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Table 4 List of regionally enriched genes in 30 brain regions and cell-types of therapeutic interest

From: Identification of a set of genes showing regionally enriched expression in the mouse brain

Brain Regions/Cell types

Example Processes/Disease Associations

Genes

Cortex

Alzheimer Disease, Amyotropic Lateral Sclerosis, Plasticity

B3galt2, 3110035E14Rik, Ccl27, Ctgf, Emx1, Fhl2, Klf10, Myl4, Rbp4, Rtn4rl2, Stx1a, Tbr1, Vip, Ddit4l, Dkkl1, Rspo2, Ier5, Igfbp6, Ephb6, Mpped1, Pak7, Satb2, Cplx3, E430002G05Rik

Hippocampus

Alzheimer Disease Adult Neurogenesis, Depression, Plasticity

Htr1A, Tgfb2, Gria1, Nr3c2

Hippocampus, Ammon's Horn

Alzheimer Disease Adult Neurogenesis, Depression, Plasticity

Hunk, Klk8, Gpr161, Arfrp2, C630041L24Rik, Slc9a2, Neurod6, Pkp2, Fibcd1, Sstr4

Hippocampus, Dentate Gyrus

Alzheimer Disease Adult Neurogenesis, Depression, Plasticity

Gabrd, Prox1, Dsp, C78409, Lct, Crlf1, Tdo2, A330019N05Rik, Lrrtm4, Htr4, Tspan18

Neurogenic Regions

Adult Neurogenesis

Nr2e1, Dcx, Mki67, Vim, Dlx2, Nes, Dlx1, Dscam, Fabp7, Igfbpl1, Lrrn1, Rrm1, Sox2, Thbs4

Striatum

Huntington Disease, Parkinson Disease, Plasticity in Depression

Adora2a, Gpr88, Drd1a, Drd2, Gpr6, Rgs9, Adcy5, Crym, Foxp1, Lpl, Pde1b1, Pdyn, Rarb, Rasd2, Tgfa

Amygdala

Huntington Disease, Depression, Plasticity

Tac1, Cyp26b1, Hap1, Cdh9, Ptprc, Gabra2, Hgf, Pdzrn3, Plxnd1, Wwox, Rasal1, Dock10, Prkcd

Amygdala, Basolateral Complex

Huntington Disease, Depression, Plasticity

Grp, Nov, Nr2f2

Amygdala, Central Nucleus

Huntington Disease, Depression, Plasticity

Atp6v1c2

Thalamus

Huntington Disease

Ramp3, Rgs16, Slitrk6, Tnnt1, 1110069I04Rik Amotl1, Rab37, Sh3d19, Grid2ip, Lef1, Plekhg1, Syt9, Tcf7l2, Gm804, Gja7, Socs6, Vangl1

Hypothalamus

Cancer

Hcrt, Gpx3, Trh, Fezf1, Agrp, Calcr, Ghrh, Npy, Pmch, Pomc

Cerebellum, Granule Cells

Medulloblastoma, Ataxia, Cerebellar hypoplasia

Gabra6, Cbln3

Cerebellum, Purkinje Cell Layer

Spinocerebellar Ataxia, Autism, Plasticity

Pcp2, Hbegf, Icmt, Atp2a3, Casq2, Gdf10, Grid2, Hes3, Lhx1, Ptprm, A930006D11Rik

Basal Nucleus of Meynert

Acetylcholine System, Alzheimer Disease

Gal, Ngfr, Tac2, Lhx8, Ecel1, Gbx1, Lancl3, Ntrk1

Substantia Nigra

Dopamine System, Parkinson Disease

Ddc, Slc6a3, Ntsr1, Pitx3, Aldh1a1, Chrna6, Chrnb3, Th

Raphe Nuclei

Norepinephrine System, Depression

Fev, Gchfr, Slc6a4, Slc17a8, Tph2, Maob, Esr2

Locus Coeruleus

Serotonin System, Depression

Dbh, Maoa, Slc6a2, Slc18a2

Astroglia

Alzheimer Disease

Gfap, S100b, Slc1a2, Plaur, Gcm1, Gcm2, Serpina3n

Microglia (activated)

Alzheimer Disease, Amyotropic Lateral Sclerosis

Cd68, Aif1, P2rx7, Sulf2

Microglia (constitutive)

Alzheimer Disease

Cx3cr1, Itgam

Oligodendroglia

Alzheimer Disease, Multiple Sclerosis

Olig1, Ugt8a, Cnp, Gjb1, Klk6, Mag, Apod, Enpp2, Fa2h, Mal, Mbp, Mobp, Mog, Olig2, Pllp, Plp1, Sox10, Tmem63a

Barrington's Nucleus

Pain

Crh, Fgfr1

Brainstem, Pons and Medulla

Pain

Slc6a5, Glra1, Pogz, Anxa4, Spp1, Esr1, Pou4f1, Slc4a2, Stac

Cortex, Anterior Cingulate

Pain

Egr1, Stmn1, Cckbr,Adcy1

Cortex, Somatosensory

Pain

Rspo1, Cyp39a1, Cartpt, Col5a1, Rorb, Loc433228, Gnb4

Cortex, Insula

Pain

Lxn, Ntng2, Nr4a2, Fezf2, Ttc9b

Hypothalamus, Paraventricular Nucleus

Pain

Avp, Oxt

Subthalamic Nucleus

Pain

Pitx2, Lmx1b

Blood Brain Barrier

Drug therapy

Abcb1a, Cldn5, Ednra, Fcgrt, Hspa12b, Lrp10, Lrp8, Rage, Slc2a1, Slc7a5, Slco1c1, Slc6a12, Slc28a2

GABAergic neurons

Schizophrenia, Bipolar Disorder

Vip*, Gpr88‡

  1. *also listed as a cortex-specific gene
  2. ‡also listed as a striatum-specific gene