Transcription factor landscape - Single cell type - Trophoblast cells

The main cellular components of the highly vascularized placenta are trophoblasts, decidual cells, endothelial cells, and primitive mesenchymal cells. Together they mediate fetal nutrient uptake, waste elimination, and gas exchange via the maternal blood supply. Trophoblasts are the cells that surround the fertilized egg, also known as the blastocyst. There are three types of trophoblasts: cytotrophoblasts, syncytiotrophoblasts and extravillous trophoblasts, each responsible for different parts of the placental development during pregnancy.

Transcriptome analysis shows that 67% (n=13603) of all human proteins (n=20162) are detected in trophoblasts cells and 1764 of these genes show an elevated expression in any trophoblasts cells compared to other cell type groups. Learn more about genes wih elevated expression here. In-depth analysis of transcription factor genes expressed in trophoblasts cells highlights 91 transcription factors with elevated expression in trophoblasts cells compared to other cell types. In total, 10 transcription factors are classified as enriched in trophoblasts cells.

Here we provide the expression overview of all transcription factors that show enriched expression levels in trophoblasts 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

ASCL2

Cell type enriched (Extravillous trophoblasts)

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.
CCNE1	Cyclin E1	0.9679	21
LAIR2	Leukocyte associated immunoglobulin like receptor 2	0.9485	21
HLA-G	Major histocompatibility complex, class I, G	0.9426	21

MYCN

Cell type enriched (Extravillous trophoblasts)

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.
CCNE1	Cyclin E1	0.8571	21
LAIR2	Leukocyte associated immunoglobulin like receptor 2	0.8563	21
OXGR1	Oxoglutarate receptor 1	0.8546	21

NFYB

Cell type enriched (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.
KRTAP19-1	Keratin associated protein 19-1	0.8231	39
ERVFRD-1	Endogenous retrovirus group FRD member 1, envelope	0.8229	39
KRTAP19-5	Keratin associated protein 19-5	0.8165	39

Enriched transcription factors

Gene

Expression

Expression clustering

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

DLX3

Group enriched (Cytotrophoblasts, Extravillous trophoblasts, Migrating cytotrophoblasts, 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.
GCM1	Glial cells missing transcription factor 1	0.8212	21
FANCE	FA complementation group E	0.8088	21
WNT7A	Wnt family member 7A	0.7463	21

GCM1

Group enriched (Extravillous trophoblasts, 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.
FANCE	FA complementation group E	0.9032	21
GPR32	G protein-coupled receptor 32	0.8744	21
FSTL3	Follistatin like 3	0.8682	21

DLX4

Group enriched (Extravillous trophoblasts, Migrating cytotrophoblasts)

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.
CCNE1	Cyclin E1	0.9466	21
ASCL2	Achaete-scute family bHLH transcription factor 2	0.9205	21
LAIR2	Leukocyte associated immunoglobulin like receptor 2	0.9107	21

DLX5

Group enriched (Cytotrophoblasts, Endometrial ciliated cells, Endometrial glandular cells, Endometrial luminal cells, Extravillous trophoblasts, Migrating cytotrophoblasts, 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.
DLX6	Distal-less homeobox 6	0.8143	21
LRRC41	Leucine rich repeat containing 41	0.7147	52
ZNF114	Zinc finger protein 114	0.7033	39

FOXO4

Group enriched (Cytotrophoblasts, Migrating cytotrophoblasts, 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.
PAGE4	PAGE family member 4	0.9622	63
VGLL1	Vestigial like family member 1	0.9093	63
IFI6	Interferon alpha inducible protein 6	0.9070	63

ZFP42

Group enriched (Early spermatids, Extravillous trophoblasts, Migrating cytotrophoblasts)

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.
CCNE1	Cyclin E1	0.7206	21
DLX4	Distal-less homeobox 4	0.7111	21
HLA-G	Major histocompatibility complex, class I, G	0.6980	21

Enriched transcription factors

Gene

Expression

Expression clustering

FOXI3

Cell type enhanced (Breast myoepithelial cells, Cytotrophoblasts, Migrating cytotrophoblasts, Müller glia, 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.
GATB	Glutamyl-tRNA amidotransferase subunit B	0.7180	11
PRSS35	Serine protease 35	0.7148	11
NR2E1	Nuclear receptor subfamily 2 group E member 1	0.6961	11

