EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
22129993	Mitochondrial oxidative stress in cancer-associated fibroblasts drives lactate production, promoting breast cancer tumor growth: understanding the aging and cancer connection.	Cell Cycle	2011 Dec 1	Balliet RM	doi: 10.4161/cc.10.23.18254
29277826	Prognostic Significance of Mitochondrial Transcription Factor A Expression in Patients with Right- or Left-sided Colorectal Cancer.	Anticancer Res	2018 Jan	Katsuki T	-
27878239	AICAR induces mitochondrial apoptosis in human osteosarcoma cells through an AMPK-dependent pathway.	Int J Oncol	2017 Jan	Morishita M	doi: 10.3892/ijo.2016.3775
26307971	Mitochondrial Transcription Factor A and Mitochondrial Genome as Molecular Targets for Cisplatin-Based Cancer Chemotherapy.	Int J Mol Sci	2015 Aug 20	Kohno K	doi: 10.3390/ijms160819836.
22098591	Mitochondrial transcription factor A regulates BCL2L1 gene expression and is a prognostic factor in serous ovarian cancer.	Cancer Sci	2012 Feb	Kurita T	doi: 10.1111/j.1349-7006.2011.02156.x
27779689	Mitochondrial transcription factor A contributes to cisplatin resistance in patients with estrogen receptorpositive breast cancer.	Mol Med Rep	2016 Dec	Gao W	doi: 10.3892/mmr.2016.5881
21453679	Human mitochondrial transcription factor A functions in both nuclei and mitochondria and regulates cancer cell growth.	Biochem Biophys Res Commun	2011 Apr 29	Han B	doi: 10.1016/j.bbrc.2011.03.114
28126676	MiR-199a-3p enhances breast cancer cell sensitivity to cisplatin by downregulating TFAM (TFAM).	Biomed Pharmacother	2017 Apr	Fan X	doi: 10.1016/j.biopha.2017.01.058
24367550	Expression and methylation of mitochondrial transcription factor a in chronic obstructive pulmonary disease patients with lung cancer.	PLoS One	2013 Dec 18	Peng H	doi: 10.1371/journal.pone.0082739
25556274	The inhibitory role of miR-214 in cervical cancer cells through directly targeting mitochondrial transcription factor A (TFAM).	Eur J Gynaecol Oncol	2014	Wen Z	-
27878255	Roles of mitochondrial transcription factor A and microRNA5903p in the development of colon cancer.	Mol Med Rep	2016 Dec	Wu K	doi: 10.3892/mmr.2016.5955
27843028	Association of a TFAM haplotype with aggressive prostate cancer in overweight or obese Mexican Mestizo men.	Urol Oncol	2017 Mar	Granados JB	doi: 10.1016/j.urolonc.2016.10.011
28440425	Mitochondrial transcription factor A (TFAM) is upregulated in glioma.	Mol Med Rep	2017 Jun	Lee H	doi: 10.3892/mmr.2017.6467
28639399	TP73-AS1 promotes breast cancer cell proliferation through miR-200a-mediated TFAM inhibition.	J Cell Biochem	2018 Jan	Yao J	doi: 10.1002/jcb.26231
28438434	Connective tissue growth factor decreases mitochondrial metabolism through ubiquitin-mediated degradation of mitochondrial transcription factor A in oral squamous cell carcinoma.	J Formos Med Assoc	2018 Mar	Lai WT	doi: 10.1016/j.jfma.2017.04.003

