc2b Dgkk Marcksl1 MC_208 PAG neurons Lmo1 C1ql4 Irx2 C1ql2 Adcyap1 Ebf2 Nxph4 Pde3a Shox2 Lemd1 Npas1 Myo3b Rnd1 Tmie Mn1 Irx1 Shisal1 Trhr T2 Fhad1 Egfl7 Drd2 Pou3f1 Irx5 Rcn1 Tac1 Lbhd2 Vat1 Stk33 Pcbd1 Slc7a3 Vwa5b1 Selenoh Gpx3 Sncg Parvb Rsph9 Gng13 Dcaf12l1 AW551984 Klhdc8a Doc2b Gstp1 Lhfpl5 Marcksl1 Lor Adgrg1 Naa38 Hexim2 Grcc10 Crhr1 MC_209 Tectal neurons Tcf7l2 Tfap2d Shox2 Lhx9 Cbln2 Prox1 C1ql2 Esrrb Sema3c Irx2 Lef1 Angpt1 Rnd1 Sema3f Ebf2 Prdm8 Foxp4 Chrna4 Ptgfrn Igfbp5 Cbln4 Cdh24 Cidea Tmie Adgrg2 Crb1 Syndig1l Plk5 Lmo1 Npas1 Steap3 Lepr Dera Igf1 Stk32b Spata6 Lhfpl5 Rgma Cyp4f17 Efcc1 Foxo1 Col16a1 Vwa5b1 Slc7a3 Sema3d Kcnj5 Cd63 Lrrc75b Epha8 Bhlhe23 Efna2 MC_210 Tectal neurons Shox2 Tfap2d Tcf7l2 Tacr1 Lhx9 Lef1 Gpr149 Nxph4 Npas1 Ror2 Pou4f2 Prlr Sult3a2 Rnd1 Kit Agbl1 Gpr156 Gli3 Cartpt Cbln2 Mab21l2 Nek7 Irx5 Sncg Bnc2 Naa38 AW551984 Pou4f1 Selenoh Pcbd1 Adgrg2 Tafa4 Chst12 Lypd6 Barhl2 Hsf4 Tac1 Kazald1 Lrrc75b Gng13 Tmie Pwwp3b Pcdh18 Plk5 Otof Gstp1 Ier3 Ttc29 Fads2 Sema3c Fam241a MC_211 Superior collicular, sensory area neurons Lef1 Ebf2 Bnc2 Kitl Shox2 Pde5a Npl Lhx2 Sox6 Nptx2 Hs3st2 Robo3 Pcdh8 Lhx9 Itm2a Cracr2a Barhl1 Tspan11 Hgf Cabp7 Npnt Tspan18 Cd63 Ptgfrn Lamb1 Nek11 Tac1 Itga7 Pvalb Amigo2 Mei4 Fat4 Epha8 Maf Hs3st1 Evc2 Dbp Adam12 Stac Plch2 Hmcn1 Axin2 Dclk3 Dkk2 Rasa4 Pou3f1 Crhr1 Samd3 Pde3a Mab21l2 Bhlhe40 MC_212 Tectal neurons Tcf7l2 Tfap2d Shox2 Lhx9 Lef1 Ebf2 Irx2 Cbln2 Rnd1 Chrna4 Npas1 Otof Col16a1 Tacr1 Npnt Irx5 Tunar Rassf4 Plk5 Plch2 Cabp7 Sema3f Sema3c Tac1 Cdh24 Tdrd5 Nek7 Lin9 Kazald1 Irx1 Slc7a3 Kank4 Hsf4 C1ql2 Dgcr2 Tekt5 P4ha3 C1ql4 Slc22a4 Mn1 Htr1b Adssl1 Irx3 Scn4b Ccdc192 Bnc2 Crhr1 Smco4 Tmie Ctxn3 Mme MC_213 Mediobasilar hypothalamic neurons Ebf2 Sim1 Col18a1 Hmcn2 Prlr Sntb1 Uncx Tac1 Ppfibp1 Zim1 Iqgap2 AW551984 Bnc2 Rgma Rspo1 Npr3 Tspan18 Adcyap1 Nek10 Dgkk