Transcription factor landscape - Single cell type - Neuronal cells

TF - Single nuclei Nueronal cells

The function of the brain, defined as the central nervous system, is to receive, process and execute the coordinated higher functions of perception, motion and cognition that signify human life. Retina is an extension of the CNS responsible specifically for vision. The cellular components of the underlying and highly complex network of transmitted signals include neurons and supportive glial cells.

Transcriptome analysis shows that 67% (n=13603) of all human proteins (n=20162) are detected in neuronal cells and 3393 of these genes show an elevated expression in any neuronal cells compared to other cell type groups. Learn more about genes wih elevated expression here. In-depth analysis of transcription factor genes expressed in neuronal cells highlights 65 transcription factors with elevated expression in neuronal cells compared to other cell types. In total, 9 transcription factors are classified as enriched in neuronal cells.

Here we provide the expression overview of all transcription factors that show enriched expression levels in neuronal cells compared to other cell types. The gene expression overview, across different cell types is accopanied by the top 3 nearest neighbours based on single cell RNA expression and correlation in the clustering analysis.

Enriched transcription factors

Gene

Expression

Expression clustering

NEUROD6

Cell type enriched (Brain excitatory neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
MAS1	MAS1 proto-oncogene, G protein-coupled receptor	0.9192	35
TAFA1	TAFA chemokine like family member 1	0.8136	35
KCNK4	Potassium two pore domain channel subfamily K member 4	0.7733	35

NR2E3

Cell type enriched (Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PDE6A	Phosphodiesterase 6A	0.9830	79
PRPH2	Peripherin 2	0.9552	79
GUCY2F	Guanylate cyclase 2F, retinal	0.9375	79

VSX1

Cell type enriched (Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GRM6	Glutamate metabotropic receptor 6	0.9690	86
AANAT	Aralkylamine N-acetyltransferase	0.9668	86
GABRR2	Gamma-aminobutyric acid type A receptor subunit rho2	0.9485	86

ONECUT3

Cell type enriched (Retinal horizontal cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NAT16	N-acetyltransferase 16 (putative)	0.8589	109
ONECUT1	One cut homeobox 1	0.7737	109
SSTR5	Somatostatin receptor 5	0.7601	96

POU4F2

Cell type enriched (Retinal ganglion cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
TFAP2D	Transcription factor AP-2 delta	0.7367	109
NEFL	Neurofilament light chain	0.6716	98
NEFM	Neurofilament medium chain	0.6716	98

PRDM8

Cell type enriched (Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GRM6	Glutamate metabotropic receptor 6	0.9068	86
GABRR2	Gamma-aminobutyric acid type A receptor subunit rho2	0.9012	86
VSX1	Visual system homeobox 1	0.8963	86

Enriched transcription factors

Gene

Expression

Expression clustering

BARHL1

Group enriched (Brain excitatory neurons, Mesothelial cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
UNCX	UNC homeobox	0.8791	2
CLEC4G	C-type lectin domain family 4 member G	0.8079	2
GABRA6	Gamma-aminobutyric acid type A receptor subunit alpha6	0.7820	2

VSX2

Group enriched (Müller glia, Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GRM6	Glutamate metabotropic receptor 6	0.8962	86
GABRR1	Gamma-aminobutyric acid type A receptor subunit rho1	0.8935	86
VSX1	Visual system homeobox 1	0.8679	86

NEUROD2

Group enriched (Brain excitatory neurons, Neuroendocrine cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
STXBP5L	Syntaxin binding protein 5L	0.8107	35
AKAIN1	A-kinase anchor inhibitor 1	0.7811	2
FGF5	Fibroblast growth factor 5	0.7399	46

CRX

Group enriched (Cone photoreceptor cells, Retinal pigment epithelial cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ENSG00000269035	Novel protein	0.7779	79
RGS9BP	Regulator of G protein signaling 9 binding protein	0.7476	79
ABCA4	ATP binding cassette subfamily A member 4	0.7155	79

TLX3

Group enriched (Brain excitatory neurons, Extravillous trophoblasts, Oocytes)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
FGF3	Fibroblast growth factor 3	0.7606	2
CBLN3	Cerebellin 3 precursor	0.7445	2
GRM4	Glutamate metabotropic receptor 4	0.7226	2

OTP

Group enriched (Early primary spermatocytes, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
AVP	Arginine vasopressin	0.9249	109
OXT	Oxytocin/neurophysin I prepropeptide	0.8551	109
FOXB2	Forkhead box B2	0.7862	109

RAX2

Group enriched (Cone photoreceptor cells, Oocytes, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PDC	Phosducin	0.9878	79
AIPL1	Aryl hydrocarbon receptor interacting protein like 1	0.9872	79
RCVRN	Recoverin	0.9851	79

SCRT1

Group enriched (Brain excitatory neurons, Brain inhibitory neurons, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ATP1A3	ATPase Na+/K+ transporting subunit alpha 3	0.7525	109
ENSG00000283886		0.7360	109
HRH3	Histamine receptor H3	0.6836	109

GSC2

Group enriched (Cone photoreceptor cells, Differentiating spermatogonia, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZSCAN5B	Zinc finger and SCAN domain containing 5B	0.8769	106
NANOS2	Nanos C2HC-type zinc finger 2	0.8657	106
LUZP4	Leucine zipper protein 4	0.8392	106

NEUROD1

Group enriched (Neuroendocrine cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
TPH1	Tryptophan hydroxylase 1	0.9605	96
SLC18A1	Solute carrier family 18 member A1	0.9584	96
FEV	FEV transcription factor, ETS family member	0.9554	96

