EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
23255232	High-mobility group box 2 (HMGB2) modulates radioresponse and is downregulated by p53 in colorectal cancer cell.	Cancer Biol Ther	2013 Mar	Shin YJ	doi: 10.4161/cbt.23292
28069585	Expression of HMGB2 indicates worse survival of patients and is required for the maintenance of Warburg effect in pancreatic cancer.	Acta Biochim Biophys Sin (Shanghai)	2017 Feb 6	Cai X	doi: 10.1093/abbs/gmw124.

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr4	173331934	3'UTR	novel		0.08
BLCA	chr4	173332710	Intron	novel		0.93
BLCA	chr4	173333593	Silent	NA	F19F	0.08
BLCA	chr4	173332826	Missense_Mutation	NA	E156K	0.41
BLCA	chr4	173332763	Intron	novel		0.19
BLCA	chr4	173332811	Intron	novel		0.2
BLCA	chr4	173331880	3'UTR	novel		0.24
BLCA	chr4	173332055	3'UTR	novel		0.48
BLCA	chr4	173332922	Missense_Mutation	NA	D124H	0.43
BLCA	chr4	173332682	Intron	novel		0.36
BLCA	chr4	173333085	Missense_Mutation	NA	A94S	0.16
BLCA	chr4	173332833	Silent	novel	E153E	0.12
BLCA	chr4	173333593	Silent	NA	F19F	0.39
BRCA	chr4	173333553	Missense_Mutation	NA	D33N	0.16
BRCA	chr4	173331892	3'UTR	novel		0.09
BRCA	chr4	173333614	Missense_Mutation	NA	K12N	0.25
BRCA	chr4	173332946	Missense_Mutation	NA	E116K	0.28
CESC	chr4	173332946	Missense_Mutation	NA	E116K	0.45
COAD	chr4	173333102	Missense_Mutation	novel	K88T	0.3
COAD	chr4	173331757	3'UTR	novel		0.67
COAD	chr4	173332021	3'UTR	novel		0.82
COAD	chr4	173332661	Intron	novel		0.3
COAD	chr4	173333057	Intron	novel		0.34
COAD	chr4	173332869	Nonsense_Mutation	novel	K141delinsN*	0.03
COAD	chr4	173332870	Missense_Mutation	novel	K141R	0.02
COAD	chr4	173333114	Missense_Mutation	NA	D84V	0.09
DLBC	chr4	173333629	Missense_Mutation	novel	N7K	0.19
ESCA	chr4	173332935	Silent	novel	G119G	0.29
ESCA	chr4	173331711	3'UTR	novel		0.33
GBM	chr4	173332744	Intron	novel		0.18
HNSC	chr4	173332281	Intron	novel		0.51
HNSC	chr4	173333555	Missense_Mutation	novel	P32R	0.2
KICH	chr4	173333499	Splice_Site	novel	X50_splice	0.5
KIRC	chr4	173332274	Intron	novel		0.18
KIRC	chr4	173332069	3'UTR	novel		0.09
KIRC	chr4	173332306	Intron	novel		0.36
KIRC	chr4	173332742	Intron	novel		0.06
KIRC	chr4	173332869	Frame_Shift_Ins	novel	*Q142Lfs5**	0.07
KIRC	chr4	173332870	Frame_Shift_Ins	novel	*K141Tfs14**	0.06
KIRP	chr4	173333624	Missense_Mutation	rs768983347	P9L	0.5
KIRP	chr4	173333096	Missense_Mutation	NA	K90R	0.37
KIRP	chr4	173331856	3'UTR	novel		0.33
LGG	chr4	173332146	Silent	novel	E188E	0.09
LIHC	chr4	173332710	Intron	novel		0.16
LIHC	chr4	173332085	Missense_Mutation	NA	E209K	0.2
LUAD	chr4	173333104	Silent	novel	G87G	0.3
LUAD	chr4	173333598	Missense_Mutation	novel	F18L	0.07
LUAD	chr4	173333131	Silent	NA	Y78Y	0.19
LUAD	chr4	173333012	Intron	novel		0.07
LUAD	chr4	173332000	3'UTR	novel		0.32
LUSC	chr4	173332100	Missense_Mutation	novel	E204K	0.78
LUSC	chr4	173333611	Missense_Mutation	NA	M13I	0.34
LUSC	chr4	173332227	Silent	novel	A161A	0.22