CEBPA

Cell type enhanced (Alveolar cells type 2, Cholangiocytes, Colonocytes, Hepatocytes, Hofbauer cells, Microglia, Monocyte progenitors, Suprabasal keratinocytes, 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.
GDE1	Glycerophosphodiester phosphodiesterase 1	0.5461	39
TINCR	TINCR ubiquitin domain containing	0.5447	13
ZNF703	Zinc finger protein 703	0.5311	39

MYBL2

Cell type enhanced (Differentiating spermatogonia, Erythrocyte progenitors, Extravillous trophoblasts, Megakaryocyte progenitors, Migrating cytotrophoblasts, Monocyte progenitors, Neutrophil progenitors, pDCs, Plasma 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.
H3C8	H3 clustered histone 8	0.7713	66
EXO1	Exonuclease 1	0.7238	66
SKA1	Spindle and kinetochore associated complex subunit 1	0.7000	66

ARID3A

Cell type enhanced (Cytotrophoblasts, Extravillous trophoblasts, Hofbauer cells, Migrating cytotrophoblasts, Neutrophil progenitors, Neutrophils, pDCs, 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.
GCM1	Glial cells missing transcription factor 1	0.7189	21
DLX3	Distal-less homeobox 3	0.6412	21
PGF	Placental growth factor	0.6295	39

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

ARID5B

Cell type enhanced (B-cells, Basal keratinocytes, Endometrial glandular cells, Smooth muscle 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.
PRDM2	PR/SET domain 2	0.5401	87
IKZF3	IKAROS family zinc finger 3	0.5007	87
NCOA3	Nuclear receptor coactivator 3	0.4748	87

BATF3

Cell type enhanced (Breast lactating cells, cDC, Choroid plexus epithelial cells, Extravillous trophoblasts, Hepatic stellate cells, Kupffer cells, Macrophages, Microglia, Migrating cytotrophoblasts, Pericytes, 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.
CLEC9A	C-type lectin domain containing 9A	0.8370	82
GPR31	G protein-coupled receptor 31	0.8358	82
C1orf54	Chromosome 1 open reading frame 54	0.8335	82

CEBPB

Cell type enhanced (Extravillous trophoblasts, monocytes, Neutrophils, 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.
SOD2	Superoxide dismutase 2	0.5924	31
TNFAIP6	TNF alpha induced protein 6	0.5870	31
IGSF6	Immunoglobulin superfamily member 6	0.5735	31

CREB3L2

Cell type enhanced (Choroid plexus epithelial cells, Plasma 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.
SEC24D	SEC24 homolog D, COPII coat complex component	0.6067	8
IGKV3D-11	Immunoglobulin kappa variable 3D-11	0.5822	44
IGHV3-72	Immunoglobulin heavy variable 3-72	0.5803	44

DLX6

Cell type enhanced (Cytotrophoblasts, Endometrial ciliated cells, Endometrial glandular cells, Endometrial luminal cells, Extravillous trophoblasts, Late primary spermatocytes, Migrating cytotrophoblasts, Oocytes, Syncytiotrophoblasts, 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.
DLX5	Distal-less homeobox 5	0.8143	52
CLDN6	Claudin 6	0.6932	21
ISM2	Isthmin 2	0.6885	21

DMAP1

Cell type enhanced (Cytotrophoblasts, Late spermatids)

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.
TAF6	TATA-box binding protein associated factor 6	0.5420	63
WRAP73	WD repeat containing, antisense to TP73	0.4981	97
R3HCC1	R3H domain and coiled-coil containing 1	0.4506	79

DNMT1

Cell type enhanced (Cytotrophoblasts, Early primary spermatocytes, Erythrocyte progenitors, Megakaryocyte progenitors, Migrating cytotrophoblasts, Monocyte progenitors, 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.
PAGE4	PAGE family member 4	0.7526	63
FOXO4	Forkhead box O4	0.7324	63
MAGEA8	MAGE family member A8	0.7185	63

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

DPRX

Cell type enhanced (Cytotrophoblasts, Early spermatids, Late spermatids, Migrating cytotrophoblasts, Oocytes, pDCs, 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.
SLC38A9	Solute carrier family 38 member 9	0.6906	39
SLC22A11	Solute carrier family 22 member 11	0.6889	39
GSTA3	Glutathione S-transferase alpha 3	0.6850	39

E2F4

Cell type enhanced (Cytotrophoblasts, Erythrocyte progenitors, Late spermatids, Migrating cytotrophoblasts)

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.
ABT1	Activator of basal transcription 1	0.5791	63
APEX2	Apurinic/apyrimidinic endodeoxyribonuclease 2	0.5046	63
MDFI	MyoD family inhibitor	0.4592	63