DLX1

Group enriched (Adrenal medulla cells, Brain inhibitory neurons, Conjunctival goblet cells, Megakaryocytes, Other brain neurons, Schwann cells, Tuft cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CORT	Cortistatin	0.8302	109
GPR83	G protein-coupled receptor 83	0.8177	109
SP9	Sp9 transcription factor	0.7977	109

OTX2

Group enriched (Choroid plexus epithelial cells, Cone photoreceptor cells, Retinal bipolar cells, Retinal pigment epithelial cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CACNA1F	Calcium voltage-gated channel subunit alpha1 F	0.8224	86
SMIM36	Small integral membrane protein 36	0.7653	86
SLC1A7	Solute carrier family 1 member 7	0.7564	86

BHLHE22

Group enriched (Retinal amacrine cells, Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
BEND6	BEN domain containing 6	0.6802	86
FEZF2	FEZ family zinc finger 2	0.6640	86
CFC1B	Cripto, FRL-1, cryptic family 1B	0.6637	86

LHX9

Group enriched (Leydig cells, Peritubular myoid cells, Retinal amacrine cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PROK1	Prokineticin 1	0.8500	94
PRPS2	Phosphoribosyl pyrophosphate synthetase 2	0.8227	94
INSL3	Insulin like 3	0.8223	94

ZIC5

Group enriched (Astrocytes, Bergmann glia, Brain excitatory neurons, Choroid plexus epithelial cells, Ependymal cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZIC2	Zic family member 2	0.9182	2
ZIC3	Zic family member 3	0.7171	104
ZIC4	Zic family member 4	0.6915	2

ESRRB

Group enriched (Distal convoluted tubule cells, Loop of henle epithelial cells, Myonuclei, Retinal horizontal cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PPEF2	Protein phosphatase with EF-hand domain 2	0.6728	79
PRPH2	Peripherin 2	0.6530	79
OSBP2	Oxysterol binding protein 2	0.6440	79

CUX2

Group enriched (Choroid plexus epithelial cells, Hepatocytes, pDCs, Prostatic glandular cells, Retinal amacrine cells, Retinal horizontal cells, Thymic myoid cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
TRPM8	Transient receptor potential cation channel subfamily M member 8	0.4969	16
VAT1L	Vesicle amine transport 1 like	0.4930	101
NEFH	Neurofilament heavy chain	0.4800	16

PRDM14

Group enriched (Cone photoreceptor cells, Hepatic stellate cells, Thymocytes, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GHRL	Ghrelin and obestatin prepropeptide	0.5564	76
NUP210L	Nucleoporin 210 like	0.5292	46
OR5AU1	Olfactory receptor family 5 subfamily AU member 1	0.5230	52

RBAK

Group enriched (Astrocytes, Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Ependymal cells, Microglia, Oligodendrocyte progenitor cells, Oligodendrocytes, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ST3GAL3	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	0.8259	22
RABGEF1	RAB guanine nucleotide exchange factor 1	0.7698	22
SLC25A51	Solute carrier family 25 member 51	0.7698	22

SIX3

Group enriched (Müller glia, Pituicytes/FSCs, Retinal amacrine cells, Retinal bipolar cells, Retinal horizontal cells, Retinal pigment epithelial cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
LHX2	LIM homeobox 2	0.7252	11
WIF1	WNT inhibitory factor 1	0.6859	11
RLBP1	Retinaldehyde binding protein 1	0.6388	11

TFAP2D

Group enriched (Brain excitatory neurons, Oocytes, Retinal amacrine cells, Retinal ganglion cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
POU4F2	POU class 4 homeobox 2	0.7367	109
RLN3	Relaxin 3	0.6643	98
NEFL	Neurofilament light chain	0.6623	98

ZNF223

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SCG5	Secretogranin V	0.7658	98
NME2	NME/NM23 nucleoside diphosphate kinase 2	0.7493	98
RNASEK	Ribonuclease K	0.7481	98

ZNF23

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
BBS1	Bardet-Biedl syndrome 1	0.7105	22
C2orf81	Chromosome 2 open reading frame 81	0.7083	34
PIK3R2	Phosphoinositide-3-kinase regulatory subunit 2	0.6918	22

ZNF285

Group enriched (Astrocytes, Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Ependymal cells, Oligodendrocyte progenitor cells, Oligodendrocytes, Oocytes, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
C7orf25	Chromosome 7 open reading frame 25	0.6404	98
ZNF223	Zinc finger protein 223	0.6104	98
BTNL2	Butyrophilin like 2	0.5939	109

ZNF366

Group enriched (cDC, Cone photoreceptor cells, Vascular endothelial cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
BTNL9	Butyrophilin like 9	0.7452	12
SPAAR	Small regulatory polypeptide of amino acid response	0.7075	12
ARHGAP31	Rho GTPase activating protein 31	0.6993	12

ZNF559

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GNG10	G protein subunit gamma 10	0.7192	98
ZNF10	Zinc finger protein 10	0.7174	22
STX16	Syntaxin 16	0.7133	22

ZNF625

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
RBAK	RB associated KRAB zinc finger	0.7563	22
ZNF8	Zinc finger protein 8	0.7450	22
ZNF222	Zinc finger protein 222	0.7049	109

ZNF8

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
RAD50	RAD50 double strand break repair protein	0.7919	22
ZNF625	Zinc finger protein 625	0.7450	22
DEPDC5	DEP domain containing 5, GATOR1 subcomplex subunit	0.7387	22

Enriched transcription factors

Gene

Expression

Expression clustering

GCM2

Cell type enhanced (Cone photoreceptor cells, Epicardial cells, Fibro-adipogenic progenitors, Late primary spermatocytes, Retinal amacrine cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
FSIP2	Fibrous sheath interacting protein 2	0.5000	71
CPHXL	Cytoplasmic polyadenylated homeobox like	0.4778	71
HRNR	Hornerin	0.4331	83