OV	chr4	173332722	Intron	novel		0.11
OV	chr4	173332336	Intron	novel		0.4
PAAD	chr4	173333188	Silent	novel	K59K	0.09
PAAD	chr4	173332178	Missense_Mutation	novel	P178S	0.19
PRAD	chr4	173333019	Intron	novel		0.12
PRAD	chr4	173332055	3'UTR	novel		0.22
PRAD	chr4	173332117	In_Frame_Del	rs772839338	E196_E197del	0.24
PRAD	chr4	173332102	Missense_Mutation	novel	E203G	0.05
PRAD	chr4	173333010	Intron	novel		0.06
READ	chr4	173333617	Silent	NA	G11G	0.32
READ	chr4	173332083	Missense_Mutation	NA	E209D	0.12
SARC	chr4	173332128	Silent	NA	E194E	0.13
SARC	chr4	173332270	Intron	novel		0.5
SKCM	chr4	173332826	Missense_Mutation	NA	E156K	0.06
SKCM	chr4	173333105	Missense_Mutation	NA	G87E	0.24
SKCM	chr4	173332896	Missense_Mutation	novel	M132I	0.37
SKCM	chr4	173332982	Silent	rs756968769	L104L	0.31
SKCM	chr4	173333127	Missense_Mutation	novel	P80S	0.39
SKCM	chr4	173331947	3'UTR	novel		0.13
STAD	chr4	173332631	Intron	novel		0.21
STAD	chr4	173333099	Missense_Mutation	NA	K89T	0.16
STAD	chr4	173333165	Missense_Mutation	NA	D67G	0.4
STAD	chr4	173332720	Intron	novel		0.26
STAD	chr4	173333211	Missense_Mutation	NA	M52V	0.1
STAD	chr4	173331915	3'UTR	novel		0.31
STAD	chr4	173333096	Frame_Shift_Del	novel	*K90Rfs62**	0.06
UCEC	chr4	173332155	Missense_Mutation	rs766247171	N185K	0.17
UCEC	chr4	173332121	Nonsense_Mutation	NA	E197*	0.37
UCEC	chr4	173331973	3'UTR	novel		0.27
UCEC	chr4	173333566	Silent	NA	K28K	0.18
UCEC	chr4	173332854	Missense_Mutation	novel	Q146H	0.05
UCEC	chr4	173331819	3'UTR	novel		0.27
UCEC	chr4	173331737	3'UTR	novel		0.31
UCEC	chr4	173332614	Intron	novel		0.13
UCEC	chr4	173333074	Silent	novel	R97R	0.06
UCEC	chr4	173332125	Silent	NA	E195E	0.41
UCEC	chr4	173332039	3'UTR	rs188735484		0.33
UCEC	chr4	173332871	Missense_Mutation	novel	K141E	0.2
UCEC	chr4	173331960	3'UTR	novel		0.27
UCEC	chr4	173332140	Silent	novel	E190E	0.2
UCEC	chr4	173333189	Missense_Mutation	novel	K59T	0.32
UCEC	chr4	173331824	3'UTR	novel		0.35
UCEC	chr4	173331915	3'UTR	novel		0.17
UCEC	chr4	173331941	3'UTR	novel		0.43
UCEC	chr4	173332739	Intron	novel		0.16
UCEC	chr4	173332819	Splice_Site	NA	X157_splice	0.32
UCEC	chr4	173333622	Missense_Mutation	novel	R10W	0.39
UCEC	chr4	173331819	3'UTR	novel		0.45
UCEC	chr4	173332605	Intron	novel		0.5
UCEC	chr4	173331723	3'UTR	novel		0.3
UCEC	chr4	173331920	3'UTR	novel		0.26
UCEC	chr4	173332070	3'UTR	novel		0.12
UCEC	chr4	173333092	Silent	novel	D91D	0.36
UCEC	chr4	173332789	Intron	novel		0.14
UCEC	chr4	173333096	Missense_Mutation	NA	K90R	0.12
UCEC	chr4	173332624	Intron	novel		0.24
UCEC	chr4	173332974	Nonsense_Mutation	NA	C106*	0.12
UCEC	chr4	173332128	Silent	NA	E194E	0.23
UCEC	chr4	173332059	3'UTR	rs200677168		0.18
UCEC	chr4	173333540	Missense_Mutation	rs772843489	N37S	0.38
UCEC	chr4	173332538	Intron	novel		0.46
UCEC	chr4	173332274	Intron	novel		0.15
UCEC	chr4	173332102	Missense_Mutation	novel	E203G	0.42
UCEC	chr4	173331768	3'UTR	novel		0.28
UCS	chr4	173333022	Intron	novel		0.29