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr10	58388821	Splice_Site	NA	X147_splice	0.32
BLCA	chr10	58394400	Frame_Shift_Del	novel	*D194Lfs2**	0.04
BLCA	chr10	58386235	Silent	rs748212315	P39P	0.29
CESC	chr10	58390768	Missense_Mutation	novel	L149I	0.45
CESC	chr10	58388702	Silent	novel	Q108Q	0.49
CESC	chr10	58395065	Missense_Mutation	novel	E244D	0.14
CESC	chr10	58388761	Missense_Mutation	novel	S128F	0.16
COAD	chr10	58395136	3'UTR	novel		0.44
COAD	chr10	58388715	Missense_Mutation	NA	E113Q	0.34
COAD	chr10	58395148	3'UTR	novel		0.32
COAD	chr10	58385572	Missense_Mutation	NA	G9R	0.3
COAD	chr10	58394928	Splice_Region	NA	L199L	0.08
GBM	chr10	58388733	Nonsense_Mutation	novel	E119*	0.47
GBM	chr10	58394983	Missense_Mutation	novel	S217Y	0.26
GBM	chr10	58386322	Missense_Mutation	novel	F68L	0.07
GBM	chr10	58386271	Missense_Mutation	novel	K51N	0.19
HNSC	chr10	58388801	Missense_Mutation	novel	K141N	0.22
LAML	chr10	58395031	Missense_Mutation	rs375752119	R233H	0.28
LIHC	chr10	58385497	5'UTR	novel		0.39
LUAD	chr10	58395028	Missense_Mutation	novel	R232P	0.09
LUAD	chr10	58388689	Missense_Mutation	novel	R104M	0.27
LUAD	chr10	58395169	3'UTR	novel		0.29
LUSC	chr10	58386317	Missense_Mutation	rs138243284	I67V	0.17
LUSC	chr10	58395108	3'UTR	novel		0.17
LUSC	chr10	58394366	Silent	NA	L182L	0.07
LUSC	chr10	58388188	Splice_Site	NA	X74_splice	0.38
LUSC	chr10	58388765	Missense_Mutation	novel	L129F	0.23
PAAD	chr10	58395148	3'UTR	novel		0.11
PRAD	chr10	58388807	Missense_Mutation	rs553009666	M143I	0.35
READ	chr10	58394978	Missense_Mutation	NA	M215I	0.37
SKCM	chr10	58394952	Missense_Mutation	NA	D207N	0.47
SKCM	chr10	58390798	Missense_Mutation	NA	R159C	0.57
STAD	chr10	58395077	3'UTR	novel		0.14
STAD	chr10	58395079	3'UTR	novel		0.14
STAD	chr10	58394954	Silent	rs751007038	D207D	0.17
STAD	chr10	58394395	Frame_Shift_Del	novel	S193*	0.17
STAD	chr10	58390799	Missense_Mutation	novel	R159L	0.22
UCEC	chr10	58395027	Missense_Mutation	rs774009575	R232C	0.38
UCEC	chr10	58394999	Missense_Mutation	NA	M222I	0.42
UCEC	chr10	58388772	Nonsense_Mutation	novel	E132*	0.29
UCEC	chr10	58395169	3'UTR	novel		0.33
UCEC	chr10	58395049	Missense_Mutation	novel	R239Q	0.28
UCEC	chr10	58395108	3'UTR	novel		0.05
UCEC	chr10	58390798	Missense_Mutation	NA	R159C	0.11
UCEC	chr10	58386321	Missense_Mutation	novel	F68C	0.41
UCEC	chr10	58385629	Nonsense_Mutation	NA	R28*	0.19
UCEC	chr10	58395274	3'UTR	novel		0.7
UCEC	chr10	58388733	Nonsense_Mutation	novel	E119*	0.33
UCEC	chr10	58388772	Nonsense_Mutation	novel	E132*	0.47
UCEC	chr10	58390798	Missense_Mutation	NA	R159C	0.51
UCEC	chr10	58388254	Frame_Shift_Ins	novel	*I98Nfs7**	0.53
UCEC	chr10	58394372	Silent	novel	T184T	0.39
UCEC	chr10	58395049	Missense_Mutation	novel	R239Q	0.37
UCEC	chr10	58395218	3'UTR	novel		0.27
UCEC	chr10	58388222	Missense_Mutation	novel	A85T	0.35
UCEC	chr10	58394959	Missense_Mutation	novel	T209N	0.25
UCEC	chr10	58395219	3'UTR	novel		0.42

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
ACC	DEL	0.0889	0.19593
ESCA	DEL	0.1848	0.039099
KIRP	DEL	0.066	0.1975
UCEC	DEL	0.0742	0.011507

