panel_design/1.csv

Gene symbol,Ranking,Annotation & reasoning,Additional note
NeuN,1-50,Pan Neuron marker often used for ISH,
SST,1-50,Defines SST+ Interneurons,
PVALB,1-50,Identifies inhibitory interneurons,
CLND5,1-50,Endothelial cells / Mural cells,
HBA1,1-50,Endothelial cells / Mural cells,
ASCA2,1-50,Astrocyte marker often used for Bead collection,
GFAP,1-50,Astrocyte marker ,
CX3CR1 ,1-50,Microglia marker,
TMEM119,1-50,Microglial marker,
AIF1,1-50,IBA1 is often used for in situ hybridzation to label microglial cells. ,
OLIG2,1-50,"Expressed by OPCs, getting cells ready for differentiation into myelin-forming oligodendocytes. ",
CD22,1-50,Expressed by oligodendrocytes in huamns and binds to sialic acid-dependent ligands on microglia. ,
Th,1-50,Often used by ISH of dopaminergic neurons. ,
Reln,1-50,"Genes that seperate layers of cortical region (Huuki-Myers, BioRxiv, 2023)",
Aqp4,1-50,"Genes that seperate layers of cortical region (Huuki-Myers, BioRxiv, 2023)",
SPARC,1-50,"Genes that seperate layers of cortical region (Huuki-Myers, BioRxiv, 2023)",
HTRA1,1-50,"Genes that seperate layers of cortical region (Huuki-Myers, BioRxiv, 2023)",
VIP,1-50,Labels interneurons in PFC that signal and inhibits SST+ interneurons,
Fos,1-50,Activation-related genes from neurons. ,
Arc,1-50,Activation-related genes from neurons. ,
Egr1,1-50,Activation-related genes from neurons. ,
BDNF,1-50,"For survival mechanisms of neuronal homeostasis, often associated with disease. ",
ADORA1,1-50,Neurotransmitter receptors,
HTR1A,1-50,Neurotransmitter receptors,
HTR2A,1-50,Neurotransmitter receptors,
HTR3A,1-50,Neurotransmitter receptors,
HTR4,1-50,Neurotransmitter receptors,
DRD1,1-50,Neurotransmitter receptors,
DRD2,1-50,Neurotransmitter receptors,
DRD4,1-50,Neurotransmitter receptors,
NR3C1,1-50,Neurotransmitter receptors,
NPY1R,1-50,Neurotransmitter receptors,
OXTR,1-50,Expressed by SST+ neurons to respond to ,
GRIN2B,1-50,Receptors common for neural plasticity,
GABRA1,1-50,Receptors common for neural plasticity,
GRIA1,1-50,Receptors common for neural plasticity,
NEDD4,1-50,Marker for excitatory neurons,
FBXO2,1-50,Marker for excitatory neurons,
mTOR,1-50,Marker for excitatory neurons,
DDIT4,1-50,Marker for excitatory neurons,
TH,1-50,Marker for excitatory neurons,
PDGFRA,1-50,OPCs,
GAD1,1-50,"Glutamate Decarboxylase 1, catalyzing production from L-glut. ",
CHAT,1-50,Neuron enzyme for ACh,
GRIN2A,1-50,NMDA receptors,
GABRD,1-50,GABA receptors,
GABRA1,1-50,GABA receptors,
TREM2,1-50,microglial marker,
CSF1R,1-50,microglial marker,
IL10,1-50,Microglia function,
EFNA5,50-100,Important pathways for neural plasticity and synaptic homeostasis. ,
EPHA5,50-100,Important pathways for neural plasticity and synaptic homeostasis. ,
FYN,50-100,Important pathways for neural plasticity and synaptic homeostasis. ,
CARMN,50-100,Endothelial cells: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
ITIH5,50-100,Endothelial cells: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
MECOM,50-100,Endothelial cells: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
EBF1,50-100,Endothelial cells: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
VWF,50-100,Endothelial cells: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
LINC02712,50-100,Microglia: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
ITGAX,50-100,Microglia: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
BLNK,50-100,Microglia: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
CSF2RA,50-100,Microglia: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
FOLH1,50-100,Oligodendrocytes: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
LINC01608,50-100,Oligodendrocytes: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
SLC5A11,50-100,Oligodendrocytes: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
OPC,50-100,OPC: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
AC004852.2,50-100,OPC: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
FERMT1,50-100,OPC: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
COL9A1,50-100,OPC: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
STK32A,50-100,OPC: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
FGF13,50-100,Excitatory Layer 2 or 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
SLC12A8,50-100,Excitatory Layer 2 or 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
DCBLD2,50-100,Excitatory Layer 2 or 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
MPC1,50-100,Excitatory Layer 2 or 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
LINC02296,50-100,Excitatory Layer 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
AC008674.1,50-100,Excitatory Layer 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
CLRA3,50-100,Excitatory Layer 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
CPHR1,50-100,Excitatory Layer 3: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