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
ACC	DEL	0.1556	2.13e-13
BLCA	DEL	0.3162	3.0518e-13
DLBC	DEL	0.125	0.037264
ESCA	DEL	0.4674	0.000831
KIRC	DEL	0.1098	0.0008848
MESO	DEL	0.3678	0.10007
PAAD	DEL	0.1087	0.027407
PCPG	DEL	0.0741	0.003794
THCA	DEL	0.006	0.065321

Survival Analysis

Cancer	P-value	Q-value
THYM	0.008	Kaplan-Meier Survival Analysis
KIRC	0.0003	Kaplan-Meier Survival Analysis
STAD	0.025	Kaplan-Meier Survival Analysis
MESO	0.00011	Kaplan-Meier Survival Analysis
ACC	0.0001	Kaplan-Meier Survival Analysis
UCS	0.049	Kaplan-Meier Survival Analysis
SKCM	0.0032	Kaplan-Meier Survival Analysis
TGCT	0.032	Kaplan-Meier Survival Analysis
KIRP	0.00029	Kaplan-Meier Survival Analysis
PAAD	0.0034	Kaplan-Meier Survival Analysis
BLCA	0.035	Kaplan-Meier Survival Analysis
CESC	0.018	Kaplan-Meier Survival Analysis
LAML	0.016	Kaplan-Meier Survival Analysis
LIHC	0.00046	Kaplan-Meier Survival Analysis
DLBC	0.035	Kaplan-Meier Survival Analysis
LUAD	0.019	Kaplan-Meier Survival Analysis
UVM	0.0068	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000164104 (Gene tree)
Gene ID: 3148
Gene Symbol: HMGB2
Alias: HMG2
Full Name: high mobility group box 2
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 3,750 bases
Position: chr4:173,331,376-173,335,125
Accession: 5000
RBP type: non-canonical RBP
Summary: This gene encodes a member of the non-histone chromosomal high mobility group protein family. The proteins of this family are chromatin-associated and ubiquitously distributed in the nucleus of higher eukaryotic cells. In vitro studies have demonstrated that this protein is able to efficiently bend DNA and form DNA circles. These studies suggest a role in facilitating cooperative interactions between cis-acting proteins by promoting DNA flexibility. This protein was also reported to be involved in the final ligation step in DNA end-joining processes of DNA double-strand breaks repair and V(D)J recombination. [provided by RefSeq, Jul 2008]

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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
27453046	Comprehensive Identification of RNA-Binding Domains in Human Cells	RIC & Hela	2016 Aug 18	Castello A	DOI: 10.1016/j.molcel.2016.06.029

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
14703492	[Construction of subtracted cDNA library in human Jurkat T cell line induced by arsenic trioxide in vitro].	Zhonghua Yu Fang Yi Xue Za Zhi	2003 Nov	Zhang YX	-

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000446922	HMGB2-203	1175	-	ENSP00000393448	209 (aa)	-	P26583
ENST00000511316	HMGB2-205	1841	-	-	- (aa)	-	-
ENST00000506267	HMGB2-204	629	-	ENSP00000423001	134 (aa)	-	D6R9A6
ENST00000296503	HMGB2-201	1889	-	ENSP00000296503	209 (aa)	-	P26583
ENST00000438704	HMGB2-202	1032	-	ENSP00000404912	209 (aa)	-	P26583