Survival Analysis

Cancer	P-value	Q-value
THYM	0.033	Kaplan-Meier Survival Analysis
KIRC	0.0001	Kaplan-Meier Survival Analysis
SARC	0.0003	Kaplan-Meier Survival Analysis
MESO	0.05	Kaplan-Meier Survival Analysis
UCS	0.048	Kaplan-Meier Survival Analysis
SKCM	0.0075	Kaplan-Meier Survival Analysis
PRAD	0.025	Kaplan-Meier Survival Analysis
KIRP	0.0063	Kaplan-Meier Survival Analysis
COAD	0.031	Kaplan-Meier Survival Analysis
PAAD	0.014	Kaplan-Meier Survival Analysis
UCEC	0.039	Kaplan-Meier Survival Analysis
GBM	0.00086	Kaplan-Meier Survival Analysis
LIHC	0.015	Kaplan-Meier Survival Analysis
LGG	0.0001	Kaplan-Meier Survival Analysis
CHOL	0.037	Kaplan-Meier Survival Analysis
LUAD	0.017	Kaplan-Meier Survival Analysis
OV	0.0016	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

PPI

Gene Ontology

Description

Ensembl ID: ENSG00000108064 (Gene tree)
Gene ID: 7019
Gene Symbol: TFAM
Alias: TCF6|TCF6L2
Full Name: transcription factor A, mitochondrial
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 14,209 bases
Position: chr10:58,385,022-58,399,230
Accession: 11741
RBP type: non-canonical RBP
Summary: This gene encodes a key mitochondrial transcription factor containing two high mobility group motifs. The encoded protein also functions in mitochondrial DNA replication and repair. Sequence polymorphisms in this gene are associated with Alzheimer's and Parkinson's diseases. There are pseudogenes for this gene on chromosomes 6, 7, and 11. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
22681889	The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts	4SURIC & HEK293	2012 May	Baltz AG	DOI: 10.1016/j.molcel.2012.05.021
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
22658674	Insights into RNA biology from an atlas of mammalian mRNA-binding proteins	RIC & Hela	2012 May 31	Castello A	DOI: 10.1016/j.cell.2012.04.031
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & Hela	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
21920408	The role of TFAM-associated proteins in mitochondrial RNA metabolism.	Biochim Biophys Acta	2012 May	Uchiumi T	doi: 10.1016/j.bbagen.2011.08.014
27814609	Mitochondrial nucleic acid binding proteins associated with diseases.	Front Biosci (Landmark Ed)	2017 Jan 1	Uchiumi T	-
19624753	DNA conformation-dependent activities of human mitochondrial RNA polymerase.	Genes Cells	2009 Aug	Fukuoh A	doi: 10.1111/j.1365-2443.2009.01328.x
27903899	Human mitochondrial transcription factors TFAM and TFB2M work synergistically in promoter melting during transcription initiation.	Nucleic Acids Res	2017 Jan 25	Ramachandran A	doi: 10.1093/nar/gkw1157
30556250	Long noncoding RNA MEG3 inhibits breast cancer growth via upregulating endoplasmic reticulum stress and activating NF-kB and p53.	J Cell Biochem	2019 Apr	Zhang Y	doi: 10.1002/jcb.27982
7559632	Identification by in Organello footprinting of protein contact sites and of single-stranded DNA sequences in the regulatory region of rat mitochondrial DNA. Protein binding sites and single-stranded DNA regions in isolated rat liver mitochondria.	J Biol Chem	1995 Oct 20	Cantatore P	-
8524270	Distinct roles for two purified factors in transcription of Xenopus mitochondrial DNA.	Mol Cell Biol	1995 Dec	Antoshechkin I	-
8473311	In organello footprinting. Analysis of protein binding at regulatory regions in bovine mitochondrial DNA.	J Biol Chem	1993 Apr 25	Ghivizzani SC	-
15684387	Control of mitochondrial transcription specificity factors (TFB1M and TFB2M) by nuclear respiratory factors (NRF-1 and NRF-2) and PGC-1 family coactivators.	Mol Cell Biol	2005 Feb	Gleyzer N	-
19424428	Ancient mtDNA genetic variants modulate mtDNA transcription and replication.	PLoS Genet	2009 May	Suissa S	doi: 10.1371/journal.pgen.1000474
17557812	Relative abundance of the human mitochondrial transcription system and distinct roles for h-mtTFB1 and h-mtTFB2 in mitochondrial biogenesis and gene expression.	Nucleic Acids Res	2007	Cotney J	-
17337445	Human mitochondrial ribosomal protein MRPL12 interacts directly with mitochondrial RNA polymerase to modulate mitochondrial gene expression.	J Biol Chem	2007 Apr 27	Wang Z	-
25612828	Suppression of Mic60 compromises mitochondrial transcription and oxidative phosphorylation.	Sci Rep	2015 Jan 23	Yang RF	doi: 10.1038/srep07990.
26545237	Mitochondrial Transcription Factor A (TFAM) Binds to RNA Containing 4-Way Junctions and Mitochondrial tRNA.	PLoS One	2015 Nov 6	Brown TA	doi: 10.1371/journal.pone.0142436
25800739	A model for transcription initiation in human mitochondria.	Nucleic Acids Res	2015 Apr 20	Morozov YI	doi: 10.1093/nar/gkv235
30190598	Structural basis of mitochondrial transcription.	Nat Struct Mol Biol	2018 Sep	Hillen HS	doi: 10.1038/s41594-018-0122-9