Scn5a Pifo Fezf1 Nos1 Gdpd2 Nxph4 T2 Peg10 Chrna3 Otp Rasal1 Ngb Rcn1 Esyt3 Dlk2 Map3k15 Rbm24 Hrh1 Fhad1 Armcx6 Cemip Tspear 6430628N08Rik Irs4 Magel2 St8sia2 Slc7a3 Slc9b2 Vegfc Cfap44 Slc6a11 MC_214 Lateral habenular neurons Kcnh8 Kitl Cbln2 Tcf7l2 Scube1 Shisal1 Zic1 Irx2 Nr4a2 Pou4f1 Lhx9 Vangl1 Mme Zic4 Necab2 Ddc Lrrc55 Cftr Tll1 Cbln1 Irx1 Tesc Adamts18 Tacr1 Gpr151 Prkcq Nectin2 Prokr2 Vav2 Sox1 Bves Nhlh2 Sik1 Nek7 Popdc3 Lpar1 Etv1 Ccdc141 Gpr156 Wnt3 Gpr26 Rgma Rgcc Onecut1 Igfbp5 Robo3 Cd63 Ptprq Prr5l Pmfbp1 Fgd5 MC_215 Superior collicular, motor area neurons Tfap2b Lhx9 Lef1 Tfap2d Cbln2 Tcf7l2 Shox2 Nek7 Pou4f1 Lhx2 Pde3a Tacr1 Npnt Sox6 Barhl2 Gpr149 Hgf Plk5 Dbp Ror2 Nppc Nptx2 Il34 Mab21l2 Epha8 Foxb1 Rnd1 Myo1b Itm2a Isoc1 Naa38 Pole4 Selenoh Ptgfrn Hddc2 Egfl7 Grcc10 Gstp1 Commd1 Fibin Gng13 Hsf4 Lor Sec61b Adgrg2 Rassf4 Amn Efna3 Kcnj12 Ephb6 Ramp2 MC_216 Inferior collicular neurons Tcf7l2 Tfap2d Lhx9 Maf Nek7 Cnih3 Shox2 Tpbg Cxcl14 Sema3f Irx2 Cbln2 Plk5 Nxph4 Kcnip2 Syndig1l Rgs3 En1 Pvalb Gpr26 Kit Kcnab3 Rbm20 Cacng5 Sst Atp6ap1l Hs3st1 Crispld1 Adamtsl5 Pou3f1 Ky Kcnq4 Ctsz Drd2 Mn1 Colgalt2 Npy1r Cd302 Irx1 Tle2 Zfp365 Trp53i11 Hs3st2 Npy5r Map3k20 Tmod1 Mcub Slco5a1 Lhx2 Tunar Pde11a MC_217 Dentate principal neurons Glis3 C1ql3 Iqgap2 Prox1 Jph1 Ptk2b Itga8 St18 Chst9 Icam5 Slc17a7 Kcng2 Mast3 Itpka Trpc6 Tspan18 Neurod2 C1ql2 Mmd2 Ccbe1 Plekha2 Gpc4 Nfix Ccnjl Prdm8 Rasl10a Cemip Cnih3 Smoc2 Lmo7 Anxa11 Cecr2 Kcnip2 Zbtb18 Igsf11 Ramp1 Bhlhe22 Ntf3 Dsp Fam163b Slc24a4 Jun Golm1 Crlf1 Il16 Cacna1h Dgat2 Gng7 Ctxn1 Chrm1 Cebpd MC_218 Habenular cholinergic and excitatory neurons Scube1 Ano1 Tspan18 Robo3 Prkcq Gm5741 Etv1 Zic1 Clec18a Tcf7l2 Tac2 Tesc Chrna3 Necab2 Nr4a2 Slc5a7 Lrrc55 Kcnh8 Sox6 Chat Kitl Shroom3 Tex15 Vav2 Cdc14a Cd63 Chrnb3 Ccdc141 Zic4 Plch2 Hhip Ror1 Nek7 1700003F12Rik Lef1 Pde2a