ELF4

Cell type enhanced (Epicardial cells, Extravillous trophoblasts, Neutrophil progenitors, Neutrophils, 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.
ZFC3H1	Zinc finger C3H1-type containing	0.5117	29
LMTK2	Lemur tyrosine kinase 2	0.5106	29
DNMBP	Dynamin binding protein	0.4793	100

EPAS1

Cell type enhanced (Conjunctival goblet cells, Extravillous trophoblasts, Pericytes, Respiratory basal cells, Respiratory secretory cells, Syncytiotrophoblasts, 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.
TACC1	Transforming acidic coiled-coil containing protein 1	0.6545	12
ADGRF5	Adhesion G protein-coupled receptor F5	0.6521	32
CDH5	Cadherin 5	0.6421	32

ETV4

Cell type enhanced (Cholangiocytes, Extravillous trophoblasts, Gastric progenitor cells, Pituitary stem cells, Syncytiotrophoblasts, 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.
CHRND	Cholinergic receptor nicotinic delta subunit	0.5659	46
FGF6	Fibroblast growth factor 6	0.5362	46
CHRNA1	Cholinergic receptor nicotinic alpha 1 subunit	0.5057	46

ETV5

Cell type enhanced (Alveolar cells type 2, Bergmann glia, Hofbauer cells, Kupffer cells, Microglia, Mucous neck cells, Oligodendrocyte progenitor cells, Pituitary stem 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.
C1QA	Complement C1q A chain	0.5869	74
SPRED1	Sprouty related EVH1 domain containing 1	0.5444	72
CSF1R	Colony stimulating factor 1 receptor	0.5366	72

ETV7

Cell type enhanced (Cytotrophoblasts, Differentiating spermatogonia, Early primary spermatocytes, Enterocytes, Epicardial cells, Esophageal basal cells, Migrating cytotrophoblasts, 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.
STRA8	Stimulated by retinoic acid 8	0.5323	106
TRBV20OR9-2	T cell receptor beta variable 20/OR9-2 (non-functional)	0.5109	63
L1TD1	LINE1 type transposase domain containing 1	0.5088	63

GATA2

Cell type enhanced (Endometrial luminal cells, Extravillous trophoblasts, Hematopoietic stem cells, Mast cells, Megakaryocyte progenitors, Megakaryocyte-Erythroid progenitors, Migrating cytotrophoblasts, Platelets, Prostatic club cells, Prostatic hillock 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.
CPA3	Carboxypeptidase A3	0.7330	58
TPSB2	Tryptase beta 2	0.7274	58
MS4A2	Membrane spanning 4-domains A2	0.7254	58

GATA3

Cell type enhanced (Breast hormone-responsive cells, Cytotrophoblasts, Extravillous trophoblasts, Migrating cytotrophoblasts, Papillary tip epithelial cells, Renal collecting duct principal cells, Renal connecting tubule cells, Syncytiotrophoblasts, 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.
XAGE2	X antigen family member 2	0.6431	21
HMGB3	High mobility group box 3	0.6233	13
GPR32	G protein-coupled receptor 32	0.6127	21

GLI3

Cell type enhanced (Astrocytes, Cytotrophoblasts, Fibro-adipogenic progenitors, Medullary thymic epithelial cells, Mesothelial cells, Pituicytes/FSCs, 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.
BOC	BOC cell adhesion associated, oncogene regulated	0.6533	91
GFRA1	GDNF family receptor alpha 1	0.5511	91
SVEP1	Sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1	0.5418	108

GRHL1

Cell type enhanced (Esophageal apical cells, Esophageal suprabasal cells, Extravillous trophoblasts, Ocular epithelial cells, Prostatic hillock cells, Suprabasal keratinocytes, Syncytiotrophoblasts, 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.
CRYBG2	Crystallin beta-gamma domain containing 2	0.6965	49
EVPL	Envoplakin	0.6887	49
S100A7	S100 calcium binding protein A7	0.6852	49

HES2

Cell type enhanced (Esophageal apical cells, Esophageal basal cells, Esophageal suprabasal cells, Fallopian tube ciliated cells, Goblet cells, Late spermatids, Ocular epithelial cells, Suprabasal keratinocytes, 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.
NECTIN4	Nectin cell adhesion molecule 4	0.5818	39
ALDH3A1	Aldehyde dehydrogenase 3 family member A1	0.5689	100
KRT5	Keratin 5	0.5495	100

