Transcription factor landscape - Cell line - cervical cancer

8 different cell lines are representing cervical 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 Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (CESC), 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 17 transcription factors that show elevated expression levels in cervical 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

ZBTB7C

Cancer enriched (Cervical 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.
CRNN	Cornulin	0.8604	53
KRT4	Keratin 4	0.7879	53
KRT13	Keratin 13	0.7479	53

Enriched transcription factors

Gene

Expression

Expression clustering

FOXN1

Group enriched (Cervical cancer, Esophageal cancer, Head and neck 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.
GJB6	Gap junction protein beta 6	0.8621	53
KRT84	Keratin 84	0.8558	53
USH1G	USH1 protein network component sans	0.8493	53

CTCFL

Group enriched (Bone cancer, Cervical 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.
MEIOB	Meiosis specific with OB-fold	0.5867	4
PRSS50	Serine protease 50	0.5864	4
ENSG00000230707	Novel protein (LOC389895)	0.5064	15

NR4A3

Group enriched (Cervical cancer, Skin 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.
TYRP1	Tyrosinase related protein 1	0.9013	9
SLC45A2	Solute carrier family 45 member 2	0.8926	9
PMEL	Premelanosome protein	0.8879	9

Enriched transcription factors

Gene

Expression

Expression clustering

DLX3

Cancer enhanced (Cervical 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.
DLX4	Distal-less homeobox 4	0.7326	65
MSX2	Msh homeobox 2	0.5696	34
GH2	Growth hormone 2	0.5539	34

FOXE1

Cancer enhanced (Adrenocortical cancer, Cervical 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.
FOXN1	Forkhead box N1	0.8046	53
KRT6C	Keratin 6C	0.7560	53
FETUB	Fetuin B	0.7531	53

HMX3

Cancer enhanced (Cervical cancer, Leukemia)

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.
HMX2	H6 family homeobox 2	0.8517	24
PSD2	Pleckstrin and Sec7 domain containing 2	0.7618	24
SH2D6	SH2 domain containing 6	0.7518	24

IRX4

Cancer enhanced (Cervical cancer, Esophageal cancer, Head and neck 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.
KHDC1L	KH domain containing 1 like	0.7072	53
IL1F10	Interleukin 1 family member 10	0.6364	53
SOX15	SRY-box transcription factor 15	0.6229	53

LHX5

Cancer enhanced (Cervical cancer, Head and neck 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.
LYPD5	LY6/PLAUR domain containing 5	0.5559	4
NEU2	Neuraminidase 2	0.5371	53
PROSER2	Proline and serine rich 2	0.4680	53

MAFA

Cancer enhanced (Cervical 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.
RYR1	Ryanodine receptor 1	0.5526	33
GADL1	Glutamate decarboxylase like 1	0.5358	33
FGF8	Fibroblast growth factor 8	0.5341	33

MSX1

Cancer enhanced (Cervical 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.
NKD1	NKD inhibitor of WNT signaling pathway 1	0.7376	32
IL17RD	Interleukin 17 receptor D	0.6561	32
MYH7B	Myosin heavy chain 7B	0.6529	32

NR5A2

Cancer enhanced (Cervical 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.
LGALS2	Galectin 2	0.6523	53
CREB3L3	CAMP responsive element binding protein 3 like 3	0.6255	18
TMIGD1	Transmembrane and immunoglobulin domain containing 1	0.6055	53

PITX1

Cancer enhanced (Cervical 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.
CD14	CD14 molecule	0.5576	27
BDKRB2	Bradykinin receptor B2	0.5255	64
ENSG00000258691	Novel protein	0.4946	53

SOX15

Cancer enhanced (Cervical cancer, Esophageal cancer, Head and neck 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.
CFAP251	Cilia and flagella associated protein 251	0.7942	53
SFN	Stratifin	0.7574	53
ENSG00000289700	Novel protein	0.7498	53

SOX2

Cancer enhanced (Cervical 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.
SOX21	SRY-box transcription factor 21	0.7219	72
PCDH19	Protocadherin 19	0.6182	32
LRP1B	LDL receptor related protein 1B	0.5678	3

SP5

Cancer enhanced (Cervical cancer, Colorectal cancer, Liver 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.
NOTUM	Notum, palmitoleoyl-protein carboxylesterase	0.8076	32
NKD1	NKD inhibitor of WNT signaling pathway 1	0.7102	32
ASPSCR1	ASPSCR1 tether for SLC2A4, UBX domain containing	0.6731	70

SP6

Cancer enhanced (Cervical cancer, Colorectal 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.
ZSCAN4	Zinc finger and SCAN domain containing 4	0.7912	47
HBA2	Hemoglobin subunit alpha 2	0.7738	47
SLC4A1	Solute carrier family 4 member 1 (Diego blood group)	0.7704	47