FBXL16,50-100,Excitatory Layer 3/4/5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
MAP1A,50-100,Excitatory Layer 3/4/5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
UBB,50-100,Excitatory Layer 3/4/5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
ENC1,50-100,Excitatory Layer 3/4/5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
TSHZ2,50-100,Excitatory Layer 4 Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
VGF,50-100,Excitatory Layer 4 Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
UBE2E3,50-100,Excitatory Layer 4 Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
APP003066.1,50-100,Excitatory Layer 5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
COL12A1,50-100,Excitatory Layer 5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
TRABD2A,50-100,Excitatory Layer 5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
TLL1,50-100,Excitatory Layer 5: Top genes from Huuki-Myers that distinguishes other cell types using scNuc-seq and spatial context. ,
LINC00343,50-100,Excitatory L5/6,
THEMIS,50-100,Excitatory L5/6,
AC015943.1,50-100,Excitatory L5/6,
LINC02718,50-100,Excitatory L6: Top genes from Huuki-Myers,
MCTP2,50-100,Excitatory L6: Top genes from Huuki-Myers,
AC006299.1,50-100,Excitatory L6: Top genes from Huuki-Myers,
DPP4,50-100,Excitatory L6: Top genes from Huuki-Myers,
MYO3B,50-100,Inhibitory neurons: Top genes from Huuki-Myers,
SLC27A6,50-100,Inhibitory neurons: Top genes from Huuki-Myers,
MINAR1,50-100,Inhibitory neurons: Top genes from Huuki-Myers,
BTBD11,50-100,Inhibitory neurons: Top genes from Huuki-Myers,
FBN2,100-150,Inhibitory neurons: Top genes from Huuki-Myers,
GRIP2,100-150,Inhibitory neurons: Top genes from Huuki-Myers,
COMT,100-150,Enzymes that degrade neurotransmitters,
SLC6A3,100-150,Dopamine transporter,
MAOA,100-150,Breakdown of neurotransmitters,
CREB1,100-150,Neural activation related genes,
FOS,100-150,Neural activation related genes,
JUNB,100-150,Neural activation related genes,
NFAT1,100-150,Neural activation related genes,
CRTC1,100-150,Neural activation related genes,
CAMK2A,100-150,Neural activation related genes,
CAMK1D,100-150,Neural activation related genes,
APOE4,100-150,"Alzhiemers, microglia. ",
SHANK3,100-150,Genes altered in ASD,
RAC1,100-150,Genes altered in ASD,
PAK,100-150,Genes altered in ASD,
COFILIN,100-150,Genes altered in ASD,
NR2A,100-150,Genes altered in Schizophernia,
GAD67,100-150,Genes altered in Schizophernia,
CALM2,100-150,Genes altered in MDD brains also associated with synatic function and reduced spine density in layers II/III of DLPFC,
SYN1,100-150,Genes altered in MDD brains also associated with synatic function and reduced spine density in layers II/III of DLPFC,
RAB3A,100-150,Genes altered in MDD brains also associated with synatic function and reduced spine density in layers II/III of DLPFC,
RAB4B,100-150,Genes altered in MDD brains also associated with synatic function and reduced spine density in layers II/III of DLPFC,
TUBB4,100-150,Genes altered in MDD brains also associated with synatic function and reduced spine density in layers II/III of DLPFC,
NR2B,100-150,Genes altered in MDD brains also associated with synatic function and reduced spine density in layers II/III of DLPFC,
PSD96,100-150,Genes altered in MDD brains also associated with synatic function and reduced spine density in layers II/III of DLPFC,
cpg15,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
NTRK2,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
HLA-A,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
PLK2,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
Homer1,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
Arc,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
MIR134,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
Mecp2,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
MEF22c,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
CARF,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
HLA-B,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
HLA-C,100-150,"Neuronal activity-regulated genes, that alter synaptic function of neurons. ",
KIT,100-150,Inhibitory neurons: Top genes from Huuki-Myers,
PLXDC2,100-150,Top DEG from Jupyter of microglia,
DOCK4,100-150,Top DEG from Jupyter of microglia,
DOCK8,100-150,Top DEG from Jupyter of microglia,
AdGRV1,100-150,Top DEG from jupyter of astrocytes,
SLC1A2,100-150,Top DEG from jupyter of astrocytes,
MSI2,100-150,Top DEG from jupyter of astrocytes,
GPC5,100-150,Top DEG from jupyter of astrocytes,
SORCS3,100-150,Caudal Ganglionic derived GABAergic cortical interneurons from Top DEG from Jupyter,
ADARB2,100-150,Caudal Ganglionic derived GABAergic cortical interneurons from Top DEG from Jupyter,
CXCL14,100-150,Caudal Ganglionic derived GABAergic cortical interneurons from Top DEG from Jupyter,
SLC35F4,100-150,Caudal Ganglionic derived GABAergic cortical interneurons from Top DEG from Jupyter,