HEY1

Cell type enhanced (Conjunctival goblet cells, Endometrial glandular cells, Endometrial luminal cells, Extravillous trophoblasts, Granulosa cells, Mast cells, Melanocytes, Pituitary stem cells, Respiratory secretory 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.
SEMA3G	Semaphorin 3G	0.8544	32
JAG2	Jagged canonical Notch ligand 2	0.8165	32
SLC9A3R2	SLC9A3 regulator 2	0.8070	32

HIC2

Cell type enhanced (Cytotrophoblasts, Extravillous trophoblasts, Late spermatids, Migrating cytotrophoblasts, Renal collecting duct intercalated 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.
DLX3	Distal-less homeobox 3	0.4155	21
L1TD1	LINE1 type transposase domain containing 1	0.4050	63
CDK7	Cyclin dependent kinase 7	0.3967	21

HMG20B

Cell type enhanced (Extravillous trophoblasts, Melanocytes, Migrating cytotrophoblasts, Platelets, 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.
TFAP2A	Transcription factor AP-2 alpha	0.6671	39
ILVBL	IlvB acetolactate synthase like	0.6288	13
CDK2	Cyclin dependent kinase 2	0.6100	39

HMGA1

Cell type enhanced (Cytotrophoblasts, Epididymal basal cells, Esophageal apical cells, Esophageal basal cells, Extravillous trophoblasts, Gastric progenitor cells, Migrating cytotrophoblasts, Paneth 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.
SPINT1	Serine peptidase inhibitor, Kunitz type 1	0.6299	84
PUSL1	Pseudouridine synthase like 1	0.6068	84
KLK13	Kallikrein related peptidase 13	0.6028	84

HOXC9

Cell type enhanced (Breast hormone-responsive cells, Breast myoepithelial cells, Differentiating spermatogonia, Early primary spermatocytes, Extravillous trophoblasts, Fibroblasts, Melanocytes, Oocytes, Pericytes, Smooth muscle cells, 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.
HOXC10	Homeobox C10	0.7513	108
HOXC11	Homeobox C11	0.7325	108
MATN4	Matrilin 4	0.6986	108

ID2

Cell type enhanced (cDC, Colonocytes, Endometrial luminal cells, Goblet cells, Innate lymphoid cells, Mast 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.
TRAV18	T cell receptor alpha variable 18	0.6146	82
HLA-DQB2	Major histocompatibility complex, class II, DQ beta 2	0.6082	82
CD1A	CD1a molecule	0.6074	82

IRX4

Cell type enhanced (Basal keratinocytes, Breast myoepithelial cells, Cardiomyocytes, Esophageal basal cells, Migrating cytotrophoblasts, Prostatic glandular cells, Salivary basal cells, Salivary myoepithelial cells, Submucosal glandular cells, Suprabasal keratinocytes)

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.
KRT14	Keratin 14	0.7585	26
POLR1G	RNA polymerase I subunit G	0.7255	26
DSC1	Desmocollin 1	0.7140	26

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)

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	0.8362	86
TRNP1	TMF1 regulated nuclear protein 1	0.8218	86
B4GALT6	Beta-1,4-galactosyltransferase 6	0.8201	86

KAT5

Cell type enhanced (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.
ARFGAP2	ADP ribosylation factor GTPase activating protein 2	0.5163	39
MRPL49	Mitochondrial ribosomal protein L49	0.4979	39
EIF2B2	Eukaryotic translation initiation factor 2B subunit beta	0.4883	39

MAFF

Cell type enhanced (Breast secretory cells, Endometrial glandular cells, Endometrial luminal cells, Endometrial secretory cells, Epididymal basal cells, Esophageal apical cells, Syncytiotrophoblasts, 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.
ATF3	Activating transcription factor 3	0.6761	52
CDKN1A	Cyclin dependent kinase inhibitor 1A	0.5468	103
MAFK	MAF bZIP transcription factor K	0.5385	39

MAFK

Cell type enhanced (Endometrial glandular cells, Syncytiotrophoblasts, 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.
MAFF	MAF bZIP transcription factor F	0.5385	52
CDKN1A	Cyclin dependent kinase inhibitor 1A	0.4809	103
CHMP4B	Charged multivesicular body protein 4B	0.4699	31

MSX2

Cell type enhanced (Bergmann glia, Breast hormone-responsive cells, Cytotrophoblasts, Endometrial ciliated cells, Endometrial glandular cells, Endometrial luminal cells, Migrating cytotrophoblasts, Syncytiotrophoblasts, 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.
KCNG1	Potassium voltage-gated channel modifier subfamily G member 1	0.7246	63
VGLL1	Vestigial like family member 1	0.6818	63
FOXO4	Forkhead box O4	0.6751	63