NRL

Cell type enhanced (Astrocytes, Bergmann glia, Brain inhibitory neurons, Choroid plexus epithelial cells, Distal convoluted tubule cells, Ependymal cells, Loop of henle epithelial cells, Microglia, Oligodendrocyte progenitor cells, Oligodendrocytes, Other brain neurons, Papillary tip epithelial cells, Podocytes, Proximal tubule cells, Renal collecting duct intercalated cells, Renal collecting duct principal cells, Renal connecting tubule cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
OTUD1	OTU deubiquitinase 1	0.6025	74
DDTL	D-dopachrome tautomerase like	0.5987	74
ENSG00000251357	Novel protein	0.5783	88

EN2

Cell type enhanced (Bergmann glia, Brain excitatory neurons, Endometrial glandular cells, Endometrial luminal cells, Epididymal efferent duct absorptive cells, Epididymal efferent duct ciliated cells, Melanocytes, Oocytes)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
FGF3	Fibroblast growth factor 3	0.7258	2
BARHL1	BarH like homeobox 1	0.7234	2
GABRA6	Gamma-aminobutyric acid type A receptor subunit alpha6	0.7136	2

HSF5

Cell type enhanced (Early primary spermatocytes, Early spermatids, Hematopoietic stem cells, Late primary spermatocytes, Late spermatids, Megakaryocyte-Erythroid progenitors, pDCs, Retinal ganglion cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SULT6B1	Sulfotransferase family 6B member 1	0.6158	77
EXD1	Exonuclease 3'-5' domain containing 1	0.5701	53
WDR87	WD repeat domain 87	0.5642	53

RAX

Cell type enhanced (Cone photoreceptor cells, Müller glia, Pituicytes/FSCs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SIX6	SIX homeobox 6	0.9285	11
CRABP1	Cellular retinoic acid binding protein 1	0.9192	11
PRSS35	Serine protease 35	0.9095	11

ZIC1

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Choroid plexus epithelial cells, Ependymal cells, Myonuclei, Myosatellite cells, Oligodendrocytes)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZIC4	Zic family member 4	0.8567	2
ZIC2	Zic family member 2	0.7104	2
PDLIM2	PDZ and LIM domain 2	0.6656	22

POU3F2

Cell type enhanced (Astrocytes, Bergmann glia, Ependymal cells, Müller glia, Oligodendrocyte progenitor cells, Oligodendrocytes, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PRSS50	Serine protease 50	0.8268	28
PIRT	Phosphoinositide interacting regulator of transient receptor potential channels	0.7300	28
GFAP	Glial fibrillary acidic protein	0.7035	28

ZIC4

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Choroid plexus epithelial cells, Ependymal cells, Late spermatids, Myonuclei, Myosatellite cells, Oligodendrocytes, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZIC1	Zic family member 1	0.8567	22
ZIC2	Zic family member 2	0.7269	2
FGF3	Fibroblast growth factor 3	0.7073	2

BARHL2

Cell type enhanced (Brain excitatory neurons, Differentiating spermatogonia, Early primary spermatocytes, Parietal cells, Retinal amacrine cells, Retinal ganglion cells, Retinal horizontal cells, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NRXN2	Neurexin 2	0.7005	109
KCNJ12	Potassium inwardly rectifying channel subfamily J member 12	0.6765	2
NAT16	N-acetyltransferase 16 (putative)	0.6513	109

UNCX

Cell type enhanced (Brain excitatory neurons, Brain inhibitory neurons, Loop of henle epithelial cells, Other brain neurons, Retinal horizontal cells, Somatotrophs, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
BARHL1	BarH like homeobox 1	0.8791	2
FGF3	Fibroblast growth factor 3	0.8160	2
CBLN3	Cerebellin 3 precursor	0.7841	2

GBX2

Cell type enhanced (Bergmann glia, Early spermatids, Ependymal cells, Other brain neurons, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
HAPLN1	Hyaluronan and proteoglycan link protein 1	0.6673	108
PLAC1	Placenta enriched 1	0.6487	108
EGFL6	EGF like domain multiple 6	0.6467	108

NEUROD4

Cell type enhanced (Gonadotrophs, Lactotrophs, Retinal bipolar cells, Somatotrophs, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
LACTBL1	Lactamase beta like 1	0.9507	86
GABRR3	Gamma-aminobutyric acid type A receptor subunit rho3	0.9128	86
KCNG4	Potassium voltage-gated channel modifier subfamily G member 4	0.9104	86

VAX1

Cell type enhanced (Astrocytes, Brain inhibitory neurons, Choroid plexus epithelial cells, Ependymal cells, Late spermatids, Oligodendrocytes, Other brain neurons, Pituitary stem cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
DLX1	Distal-less homeobox 1	0.6276	109
CHRNA7	Cholinergic receptor nicotinic alpha 7 subunit	0.6192	109
CORT	Cortistatin	0.5811	109

HMX1

Cell type enhanced (Astrocytes, Müller glia, Oligodendrocyte progenitor cells, Oligodendrocytes, Retinal horizontal cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SOX8	SRY-box transcription factor 8	0.9143	14
NEU4	Neuraminidase 4	0.8334	14
OLIG2	Oligodendrocyte transcription factor 2	0.8271	14

NKX6-3

Cell type enhanced (Foveolar cells, Gastric progenitor cells, Mucous neck cells, Retinal amacrine cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PTCHD4	Patched domain containing 4	0.6949	109
GAD1	Glutamate decarboxylase 1	0.6283	109
GAD2	Glutamate decarboxylase 2	0.5939	76

