Transcription factor landscape - Cell line - Uterine cancer

29 different cell lines are representing uterine cancer in the atlas, different ages, collection site and cancer subtypes are represented, find more details about the different cell lines here. The expression profile of the different cell lines can be explored in comparison to the bulk RNAseq transcriptomics data from TCGA's Uterine Corpus Endometrial Carcinoma (UCEC), defining the cell lines most similar to the tumour expression profile.

The mean value of the different cell lines are used as representation, when classifying gene expression based on specificity in the different cancer types represented by cell lines. To explore the expression profile in the indivudial cell lines- click the bar in the bar chart and you will reach the overivew of the different cell lines.

Here we provide the expression overview of all 14 transcription factors that show elevated expression levels in uterine cancer compared to other cancer cell lines. The gene expression overview, across different cancer types, is accopanied by the top 3 nearest neighbours based on RNA expression and correlation in the clustering analysis.

Enriched transcription factors

Gene

Expression

Expression clustering

NRL

Cancer enriched (Uterine cancer)

3 nearest neighbours based on cell line 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.
RAX2	Retina and anterior neural fold homeobox 2	0.9933	1
TPRX1	Tetrapeptide repeat homeobox 1	0.9884	1
CPNE6	Copine 6	0.9839	1

RAX2

Cancer enriched (Uterine cancer)

3 nearest neighbours based on cell line 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.
TPRX1	Tetrapeptide repeat homeobox 1	0.9941	1
NRL	Neural retina leucine zipper	0.9933	1
CPNE6	Copine 6	0.9898	1

Enriched transcription factors

Gene

Expression

Expression clustering

SOX17

Group enriched (Liver cancer, Ovarian cancer, Rhabdoid, Uterine cancer)

3 nearest neighbours based on cell line 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.
LIX1	Limb and CNS expressed 1	0.8005	15
SPON1	Spondin 1	0.7934	15
COL26A1	Collagen type XXVI alpha 1 chain	0.7854	15

PAX2

Group enriched (Kidney cancer, Ovarian cancer, Rhabdoid, Uterine cancer)

3 nearest neighbours based on cell line 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.
C10orf62	Chromosome 10 open reading frame 62	0.7155	15
BIVM-ERCC5	BIVM-ERCC5 readthrough	0.7139	15
FAM149A	Family with sequence similarity 149 member A	0.7038	15

MEOX1

Group enriched (Ovarian cancer, Rhabdoid, Sarcoma, Uterine cancer)

3 nearest neighbours based on cell line 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.
EMX2	Empty spiracles homeobox 2	0.8123	15
SPON1	Spondin 1	0.7829	15
OPRPN	Opiorphin prepropeptide	0.7747	15

PAX8

Group enriched (Kidney cancer, Ovarian cancer, Sarcoma, Thyroid cancer, Uterine cancer)

3 nearest neighbours based on cell line 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.
CLDN16	Claudin 16	0.8523	15
NYX	Nyctalopin	0.7808	15
RXFP1	Relaxin family peptide receptor 1	0.7757	15

EMX2

Group enriched (Kidney cancer, Ovarian cancer, Uterine cancer)

3 nearest neighbours based on cell line 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.
SPON1	Spondin 1	0.8397	15
OPRPN	Opiorphin prepropeptide	0.8320	15
MEOX1	Mesenchyme homeobox 1	0.8123	15

NEUROD4

Group enriched (Lung cancer, Neuroblastoma, Uterine cancer)

3 nearest neighbours based on cell line 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.
NEUROD1	Neuronal differentiation 1	0.7520	1
CABP7	Calcium binding protein 7	0.7493	10
ELAVL2	ELAV like RNA binding protein 2	0.7287	17

Enriched transcription factors

Gene

Expression

Expression clustering

CRX

Cancer enhanced (Brain cancer, Uterine cancer)

3 nearest neighbours based on cell line 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.
AIPL1	Aryl hydrocarbon receptor interacting protein like 1	0.9792	1
OTX2	Orthodenticle homeobox 2	0.9549	1
PCARE	Photoreceptor cilium actin regulator	0.9441	1

OTX2

Cancer enhanced (Bone cancer, Brain cancer, Uterine cancer)

3 nearest neighbours based on cell line 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.
CRX	Cone-rod homeobox	0.9549	1
IMPG2	Interphotoreceptor matrix proteoglycan 2	0.9527	1
NPS	Neuropeptide S	0.9337	1

POU3F3

Cancer enhanced (Kidney cancer, Uterine cancer)

3 nearest neighbours based on cell line 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.
SALL1	Spalt like transcription factor 1	0.5860	72
RFX4	Regulatory factor X4	0.5842	72
CDH16	Cadherin 16	0.5746	15

SIX6

Cancer enhanced (Leukemia, Uterine cancer)

3 nearest neighbours based on cell line 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.
CD40LG	CD40 ligand	0.7594	59
TRBJ2-1	T cell receptor beta joining 2-1	0.7511	59
MYO7B	Myosin VIIB	0.7501	59

SP7

Cancer enhanced (Uterine cancer)

3 nearest neighbours based on cell line 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.
WIF1	WNT inhibitory factor 1	0.6734	32
TNMD	Tenomodulin	0.5468	34
PCDH19	Protocadherin 19	0.5127	32

SP8

Cancer enhanced (Uterine cancer)

3 nearest neighbours based on cell line 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.
MPPED1	Metallophosphoesterase domain containing 1	0.6570	65
DLX5	Distal-less homeobox 5	0.6079	10
DLX6	Distal-less homeobox 6	0.6073	10