Irx2 Pou4f1 Tacr1 Colgalt2 Piezo2 Shisal1 Chrnb4 Asb2 Lhx9 Slc17a7 Kash5 Rgma Prima1 Gng8 0610040J01Rik MC_219 Thalamic projection neurons Synpo2 Tcf7l2 Plekhg1 Prkch Lef1 Kitl Cpne7 Prox1 Lhfp Atp10a Stum Shisal1 Vangl1 Zic1 Slitrk6 Shox2 Mctp2 Cnksr3 Grid2ip Sntb1 Rgs3 Rassf3 Nek7 Lhx9 Rasgrp1 Pdlim5 Scube2 Pkp2 Adra1b Rgs16 Hrh3 Prkcd Ramp3 Edaradd Gabrd Slc29a1 Rreb1 Tafa4 Irag1 Wnt3 Cfap74 Maob Acvr1c Igfbp5 Trpm6 Fam189a2 Zic4 Tspan14 Lmo7 Shroom4 Etv1 MC_220 Interpeduncular projecting habenular neurons (PMID 19906978) Lpar1 Tcf7l2 Gng8 Sema3d Lhx9 Necab2 Ltbp1 Zic1 Nek7 Zic4 Cbln2 Gpr151 Irx2 Pou4f1 Kcnmb4 Vwa5b1 Nptx2 Shisal1 Tesc Tacr1 Tll1 Ano1 Gpr139 Prkcq Irx1 Cartpt Etv1 Npr1 Klhl4 Rspo3 Sst Amigo2 Rab38 Ptprq Gpr156 Parvb Cd63 Col5a3 Scube1 Sncg Nr4a2 Cnih3 Kcnk13 Ccdc187 Htr5b Cdh3 Vangl1 Hopx Nhlh2 Cytip Zic5 MC_221 Inferior olivary excitatory neurons Stac Ano2 Abtb2 Cdk6 C1ql1 Dnah11 Jph1 Cnih3 Pou4f1 Kcng1 Fam189a2 Htr5b Svil Prkch Kit Rbm20 Slco5a1 Crh Lmo7 Gpr26 Ndnf Atp10a Gpr88 Gcnt2 Adgrg2 Dysf Col24a1 Shisal1 Iqcj Dock5 Parvb Ltbp1 Iqschfp Smoc2 Unc5b Kcnj12 Htr2a Acss1 Fam241a Gpr156 Hoxb3 Mdfi S100a10 Gpr139 Myo3b Necab2 Cemip Foxp4 Tgfbr1 Ecel1 Tnfrsf11b MC_222 Pappa2 Lmx1b Scn7a AW551984 Dlk1 Fibcd1 Zfp831 Phox2b Esr1 Otof Arhgap36 Zim1 Tac1 Irx5 Nxph4 Tpbg Dgkk Gpr101 Tspan18 Ccnd3 Suclg2 Trp53i11 Pmfbp1 Irx3 Ngb Ccdc187 Ston2 6430628N08Rik Stk32b Ddc Rph3al Adcyap1 Onecut1 Lepr Plscr4 Doc2a Cbln2 Glp1r Kirrel Ifi27 Skap1 Tgfbr1 Sncg Stk32a Thbs4 Cacna1h Mdfic2 Etnk2 Nmur2 Tnnt2 Adgrg1 MC_223 Tac1 Vip Syt10 Nr4a2 Col8a1 Sstr2 Tspan18 Vwa5b1 Plscr4 Adamts2 Ndnf Dgkk Junb Zim1 Trmt9b Dlk1 Kcnj5 AW551984 Pifo Pou4f1 Serpinb1b Nek10 Amigo2 Rcn1 Gpr156 Cbln4 Rsph9 C1ql3 Smad3 Tmem97 Fads2 Lhx1 Gda Lemd1 Ngb Adcyap1 Ano1 Nxph4 Plpp3 F2r Vegfc Rxrg Trhr Kcng3 Cpne2 Drc1 Vat1 Dnah7a Gadd45g Rprm Adamts12