ONECUT1

Cell type enhanced (Cholangiocytes, Hepatocytes, Pancreatic acinar cells, Pancreatic duct cells, Retinal ganglion cells, Retinal horizontal cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NAT16	N-acetyltransferase 16 (putative)	0.8470	109
ONECUT3	One cut homeobox 3	0.7737	109
CACNG5	Calcium voltage-gated channel auxiliary subunit gamma 5	0.7129	109

PAX6

Cell type enhanced (Astrocytes, Bergmann glia, Lacrimal acinar cells, Müller glia, Ocular epithelial cells, Pancreatic islet cells, Retinal amacrine cells, Retinal ganglion cells, Retinal horizontal cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
KRTAP4-5	Keratin associated protein 4-5	0.6784	100
MGARP	Mitochondria localized glutamic acid rich protein	0.6521	100
CLU	Clusterin	0.6505	100

VAX2

Cell type enhanced (Cone photoreceptor cells, Retinal amacrine cells, Retinal bipolar cells, Retinal ganglion cells, Retinal horizontal cells, Retinal pigment epithelial cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
MPP4	MAGUK p55 scaffold protein 4	0.7268	79
PSKH2	Protein serine kinase H2	0.7141	79
RPGRIP1	RPGR interacting protein 1	0.6757	79

ZIC2

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Ependymal cells, Müller glia, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZIC5	Zic family member 5	0.9182	2
ZIC3	Zic family member 3	0.8023	104
PPT2	Palmitoyl-protein thioesterase 2	0.7284	104

LHX4

Cell type enhanced (Cardiomyocytes, Cone photoreceptor cells, Early spermatids, Epicardial cells, Late spermatids, Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
LACTBL1	Lactamase beta like 1	0.8761	86
GABRR3	Gamma-aminobutyric acid type A receptor subunit rho3	0.8642	86
BLACAT1	BLACAT1 overlapping LEMD1 locus	0.8167	86

ZIC3

Cell type enhanced (Bergmann glia, Brain excitatory neurons, Choroid plexus epithelial cells, Ependymal cells, Müller glia, Other brain neurons, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZIC2	Zic family member 2	0.8023	2
PPT2	Palmitoyl-protein thioesterase 2	0.7380	104
EGFL8	EGF like domain multiple 8	0.7245	104

ZNF541

Cell type enhanced (Adrenal cortex cells, Differentiating spermatogonia, Early primary spermatocytes, Early spermatids, Epididymal efferent duct absorptive cells, Late primary spermatocytes, Late spermatids, Retinal amacrine cells, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SYCP1	Synaptonemal complex protein 1	0.8560	3
FTHL17	Ferritin heavy chain like 17	0.8482	3
DMRTC2	DMRT like family C2	0.8452	3

ZNF99

Cell type enhanced (Differentiating spermatogonia, Distal convoluted tubule cells, Early primary spermatocytes, Epididymal clear cells, Late primary spermatocytes, Oligodendrocyte progenitor cells, Renal collecting duct intercalated cells, Renal collecting duct principal cells, Renal connecting tubule cells, Retinal bipolar cells, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
MAGEA9B	MAGE family member A9B	0.6283	3
MAGEA9	MAGE family member A9	0.6184	3
TERB1	Telomere repeat binding bouquet formation protein 1	0.6155	3

ARNT2

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Distal convoluted tubule cells, Ependymal cells, Oligodendrocyte progenitor cells, Pituicytes/FSCs, Renal collecting duct intercalated cells, Sertoli cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PRICKLE4	Prickle planar cell polarity protein 4	0.6661	104
HILPDA	Hypoxia inducible lipid droplet associated	0.6441	104
ARHGEF10	Rho guanine nucleotide exchange factor 10	0.6059	104

BHLHA9

Cell type enhanced (Brain excitatory neurons, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
TUBB3	Tubulin beta 3 class III	0.9214	98
MOAP1	Modulator of apoptosis 1	0.8505	98
CCDC166	Coiled-coil domain containing 166	0.8475	98

NPAS4

Cell type enhanced (Gonadotrophs, Lactotrophs, Other brain neurons, Pancreatic islet cells, Retinal amacrine cells, Retinal ganglion cells, Retinal horizontal cells, Smooth muscle cells, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
UNC13A	Unc-13 homolog A	0.8223	59
GCK	Glucokinase	0.6377	76
GPR148	G protein-coupled receptor 148	0.6192	109

ZGPAT

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Cardiomyocytes, Choroid plexus epithelial cells, Ependymal cells, Epicardial cells, Microglia, Oligodendrocyte progenitor cells, Oligodendrocytes, Other brain neurons, Tuft cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
VPS33A	VPS33A core subunit of CORVET and HOPS complexes	0.6330	22
SRCAP	Snf2 related CREBBP activator protein	0.6115	22
PRORP	Protein only RNase P catalytic subunit	0.6084	22

AIRE

Cell type enhanced (Astrocytes, Brain excitatory neurons, Brain inhibitory neurons, Epididymal efferent duct absorptive cells, Fibroblasts, Other brain neurons, Peritubular myoid cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
OTP	Orthopedia homeobox	0.7470	109
AVP	Arginine vasopressin	0.6947	109
OXT	Oxytocin/neurophysin I prepropeptide	0.6867	109

ARX

Cell type enhanced (Brain inhibitory neurons, Ependymal cells, Leydig cells, Myonuclei, Neuroendocrine cells, Oocytes, Ovarian stromal cells, Pancreatic islet cells, Peritubular myoid cells, Respiratory ciliated cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PROK1	Prokineticin 1	0.7335	94
WFIKKN2	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 2	0.7108	94
PRPS2	Phosphoribosyl pyrophosphate synthetase 2	0.6745	94