MYCL

Cell type enhanced (Cytotrophoblasts, Esophageal suprabasal cells, Hepatocytes, pDCs, Prostatic hillock cells, Respiratory deuterosomal cells, Respiratory secretory cells, Retinal pigment epithelial 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.
GCLC	Glutamate-cysteine ligase catalytic subunit	0.6500	69
PLA2G2F	Phospholipase A2 group IIF	0.6384	69
DHRS2	Dehydrogenase/reductase 2	0.6378	69

NFE2L3

Cell type enhanced (Breast secretory cells, Cytotrophoblasts, Epicardial cells, Paneth 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.
SERPINE3	Serpin family E member 3	0.6618	20
GADD45G	Growth arrest and DNA damage inducible gamma	0.6210	39
H2AX	H2A.X variant histone	0.5963	20

NOTO

Cell type enhanced (Epididymal basal cells, Gastric chief cells, Syncytiotrophoblasts, 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.
NPB	Neuropeptide B	0.6360	39
KRTAP19-1	Keratin associated protein 19-1	0.5779	39
ERVFRD-1	Endogenous retrovirus group FRD member 1, envelope	0.5738	39

NR1H2

Cell type enhanced (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.
KAT5	Lysine acetyltransferase 5	0.4867	39
CD2BP2	CD2 cytoplasmic tail binding protein 2	0.4656	97
C14orf119	Chromosome 14 open reading frame 119	0.4588	97

OSR2

Cell type enhanced (Decidual stromal cells, Endometrial stromal cells, Extravillous trophoblasts, Fibroblasts, Leydig cells, Ovarian stromal cells, Peritubular myoid cells, 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.
PROK1	Prokineticin 1	0.8208	94
LTBP4	Latent transforming growth factor beta binding protein 4	0.7815	94
PRPS2	Phosphoribosyl pyrophosphate synthetase 2	0.7572	94

OVOL1

Cell type enhanced (Breast secretory cells, Endometrial luminal cells, Epididymal basal cells, Esophageal apical cells, Esophageal suprabasal cells, Late primary spermatocytes, Late spermatids, Ocular epithelial cells, Syncytiotrophoblasts, 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.
GPR87	G protein-coupled receptor 87	0.6122	39
CRYBG2	Crystallin beta-gamma domain containing 2	0.5695	49
NECTIN4	Nectin cell adhesion molecule 4	0.5681	39

PEG3

Cell type enhanced (Brain inhibitory neurons, Cytotrophoblasts, Early primary spermatocytes, Gonadotrophs, Late spermatids, Migrating cytotrophoblasts, Other brain neurons, Ovarian stromal cells, Retinal horizontal 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.
PEG10	Paternally expressed 10	0.7550	63
DUSP9	Dual specificity phosphatase 9	0.6367	63
VGLL1	Vestigial like family member 1	0.6129	63

PHF5A

Cell type enhanced (Cytotrophoblasts, Differentiating spermatogonia, Esophageal basal cells, Extravillous trophoblasts, Migrating cytotrophoblasts, 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.
SNRPB	Small nuclear ribonucleoprotein polypeptides B and B1	0.6005	17
ABT1	Activator of basal transcription 1	0.5937	63
DPH2	Diphthamide biosynthesis 2	0.5480	17

PPARD

Cell type enhanced (Esophageal apical cells, Mast cells, monocytes, Pancreatic acinar cells, Syncytiotrophoblasts, 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.
MAPK6	Mitogen-activated protein kinase 6	0.5910	31
ARL5B	ADP ribosylation factor like GTPase 5B	0.5670	31
ADNP2	ADNP homeobox 2	0.5223	31

PPARG

Cell type enhanced (Adipocytes, Colonocytes, Extravillous trophoblasts, Foveolar cells, Papillary tip epithelial cells, Prostatic club cells, Prostatic hillock 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.
SPOCD1	SPOC domain containing 1	0.7362	69
UGT1A8	UDP glucuronosyltransferase family 1 member A8	0.6970	69
PLA2G2F	Phospholipase A2 group IIF	0.6856	69

PPP1R13L

Cell type enhanced (Cardiomyocytes, Cytotrophoblasts, Esophageal apical cells, Esophageal suprabasal cells, Granulosa cells, Ocular epithelial cells, Prostatic hillock cells, Suprabasal keratinocytes, Syncytiotrophoblasts, 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.
PLEKHN1	Pleckstrin homology domain containing N1	0.5093	85
GPR87	G protein-coupled receptor 87	0.4967	39
HERC3	HECT and RLD domain containing E3 ubiquitin protein ligase 3	0.4888	60

