Transcription factor landscape - Cell line - prostate cancer

8 different cell lines are representing prostate 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 Prostate Adenocarcinoma (PRAD), 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 0 transcription factors that show elevated expression levels in prostate 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

NKX3-1

Cancer enriched (Prostate 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.
KLK2	Kallikrein related peptidase 2	0.9646	60
DEFB132	Defensin beta 132	0.9531	60
KLK3	Kallikrein related peptidase 3	0.9517	60

Cancer enriched (Prostate 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.
KLK2	Kallikrein related peptidase 2	0.9473	60
NKX3-1	NK3 homeobox 1	0.9277	60
CWH43	Cell wall biogenesis 43 C-terminal homolog	0.9248	60

HOXB13

Cancer enriched (Prostate 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.
PRAC1	PRAC1 small nuclear protein	0.9562	60
CEACAM20	CEA cell adhesion molecule 20	0.9426	60
KLK3	Kallikrein related peptidase 3	0.9376	60

FOXD4

Cancer enriched (Prostate 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.
GLYATL1	Glycine-N-acyltransferase like 1	0.7431	60
CHRNA2	Cholinergic receptor nicotinic alpha 2 subunit	0.7419	60
DEFB132	Defensin beta 132	0.7085	60

NEUROG3

Cancer enriched (Prostate 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.
ASCL1	Achaete-scute family bHLH transcription factor 1	0.6822	10
CBFA2T2	CBFA2/RUNX1 partner transcriptional co-repressor 2	0.6617	10
SLC26A5	Solute carrier family 26 member 5	0.6424	10

Enriched transcription factors

Gene

Expression

Expression clustering

SPDEF

Group enriched (Breast cancer, Prostate 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.
NCBP2L	Nuclear cap binding protein subunit 2 like	0.8148	27
SRARP	Steroid receptor associated and regulated protein	0.8060	27
CREB3L4	CAMP responsive element binding protein 3 like 4	0.7814	27

ERG

Group enriched (Leukemia, Prostate 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.
LRRC70	Leucine rich repeat containing 70	0.7254	48
FLI1	Fli-1 proto-oncogene, ETS transcription factor	0.7061	48
ARRDC5	Arrestin domain containing 5	0.6476	6

NKX2-1

Group enriched (Lung cancer, Prostate cancer, Thyroid 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.
MBIP	MAP3K12 binding inhibitory protein 1	0.8413	30
SFTPA1	Surfactant protein A1	0.7135	53
MFSD4A	Major facilitator superfamily domain containing 4A	0.6778	53

ZBTB16

Group enriched (Leukemia, Prostate 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.
IGHD3-22	Immunoglobulin heavy diversity 3-22	0.6734	14
SELP	Selectin P	0.6592	47
MPL	MPL proto-oncogene, thrombopoietin receptor	0.6507	47

ASCL1

Group enriched (Lung cancer, Neuroblastoma, Prostate 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.
SCGN	Secretagogin, EF-hand calcium binding protein	0.8816	10
OR51G2	Olfactory receptor family 51 subfamily G member 2	0.8777	10
OR51C1P	Olfactory receptor family 51 subfamily C member 1 pseudogene	0.8528	10

FOXA1

Group enriched (Breast cancer, Gallbladder cancer, Prostate 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.
TTC6	Tetratricopeptide repeat domain 6	0.7987	60
SPDEF	SAM pointed domain containing ETS transcription factor	0.7338	27
NCBP2L	Nuclear cap binding protein subunit 2 like	0.6538	27

Enriched transcription factors

Gene

Expression

Expression clustering

ETV1

Cancer enhanced (Prostate 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.
AADAT	Aminoadipate aminotransferase	0.6054	60
HOXB13	Homeobox B13	0.5592	60
SPRY4	Sprouty RTK signaling antagonist 4	0.5578	69

FOXB1

Cancer enhanced (Leukemia, Prostate 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.
UBASH3A	Ubiquitin associated and SH3 domain containing A	0.7115	59
KRT73	Keratin 73	0.5810	59
RBPJL	Recombination signal binding protein for immunoglobulin kappa J region like	0.5773	59

FOXD4L5

Cancer enhanced (Prostate 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.
FOXD4L4	Forkhead box D4 like 4	0.8093	10
DAZ2	Deleted in azoospermia 2	0.7205	10
FOXD4L6	Forkhead box D4 like 6	0.7041	10

FOXN4

Cancer enhanced (Neuroblastoma, Prostate 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.
TEKT2	Tektin 2	0.6159	10
PKD2L1	Polycystin 2 like 1, transient receptor potential cation channel	0.5806	10
POU4F2	POU class 4 homeobox 2	0.5657	10

MESP1

Cancer enhanced (Prostate 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.
NETO1	Neuropilin and tolloid like 1	0.6512	60
RLN1	Relaxin 1	0.6270	60
TRIM49D2	Tripartite motif containing 49D2	0.6227	60

NFIX

Cancer enhanced (Prostate 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.
NFIC	Nuclear factor I C	0.6076	23
MLLT1	MLLT1 super elongation complex subunit	0.5838	23
PLA2G5	Phospholipase A2 group V	0.5486	72

PEG3

Cancer enhanced (Prostate cancer, Rhabdoid)

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.
ZIM2	Zinc finger imprinted 2	0.7846	5
PRND	Prion like protein doppel	0.7506	5
CETN1	Centrin 1	0.7495	5

RORC

Cancer enhanced (Breast cancer, Prostate 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.
LINGO4	Leucine rich repeat and Ig domain containing 4	0.8230	71
CLDN24	Claudin 24	0.7500	71
CLEC4F	C-type lectin domain family 4 member F	0.7237	71

SIM2

Cancer enhanced (Prostate 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.
PRAC2	PRAC2 small nuclear protein	0.5766	60
PRAC1	PRAC1 small nuclear protein	0.5546	60
VSTM5	V-set and transmembrane domain containing 5	0.5417	60

TBX3

Cancer enhanced (Neuroblastoma, Prostate 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.
CHRM1	Cholinergic receptor muscarinic 1	0.5101	17
MYRIP	Myosin VIIA and Rab interacting protein	0.4944	60
AADAT	Aminoadipate aminotransferase	0.4847	60

ZBTB45

Cancer enhanced (Prostate 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.
RLN1	Relaxin 1	0.7255	60
TRIM49D2	Tripartite motif containing 49D2	0.7234	60
GLYATL1	Glycine-N-acyltransferase like 1	0.7092	60

ZNF350

Cancer enhanced (Prostate 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.
ZNF613	Zinc finger protein 613	0.9131	60
ZNF577	Zinc finger protein 577	0.8257	60
ZNF649	Zinc finger protein 649	0.7994	60

ZNF613

Cancer enhanced (Prostate 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.
ZNF350	Zinc finger protein 350	0.9131	60
ZNF615	Zinc finger protein 615	0.8433	60
ZNF649	Zinc finger protein 649	0.8358	60