ATOH7

Cell type enhanced (Brain excitatory neurons, Brain inhibitory neurons, Epididymal principal cells, Granulosa cells, Hepatocytes, Other brain neurons, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
KCNK4	Potassium two pore domain channel subfamily K member 4	0.7073	35
OR14I1	Olfactory receptor family 14 subfamily I member 1	0.6479	35
KCNV1	Potassium voltage-gated channel modifier subfamily V member 1	0.6348	35

EN1

Cell type enhanced (Breast hormone-responsive cells, Breast myoepithelial cells, Breast secretory cells, Epididymal clear cells, Fibroblasts, Myonuclei, Myosatellite cells, Other brain neurons, Pericytes, Smooth muscle cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
HOXC10	Homeobox C10	0.7082	108
DCD	Dermcidin	0.6574	62
HOXC11	Homeobox C11	0.5956	108

FEZF2

Cell type enhanced (Astrocytes, Brain excitatory neurons, Oocytes, Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
BLACAT1	BLACAT1 overlapping LEMD1 locus	0.8112	86
GABRA5	Gamma-aminobutyric acid type A receptor subunit alpha5	0.7987	86
OR52E1	Olfactory receptor family 52 subfamily E member 1 (gene/pseudogene)	0.7921	86

FOXG1

Cell type enhanced (Astrocytes, Brain excitatory neurons, Brain inhibitory neurons, Ependymal cells, Medullary thymic epithelial cells, Oligodendrocyte progenitor cells, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
DLGAP2	DLG associated protein 2	0.7938	35
GRIN2B	Glutamate ionotropic receptor NMDA type subunit 2B	0.7040	35
MCHR2	Melanin concentrating hormone receptor 2	0.7035	35

HES7

Cell type enhanced (Breast hormone-responsive cells, Breast myoepithelial cells, Breast secretory cells, Early spermatids, Epididymal basal cells, Ocular epithelial cells, Pericytes, Retinal amacrine cells, Retinal bipolar cells, Salivary duct cells, Vascular smooth muscle cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ADRA2A	Adrenoceptor alpha 2A	0.8388	103
CCL8	C-C motif chemokine ligand 8	0.8318	103
RGS16	Regulator of G protein signaling 16	0.8027	103

NHLH2

Cell type enhanced (Basal keratinocytes, Brain excitatory neurons, Breast myoepithelial cells, Early primary spermatocytes, Ependymal cells, Epididymal basal cells, Esophageal basal cells, Esophageal suprabasal cells, Oligodendrocytes, Other brain neurons, Retinal amacrine cells, Retinal ganglion cells, Suprabasal keratinocytes, Thymic myoid cells, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
KLHL1	Kelch like family member 1	0.6535	109
SLC17A6	Solute carrier family 17 member 6	0.6410	98
STMN2	Stathmin 2	0.6179	98

POU2F2

Cell type enhanced (B-cells, cDC, Early primary spermatocytes, Kupffer cells, Macrophages, Microglia, Monocyte progenitors, monocytes, Neutrophils, Plasma cells, Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SCIMP	SLP adaptor and CSK interacting membrane protein	0.7433	87
CD1D	CD1d molecule	0.6737	40
FGD2	FYVE, RhoGEF and PH domain containing 2	0.6346	40

RORB

Cell type enhanced (Astrocytes, Cone photoreceptor cells, Corticotrophs, Decidual stromal cells, Endometrial stromal cells, Müller glia, Retinal amacrine cells, Retinal horizontal cells, Retinal pigment epithelial cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
HOXA11	Homeobox A11	0.7047	108
HOXD11	Homeobox D11	0.6595	108
GDF7	Growth differentiation factor 7	0.6170	108

SATB2

Cell type enhanced (Brain excitatory neurons, Choroid plexus epithelial cells, Colonocytes, Enteric stem cells, Enteric transient amplifying cells, Ependymal cells, Goblet cells, Neuroendocrine cells, Tuft cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SLC6A7	Solute carrier family 6 member 7	0.7195	2
PRAC1	PRAC1 small nuclear protein	0.6918	54
HOXD13	Homeobox D13	0.6804	54

SIX6

Cell type enhanced (Cone photoreceptor cells, Lactotrophs, Müller glia, Pituicytes/FSCs, Pituitary stem cells, Retinal horizontal cells, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
RAX	Retina and anterior neural fold homeobox	0.9285	11
CRABP1	Cellular retinoic acid binding protein 1	0.9086	11
NPVF	Neuropeptide VF precursor	0.8959	11

ZNF560

Cell type enhanced (Differentiating spermatogonia, Early primary spermatocytes, Early spermatids, Late primary spermatocytes, Late spermatids, Oocytes, Rod photoreceptor cells, Sertoli cells, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
FAM47C	Family with sequence similarity 47 member C	0.6416	77
KRTAP21-2	Keratin associated protein 21-2	0.6415	77
HSFX4	Heat shock transcription factor family, X-linked member 4	0.6414	42

BACH2

Cell type enhanced (B-cells, Cone photoreceptor cells, Epididymal basal cells, Innate lymphoid cells, T-cells, Thymocytes)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CHMP7	Charged multivesicular body protein 7	0.5954	87
FAM117B	Family with sequence similarity 117 member B	0.5911	87
BCAS4	Breast carcinoma amplified sequence 4	0.5847	87

BCL11B

Cell type enhanced (Basal keratinocytes, Brain excitatory neurons, Brain inhibitory neurons, NK-cells, Suprabasal keratinocytes, T-cells, Thymocytes)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
TRAV6	T cell receptor alpha variable 6	0.8682	9
ZNF831	Zinc finger protein 831	0.8650	9
CD6	CD6 molecule	0.8568	9