RCOR2

Cell type enhanced (Adrenal medulla cells, Extravillous trophoblasts, Megakaryocytes, Neuroendocrine cells, Retinal bipolar 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.
GABRA5	Gamma-aminobutyric acid type A receptor subunit alpha5	0.8144	86
LACTBL1	Lactamase beta like 1	0.7995	86
GABRB3	Gamma-aminobutyric acid type A receptor subunit beta3	0.7836	86

SHOX

Cell type enhanced (Cholangiocytes, Cone photoreceptor cells, Epicardial cells, Fibro-adipogenic progenitors, Fibroblasts, Foveolar cells, Migrating cytotrophoblasts, Myonuclei, Myosatellite cells, Parietal cells, Pericytes)

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.
ANGPTL7	Angiopoietin like 7	0.7719	108
MYOC	Myocilin	0.6487	108
KERA	Keratocan	0.6256	108

SNAI1

Cell type enhanced (Breast lactating cells, Breast myoepithelial cells, Breast secretory cells, cDC, Extravillous trophoblasts, Hepatic stellate cells, Migrating cytotrophoblasts, monocytes, pDCs, Tuft 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.
H2AX	H2A.X variant histone	0.7268	20
SLC10A1	Solute carrier family 10 member 1	0.7072	20
SRSF3	Serine and arginine rich splicing factor 3	0.6875	20

SOX14

Cell type enhanced (Brain inhibitory neurons, Cytotrophoblasts, Gastric progenitor cells, Migrating cytotrophoblasts, Parietal 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.
EXTL2	Exostosin like glycosyltransferase 2	0.7736	63
PAGE4	PAGE family member 4	0.7123	63
VSTM5	V-set and transmembrane domain containing 5	0.6996	63

SP6

Cell type enhanced (Breast lactating cells, Cytotrophoblasts, Enterocytes, Esophageal apical cells, Migrating cytotrophoblasts, Prostatic hillock 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.
FOXO4	Forkhead box O4	0.8505	63
VGLL1	Vestigial like family member 1	0.8292	63
DUSP9	Dual specificity phosphatase 9	0.8280	63

TBPL1

Cell type enhanced (Early spermatids, Late primary spermatocytes, Platelets, 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.
SPATA16	Spermatogenesis associated 16	0.7088	53
FAM170A	Family with sequence similarity 170 member A	0.6908	53
CCDC83	Coiled-coil domain containing 83	0.6793	53

TBX3

Cell type enhanced (Adrenal cortex cells, Basal prostatic cells, Breast hormone-responsive cells, Prostatic club cells, Prostatic glandular cells, Prostatic hillock 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.
KRTAP19-5	Keratin associated protein 19-5	0.5481	39
TEAD3	TEA domain transcription factor 3	0.5381	39
GSTA3	Glutathione S-transferase alpha 3	0.5354	39

TCF7L2

Cell type enhanced (Colonocytes, Extravillous trophoblasts, Foveolar cells, Kupffer 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.
SECTM1	Secreted and transmembrane 1	0.5102	40
CASP7	Caspase 7	0.4996	45
PLA2G10	Phospholipase A2 group X	0.4883	45

TEAD2

Cell type enhanced (Breast lactating cells, Decidual stromal cells, Early spermatids, Extravillous trophoblasts, Late primary spermatocytes, Late spermatids, Lymphatic endothelial cells, Pericytes, 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.
LOXL2	Lysyl oxidase like 2	0.5429	12
ADAMTS9	ADAM metallopeptidase with thrombospondin type 1 motif 9	0.5293	32
AKAP12	A-kinase anchoring protein 12	0.5061	12

TEAD3

Cell type enhanced (Cone photoreceptor cells, Esophageal apical cells, Extravillous trophoblasts, Smooth muscle 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.
BTG3	BTG anti-proliferation factor 3	0.5453	39
HSPB8	Heat shock protein family B (small) member 8	0.5399	39
TBX3	T-box transcription factor 3	0.5381	39

TEAD4

Cell type enhanced (Alveolar cells type 1, Cytotrophoblasts, Migrating cytotrophoblasts, Myonuclei, Pancreatic acinar cells, Salivary myoepithelial cells, Thymic myoid 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.
NEDD4	NEDD4 E3 ubiquitin protein ligase	0.5320	36
SLC29A2	Solute carrier family 29 member 2	0.4895	36
ADAMTS9	ADAM metallopeptidase with thrombospondin type 1 motif 9	0.4467	32