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000373899	TFAM-202	1121	-	-	- (aa)	-	-
ENST00000487519	TFAM-204	5414	-	ENSP00000420588	246 (aa)	-	Q00059
ENST00000373895	TFAM-201	973	-	ENSP00000363002	214 (aa)	-	Q00059
ENST00000395377	TFAM-203	663	XM_011540121	ENSP00000378776	219 (aa)	XP_011538423	H7BYN3

Gene Model

Click here to download ENSG00000108064's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa04371	Apelin signaling pathway	KEGG
hsa05016	Huntington disease	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000108064	Erythrocyte Indices	1.7820000E-005	-
ENSG00000108064	Erythrocyte Indices	1.7770000E-005	-
ENSG00000108064	Refraction, Ocular	2E-13	23396134
ENSG00000108064	Body Height	6E-6	23456168
ENSG00000108064	Migraine Disorders	2E-6	23793025

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000108064's network

* RBP PPI network refers to all genes directly bind to RBP

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0001018	mitochondrial promoter sequence-specific DNA binding	19304746.	IDA	Function
GO:0001223	transcription coactivator binding	-	IEA	Function
GO:0003682	chromatin binding	18063578.	IDA	Function
GO:0003700	DNA-binding transcription factor activity	22037171.	IMP	Function
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0005515	protein binding	12897151.25416956.29445193.29568061.	IPI	Function
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005739	mitochondrion	-	IDA	Component
GO:0005759	mitochondrial matrix	29445193.	IDA	Component
GO:0005759	mitochondrial matrix	-	TAS	Component
GO:0005829	cytosol	-	TAS	Component
GO:0006390	mitochondrial transcription	22037171.	IMP	Process
GO:0006391	transcription initiation from mitochondrial promoter	20410300.	IDA	Process
GO:0006391	transcription initiation from mitochondrial promoter	-	TAS	Process
GO:0007005	mitochondrion organization	-	TAS	Process
GO:0008301	DNA binding, bending	22037171.	IDA	Function
GO:0031072	heat shock protein binding	-	IEA	Function
GO:0032991	protein-containing complex	29445193.	IDA	Component
GO:0033108	mitochondrial respiratory chain complex assembly	-	IEA	Process
GO:0042645	mitochondrial nucleoid	18063578.	IDA	Component
GO:0043565	sequence-specific DNA binding	29445193.	IDA	Function
GO:0045893	positive regulation of transcription, DNA-templated	20410300.	IDA	Process

EuRBPDB

Note: to get the extension of tumor abbreviations.

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

PPI

Gene Ontology

Note: Click here to get the extension of tumor abbreviations.

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742

Note: to get the extension of tumor abbreviations.