DMRTC1

Cell type enhanced (Brain excitatory neurons, Brain inhibitory neurons, Cone photoreceptor cells, Early primary spermatocytes, Gonadotrophs, Lactotrophs, Oligodendrocyte progenitor cells, Other brain neurons, Rod photoreceptor cells, Sertoli cells, Somatotrophs, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
DZIP3	DAZ interacting zinc finger protein 3	0.5695	34
GAGE10	G antigen 10	0.5580	59
PRDM7	PR/SET domain 7	0.5563	3

NR6A1

Cell type enhanced (Choroid plexus epithelial cells, Pituitary stem cells, Retinal horizontal cells, Sertoli cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
FBXL19	F-box and leucine rich repeat protein 19	0.3752	43
SIRT5	Sirtuin 5	0.3741	48
GRM8	Glutamate metabotropic receptor 8	0.3687	101

OVOL3

Cell type enhanced (Cone photoreceptor cells, Early primary spermatocytes, Müller glia, Myonuclei, Plasma cells, Respiratory ionocytes, Rod photoreceptor cells, Tuft cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
OR14A16	Olfactory receptor family 14 subfamily A member 16	0.5240	95
IGHV1-69-2	Immunoglobulin heavy variable 1-69-2	0.4849	44
IGKV1D-39	Immunoglobulin kappa variable 1D-39	0.4815	44

PROX1

Cell type enhanced (Cardiomyocytes, Corticotrophs, Hepatocytes, Lymphatic endothelial cells, Myosatellite cells, Pancreatic duct cells, Respiratory ionocytes, Retinal bipolar cells, Retinal horizontal cells, Tuft cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
MMRN1	Multimerin 1	0.6190	32
CCL21	C-C motif chemokine ligand 21	0.5994	32
GJC2	Gap junction protein gamma 2	0.5596	32

TAL2

Cell type enhanced (B-cells, Differentiating spermatogonia, Distal convoluted tubule cells, Müller glia, Myonuclei, Other brain neurons, Somatotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
TNFRSF13C	TNF receptor superfamily member 13C	0.5154	87
QRSL1	Glutaminyl-tRNA amidotransferase subunit QRSL1	0.5068	87
BEND4	BEN domain containing 4	0.5063	87

TFAP2E

Cell type enhanced (Retinal amacrine cells, Retinal bipolar cells, Retinal ganglion cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
BLACAT1	BLACAT1 overlapping LEMD1 locus	0.7214	86
EIF4E1B	Eukaryotic translation initiation factor 4E family member 1B	0.7106	86
CFC1B	Cripto, FRL-1, cryptic family 1B	0.7063	86

ZNF534

Cell type enhanced (Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Differentiating spermatogonia, Early primary spermatocytes, Oocytes, Retinal amacrine cells, Retinal horizontal cells, Undifferentiated spermatogonia)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CAMKV	CaM kinase like vesicle associated	0.5939	35
KCNJ4	Potassium inwardly rectifying channel subfamily J member 4	0.5819	35
MGAT5B	Alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B	0.5680	35

AHR

Cell type enhanced (Epicardial cells, Mesothelial cells, Papillary tip epithelial cells, Prostatic hillock cells, Respiratory deuterosomal cells, Respiratory secretory cells, Retinal bipolar cells, Urothelial cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ENSG00000283321	Novel protein	0.5364	69
ACSM6	Acyl-CoA synthetase medium chain family member 6	0.4987	69
RAI1	Retinoic acid induced 1	0.4856	38

ALX3

Cell type enhanced (Cardiomyocytes, Epicardial cells, Fibroblasts, Mesothelial cells, Oocytes, Pericytes, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SLC2A4	Solute carrier family 2 member 4	0.5904	22
ENSG00000284779	Novel protein	0.5703	22
CEMIP	Cell migration inducing hyaluronidase 1	0.5496	22

ARID3B

Cell type enhanced (Cone photoreceptor cells, Endometrial luminal cells, Neutrophils, pDCs, Rod photoreceptor cells, Syncytiotrophoblasts)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PLAA	Phospholipase A2 activating protein	0.6445	29
CACUL1	CDK2 associated cullin domain 1	0.6445	29
OSBPL2	Oxysterol binding protein like 2	0.6420	29

ASCL4

Cell type enhanced (cDC, Epicardial cells, Microglia, Respiratory ionocytes, Retinal ganglion cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CX3CR1	C-X3-C motif chemokine receptor 1	0.7547	74
LILRB4	Leukocyte immunoglobulin like receptor B4	0.7542	74
FGF20	Fibroblast growth factor 20	0.7260	74

ATF6B

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Distal convoluted tubule cells, Loop of henle epithelial cells, Microglia, Oligodendrocyte progenitor cells, Oligodendrocytes, Papillary tip epithelial cells, Podocytes, Proximal tubule cells, Renal collecting duct intercalated cells, Renal collecting duct principal cells, Renal connecting tubule cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
DDX51	DEAD-box helicase 51	0.7224	102
TNK1	Tyrosine kinase non receptor 1	0.6604	102
PANK4	Pantothenate kinase 4 (inactive)	0.6513	98

ATF7

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Ependymal cells, Microglia, Oligodendrocyte progenitor cells, Oligodendrocytes, Other brain neurons)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ZC3H11A	Zinc finger CCCH-type containing 11A	0.7377	22
ANKHD1	Ankyrin repeat and KH domain containing 1	0.7254	22
SPECC1L	Sperm antigen with calponin homology and coiled-coil domains 1 like	0.7077	22

BHLHE41

Cell type enhanced (Epididymal efferent duct absorptive cells, Epididymal efferent duct ciliated cells, Fallopian secretory cells, Hofbauer cells, Microglia, Müller glia, Retinal bipolar cells, Retinal horizontal cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
FAM149A	Family with sequence similarity 149 member A	0.6043	74
P2RY12	Purinergic receptor P2Y12	0.5734	74
HS3ST4	Heparan sulfate-glucosamine 3-sulfotransferase 4	0.5697	74