TET1

Cell type enhanced (Adipocytes, Bergmann glia, Extravillous trophoblasts, 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.
SOX5	SRY-box transcription factor 5	0.4626	89
PBX1	PBX homeobox 1	0.4610	105
NFIA	Nuclear factor I A	0.4557	91

TFAP2A

Cell type enhanced (Basal keratinocytes, Breast hormone-responsive cells, Cytotrophoblasts, Extravillous trophoblasts, Melanocytes, Migrating cytotrophoblasts, Retinal amacrine 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.
CDK2	Cyclin dependent kinase 2	0.7056	39
HMG20B	High mobility group 20B	0.6671	13
DLX3	Distal-less homeobox 3	0.6350	21

TFAP2C

Cell type enhanced (Basal keratinocytes, Breast myoepithelial cells, Breast secretory cells, Cytotrophoblasts, Esophageal apical cells, Extravillous trophoblasts, Migrating cytotrophoblasts, Salivary myoepithelial cells, Suprabasal keratinocytes, Syncytiotrophoblasts, 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.
XAGE3	X antigen family member 3	0.5722	63
MAGEA8	MAGE family member A8	0.5605	63
MORC4	MORC family CW-type zinc finger 4	0.5512	63

TFEB

Cell type enhanced (B-cells, Neutrophils, Oligodendrocytes, Renal collecting duct intercalated 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.
SSH2	Slingshot protein phosphatase 2	0.5538	24
TLR10	Toll like receptor 10	0.5286	87
LYN	LYN proto-oncogene, Src family tyrosine kinase	0.4935	24

TGIF1

Cell type enhanced (Endometrial glandular cells, Epididymal basal cells, Extravillous trophoblasts, Migrating cytotrophoblasts)

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.
HNRNPA0	Heterogeneous nuclear ribonucleoprotein A0	0.5237	15
PNRC2	Proline rich nuclear receptor coactivator 2	0.5168	103
CXCL2	C-X-C motif chemokine ligand 2	0.4932	40

TOX4

Cell type enhanced (Esophageal apical 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.
ERVFRD-1	Endogenous retrovirus group FRD member 1, envelope	0.6444	39
KRTAP19-1	Keratin associated protein 19-1	0.6407	39
CCNDBP1	Cyclin D1 binding protein 1	0.6388	39

ZFAT

Cell type enhanced (Cytotrophoblasts, Migrating cytotrophoblasts, pDCs, Proximal tubule 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.
LILRA4	Leukocyte immunoglobulin like receptor A4	0.7499	6
CLEC4C	C-type lectin domain family 4 member C	0.7391	6
P2RY6	Pyrimidinergic receptor P2Y6	0.7220	63

ZNF114

Cell type enhanced (Early spermatids, Endometrial ciliated cells, Endometrial glandular cells, Endometrial luminal cells, Extravillous trophoblasts, Migrating cytotrophoblasts, 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.
SLC30A2	Solute carrier family 30 member 2	0.7648	52
DLX5	Distal-less homeobox 5	0.7033	52
TMEM101	Transmembrane protein 101	0.6553	52

ZNF165

Cell type enhanced (Colonocytes, Early spermatids, Epididymal basal cells, Epididymal clear cells, Epididymal efferent duct ciliated cells, Epididymal principal cells, Late primary spermatocytes, 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.
DDIT3	DNA damage inducible transcript 3	0.5890	30
HOXB7	Homeobox B7	0.5831	30
CDK2AP2	Cyclin dependent kinase 2 associated protein 2	0.5629	30

ZNF211

Cell type enhanced (Bergmann glia, 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.
ZNF134	Zinc finger protein 134	0.4826	7
ZNF418	Zinc finger protein 418	0.4090	60
NEPRO	Nucleolus and neural progenitor protein	0.3736	92

ZNF354B

Cell type enhanced (Cytotrophoblasts, 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.
SP6	Sp6 transcription factor	0.4512	63
FOXO4	Forkhead box O4	0.4432	63
SLC35B4	Solute carrier family 35 member B4	0.4360	63

ZNF492

Cell type enhanced (Differentiating spermatogonia, Early primary spermatocytes, Erythrocyte progenitors, Extravillous trophoblasts, Granulosa cells, Megakaryocyte progenitors, Megakaryocyte-Erythroid progenitors, 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.
WDHD1	WD repeat and HMG-box DNA binding protein 1	0.7176	66
FAM178B	Family with sequence similarity 178 member B	0.6823	66
POLE2	DNA polymerase epsilon 2, accessory subunit	0.6374	66