BSX

Cell type enhanced (Foveolar cells, Other brain neurons, pDCs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
QRFPR	Pyroglutamylated RFamide peptide receptor	0.6353	109
PTCHD3	Patched domain containing 3 (gene/pseudogene)	0.5813	98
KCNK18	Potassium two pore domain channel subfamily K member 18	0.5716	109

CASZ1

Cell type enhanced (Cone photoreceptor cells, Myonuclei, Podocytes, Prostatic glandular cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PSKH2	Protein serine kinase H2	0.6495	79
VAX2	Ventral anterior homeobox 2	0.6214	79
USH2A	Usherin	0.6140	79

CSRNP3

Cell type enhanced (Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Cone photoreceptor cells, Corticotrophs, Lacrimal acinar cells, Lactotrophs, Oligodendrocyte progenitor cells, Other brain neurons, Retinal pigment epithelial cells, Somatotrophs, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NBEA	Neurobeachin	0.5359	35
PLPPR5	Phospholipid phosphatase related 5	0.5316	35
SLC4A10	Solute carrier family 4 member 10	0.5291	101

DBP

Cell type enhanced (Müller glia, Retinal amacrine cells, Retinal bipolar cells, Retinal horizontal cells, Retinal pigment epithelial cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
VSX2	Visual system homeobox 2	0.6345	86
ZNF593OS	ZNF593 opposite strand	0.6327	100
CABP2	Calcium binding protein 2	0.5838	86

DLX2

Cell type enhanced (Adrenal medulla cells, Brain inhibitory neurons, Breast hormone-responsive cells, Breast secretory cells, Conjunctival goblet cells, Early spermatids, Innate lymphoid cells, Melanocytes, Other brain neurons, Schwann cells, Tuft cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
DLX1	Distal-less homeobox 1	0.5987	109
UBE2S	Ubiquitin conjugating enzyme E2 S	0.5809	20
CER1	Cerberus 1, DAN family BMP antagonist	0.5638	109

DMBX1

Cell type enhanced (Brain inhibitory neurons, Corticotrophs, Differentiating spermatogonia, Early primary spermatocytes, Epicardial cells, Gastric progenitor cells, Oocytes, Retinal bipolar cells, Retinal ganglion cells, Undifferentiated spermatogonia, Urothelial cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
KCNG4	Potassium voltage-gated channel modifier subfamily G member 4	0.7078	86
CFC1B	Cripto, FRL-1, cryptic family 1B	0.6744	86
GSG1L2	GSG1 like 2	0.6670	86

DMRTC1B

Cell type enhanced (Adrenal medulla cells, Brain excitatory neurons, Brain inhibitory neurons, Choroid plexus epithelial cells, Gonadotrophs, Lactotrophs, Other brain neurons, Pituitary stem cells, Retinal amacrine cells, Somatotrophs, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SGSM1	Small G protein signaling modulator 1	0.7255	59
ZNF667	Zinc finger protein 667	0.6736	59
DGKK	Diacylglycerol kinase kappa	0.6632	59

DNMT3A

Cell type enhanced (Gonadotrophs, Myonuclei, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GTF2IRD1	GTF2I repeat domain containing 1	0.5190	36
KANTR	KANTR integral membrane protein	0.4560	36
TOGARAM1	TOG array regulator of axonemal microtubules 1	0.4450	7

DNMT3B

Cell type enhanced (Hematopoietic stem cells, Megakaryocyte progenitors, Megakaryocyte-Erythroid progenitors, Migrating cytotrophoblasts, Pancreatic acinar cells, Retinal amacrine cells, Sertoli cells, Thymocytes)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
DPPA4	Developmental pluripotency associated 4	0.5421	37
ZNF711	Zinc finger protein 711	0.5364	43
SLC25A21	Solute carrier family 25 member 21	0.5001	66

EBF1

Cell type enhanced (Adipocytes, B-cells, Fibro-adipogenic progenitors, Fibroblasts, Leydig cells, Pericytes, Peritubular myoid cells, Pituitary stem cells, Retinal ganglion cells, Vascular smooth muscle cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
LHCGR	Luteinizing hormone/choriogonadotropin receptor	0.6692	89
ADAMTS12	ADAM metallopeptidase with thrombospondin type 1 motif 12	0.6660	89
ADIPOQ	Adiponectin, C1Q and collagen domain containing	0.6399	89

EBF3

Cell type enhanced (Adipocytes, Fibro-adipogenic progenitors, Fibroblasts, Myosatellite cells, Oocytes, Pericytes, Retinal ganglion cells, Vascular endothelial cells, Vascular smooth muscle cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
MEOX2	Mesenchyme homeobox 2	0.7884	32
EBF2	EBF transcription factor 2	0.7119	110
HMCN2	Hemicentin 2	0.6660	108

ESR1

Cell type enhanced (Adipocytes, Breast hormone-responsive cells, Endometrial ciliated cells, Endometrial glandular cells, Endometrial luminal cells, Endometrial stromal cells, Epicardial cells, Epididymal efferent duct absorptive cells, Fallopian secretory cells, Gonadotrophs, Hepatocytes, Lactotrophs, Retinal horizontal cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PGR	Progesterone receptor	0.7126	108
URGCP-MRPS24	URGCP-MRPS24 readthrough	0.6723	52
HOXA11	Homeobox A11	0.6063	108

ESR2

Cell type enhanced (Adrenal cortex cells, Cardiomyocytes, Epicardial cells, Myonuclei, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ERAP1	Endoplasmic reticulum aminopeptidase 1	0.4965	83
CFAP298-TCP10L	CFAP298-TCP10L readthrough	0.4667	83
ZNF76	Zinc finger protein 76	0.4524	83

ETV1

Cell type enhanced (Adrenal cortex cells, Alveolar cells type 2, Bergmann glia, Brain excitatory neurons, Corticotrophs, Neuroendocrine cells, Oligodendrocyte progenitor cells, Salivary acinar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GRM4	Glutamate metabotropic receptor 4	0.6374	2
CBLN3	Cerebellin 3 precursor	0.6152	2
FGF3	Fibroblast growth factor 3	0.6083	2

FEZF1

Cell type enhanced (Gastric progenitor cells, Late primary spermatocytes, Oocytes, Other brain neurons, Pituicytes/FSCs, Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CARTPT	CART prepropeptide	0.6369	98
PNMA6F	PNMA family member 6F	0.6056	98
FNDC9	Fibronectin type III domain containing 9	0.5694	98

FOXD1

Cell type enhanced (Enterocytes, Fibroblasts, Late primary spermatocytes, Müller glia, Oocytes, Pericytes, Podocytes, Respiratory basal cells, Respiratory deuterosomal cells, Respiratory ionocytes, Retinal bipolar cells, Retinal ganglion cells, Retinal pigment epithelial cells, Smooth muscle cells, Thymic myoid cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ENSG00000284779	Novel protein	0.6579	22
MUSTN1	Musculoskeletal, embryonic nuclear protein 1	0.6516	22
ISLR	Immunoglobulin superfamily containing leucine rich repeat	0.6246	22

HEYL

Cell type enhanced (Adrenal medulla cells, Granulosa cells, Hepatic stellate cells, Leydig cells, Myosatellite cells, Pancreatic acinar cells, Pericytes, Peritubular myoid cells, Rod photoreceptor cells, Sertoli cells, Vascular smooth muscle cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
FOXS1	Forkhead box S1	0.8213	110
NOTCH3	Notch receptor 3	0.7584	110
RGS5	Regulator of G protein signaling 5	0.7396	110

HIVEP3

Cell type enhanced (Corticotrophs, Lactotrophs, Microglia, Retinal amacrine cells, Retinal horizontal cells, Thymocytes, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NCK1	NCK adaptor protein 1	0.4250	7
RNF165	Ring finger protein 165	0.4157	109
JAKMIP2	Janus kinase and microtubule interacting protein 2	0.4133	59

HLF

Cell type enhanced (Distal convoluted tubule cells, Hematopoietic stem cells, Hepatocytes, Müller glia, Renal connecting tubule cells, Retinal amacrine cells, Retinal bipolar cells, Retinal horizontal cells, Thyrotrophs)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GPR85	G protein-coupled receptor 85	0.5799	104
CT45A9	Cancer/testis antigen family 45 member A9	0.5580	104
ABCG2	ATP binding cassette subfamily G member 2 (Junior blood group)	0.5412	104

HSF1

Cell type enhanced (Astrocytes, Bergmann glia, Brain excitatory neurons, Choroid plexus epithelial cells, Distal convoluted tubule cells, Ependymal cells, Loop of henle epithelial cells, Microglia, Oligodendrocytes, Other brain neurons, Papillary tip epithelial cells, Podocytes, Proximal tubule cells, Renal collecting duct intercalated cells, Renal collecting duct principal cells, Renal connecting tubule cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NUP160	Nucleoporin 160	0.7616	102
TRIM27	Tripartite motif containing 27	0.7532	102
POLR2A	RNA polymerase II subunit A	0.7378	102

HSF4

Cell type enhanced (Adrenal medulla cells, Astrocytes, Hofbauer cells, Leydig cells, Melanocytes, Myonuclei, Peritubular myoid cells, Retinal ganglion cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
PTCH2	Patched 2	0.5285	94
INSL3	Insulin like 3	0.5012	94
FBXO44	F-box protein 44	0.4807	109

INSM2

Cell type enhanced (Brain excitatory neurons, Brain inhibitory neurons, Breast myoepithelial cells, Cone photoreceptor cells, Early primary spermatocytes, Gastric chief cells, Other brain neurons, Retinal ganglion cells, Retinal horizontal cells, Rod photoreceptor cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
GUCA1A	Guanylate cyclase activator 1A	0.5301	79
CSAG3	CSAG family member 3	0.5155	3
OR13F1	Olfactory receptor family 13 subfamily F member 1	0.4853	82

IRF9

Cell type enhanced (Astrocytes, Bergmann glia, Ependymal cells, Microglia, Oligodendrocyte progenitor cells, Oligodendrocytes, Other brain neurons, Tuft cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SLX1A	SLX1 homolog A, structure-specific endonuclease subunit	0.7240	22
NPHP3	Nephrocystin 3	0.7220	22
EIF4A1	Eukaryotic translation initiation factor 4A1	0.6618	22

IRX6

Cell type enhanced (Adipocytes, Alveolar cells type 2, Cardiomyocytes, Epicardial cells, Hofbauer cells, Late spermatids, Ocular epithelial cells, Retinal bipolar cells)

3 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CFC1B	Cripto, FRL-1, cryptic family 1B	0.6458	86
LHX4	LIM homeobox 4	0.6448	86
BLACAT1	BLACAT1 overlapping LEMD1 locus	0.6395	86

ISL1

Cell type enhanced (Cytotrophoblasts, Medullary thymic epithelial cells, Neuroendocrine cells, Other brain neurons, Pancreatic islet cells, Retinal bipolar cells, Retinal ganglion cells, Retinal horizontal cells, Syncytiotrophoblasts, Thymic myoid cells)