ZNF554

Cell type enhanced (Adrenal medulla 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.
ATG9B	Autophagy related 9B	0.4738	39
ERVW-1	Endogenous retrovirus group W member 1, envelope	0.4631	39
LGALS16	Galectin 16	0.4506	39

ZNF626

Cell type enhanced (Breast myoepithelial cells, Extravillous trophoblasts, Retinal pigment epithelial cells, Syncytiotrophoblasts, 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.
GATA3	GATA binding protein 3	0.4434	13
GDF15	Growth differentiation factor 15	0.4401	13
VGLL3	Vestigial like family member 3	0.4311	69

ZNF672

Cell type enhanced (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.
SECISBP2L	SECIS binding protein 2 like	0.5491	39
GDE1	Glycerophosphodiester phosphodiesterase 1	0.5248	39
CCNDBP1	Cyclin D1 binding protein 1	0.5079	39

ZNF697

Cell type enhanced (Distal convoluted tubule cells, monocytes, Proximal tubule cells, Somatotrophs, 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.
ACOD1	Aconitate decarboxylase 1	0.6441	40
IL1B	Interleukin 1 beta	0.6302	40
THBS1	Thrombospondin 1	0.6298	40

ZNF724

Cell type enhanced (Differentiating spermatogonia, Early primary spermatocytes, Erythrocyte progenitors, Extravillous trophoblasts, Megakaryocyte progenitors, Megakaryocytes, 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.
XRCC2	X-ray repair cross complementing 2	0.5902	66
CHEK1	Checkpoint kinase 1	0.5852	27
CDC6	Cell division cycle 6	0.5272	3

ZNF726

Cell type enhanced (Epididymal principal cells, Extravillous trophoblasts, Migrating cytotrophoblasts)

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.
SUV39H1	SUV39H1 histone lysine methyltransferase	0.6123	27
EME1	Essential meiotic structure-specific endonuclease 1	0.4822	30
MELK	Maternal embryonic leucine zipper kinase	0.4276	27

ZNF730

Cell type enhanced (Early spermatids, Late spermatids, Megakaryocyte progenitors, Oligodendrocyte progenitor 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.
CENPJ	Centromere protein J	0.4906	14
ZNF724	Zinc finger protein 724	0.4584	27
XRCC2	X-ray repair cross complementing 2	0.4358	66

ZNF763

Cell type enhanced (Cytotrophoblasts, Late primary spermatocytes)

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.
ENSG00000267179	Novel protein	0.4638	50
EXTL2	Exostosin like glycosyltransferase 2	0.4505	63
ZNF823	Zinc finger protein 823	0.4462	63

ZNF813

Cell type enhanced (Extravillous trophoblasts, Prostatic glandular 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.
ZNF761	Zinc finger protein 761	0.6295	16
ZNF765	Zinc finger protein 765	0.5609	94
PRIM2	DNA primase subunit 2	0.5278	16

ZNF823

Cell type enhanced (Cytotrophoblasts, Esophageal apical cells, Extravillous trophoblasts, Migrating cytotrophoblasts, 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.
SMAGP	Small cell adhesion glycoprotein	0.5767	63
MAGEA8	MAGE family member A8	0.4951	63
RPIA	Ribose 5-phosphate isomerase A	0.4903	63

ZNF845

Cell type enhanced (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.
ZNF701	Zinc finger protein 701	0.5996	7
ZNF480	Zinc finger protein 480	0.5677	7
ZNF766	Zinc finger protein 766	0.5597	7

ZSCAN10

Cell type enhanced (Cytotrophoblasts, Epicardial cells, Late spermatids, Migrating cytotrophoblasts)

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.
TRBV20OR9-2	T cell receptor beta variable 20/OR9-2 (non-functional)	0.6958	63
L1TD1	LINE1 type transposase domain containing 1	0.6395	63
PAGE4	PAGE family member 4	0.6373	63

ZSCAN4

Cell type enhanced (Basal prostatic cells, Epididymal basal cells, Fallopian tube ciliated cells, Foveolar cells, Lymphatic endothelial cells, Medullary thymic epithelial cells, Papillary tip epithelial cells, Prostatic hillock cells, Salivary basal cells, Salivary duct cells, Salivary ionocytes, Syncytiotrophoblasts, 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.
MMRN1	Multimerin 1	0.6781	32
THSD1	Thrombospondin type 1 domain containing 1	0.6743	32
TBX1	T-box transcription factor 1	0.6364	32