Gene Model

Click here to download ENSG00000164104's gene model file

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000164104's network

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

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000164104	HMGB2	100	97.761	ENSMUSG00000054717	Hmgb2	100	98.990	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000400	four-way junction DNA binding	-	ISS	Function
GO:0000790	nuclear chromatin	21873635.	IBA	Component
GO:0000790	nuclear chromatin	-	ISS	Component
GO:0000793	condensed chromosome	12925773.	IDA	Component
GO:0001158	enhancer sequence-specific DNA binding	-	ISS	Function
GO:0001938	positive regulation of endothelial cell proliferation	19811285.	IDA	Process
GO:0002437	inflammatory response to antigenic stimulus	-	ISS	Process
GO:0003677	DNA binding	11909973.	IMP	Function
GO:0003684	damaged DNA binding	8226934.	IDA	Function
GO:0003690	double-stranded DNA binding	-	ISS	Function
GO:0003697	single-stranded DNA binding	-	ISS	Function
GO:0003713	transcription coactivator activity	19223331.	IDA	Function
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0005515	protein binding	9636147.11909973.25416956.	IPI	Function
GO:0005615	extracellular space	19811285.	IDA	Component
GO:0005623	cell	15496585.	IDA	Component
GO:0005634	nucleus	8339930.11909973.	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005730	nucleolus	-	IDA	Component
GO:0005737	cytoplasm	21873635.	IBA	Component
GO:0005737	cytoplasm	11909973.	IDA	Component
GO:0006265	DNA topological change	-	ISS	Process
GO:0006309	apoptotic DNA fragmentation	-	TAS	Process
GO:0006310	DNA recombination	21873635.	IBA	Process
GO:0006325	chromatin organization	11909973.	NAS	Process
GO:0006334	nucleosome assembly	11909973.	NAS	Process
GO:0006338	chromatin remodeling	21873635.	IBA	Process
GO:0006357	regulation of transcription by RNA polymerase II	21873635.	IBA	Process
GO:0006357	regulation of transcription by RNA polymerase II	7797075.	IDA	Process
GO:0007289	spermatid nucleus differentiation	-	IEA	Process
GO:0008134	transcription factor binding	21873635.	IBA	Function
GO:0008134	transcription factor binding	-	ISS	Function
GO:0008144	drug binding	-	ISS	Function
GO:0008301	DNA binding, bending	21873635.	IBA	Function
GO:0008301	DNA binding, bending	8339930.11909973.	IDA	Function
GO:0008584	male gonad development	-	IEA	Process
GO:0019904	protein domain specific binding	-	IEA	Function
GO:0032075	positive regulation of nuclease activity	978439.	IDA	Process
GO:0032392	DNA geometric change	-	ISS	Process
GO:0032496	response to lipopolysaccharide	-	ISS	Process
GO:0032728	positive regulation of interferon-beta production	-	IEA	Process
GO:0032991	protein-containing complex	11909973.	IDA	Component
GO:0033151	V(D)J recombination	-	ISS	Process
GO:0042056	chemoattractant activity	19811285.	IDA	Function
GO:0042493	response to drug	-	ISS	Process
GO:0043388	positive regulation of DNA binding	19965638.	IDA	Process
GO:0044212	transcription regulatory region DNA binding	19965638.	IDA	Function
GO:0044378	non-sequence-specific DNA binding, bending	-	ISS	Function
GO:0045087	innate immune response	-	IEA	Process
GO:0045089	positive regulation of innate immune response	21873635.	IBA	Process
GO:0045648	positive regulation of erythrocyte differentiation	19965638.	IMP	Process
GO:0045654	positive regulation of megakaryocyte differentiation	19965638.	IMP	Process
GO:0045892	negative regulation of transcription, DNA-templated	9636147.	IDA	Process
GO:0045893	positive regulation of transcription, DNA-templated	19965638.	IDA	Process
GO:0045944	positive regulation of transcription by RNA polymerase II	21873635.	IBA	Process
GO:0045944	positive regulation of transcription by RNA polymerase II	19223331.19965638.	IDA	Process
GO:0048471	perinuclear region of cytoplasm	9010268.11909973.	IDA	Component
GO:0048545	response to steroid hormone	-	IEA	Process
GO:0050767	regulation of neurogenesis	-	ISS	Process
GO:0050786	RAGE receptor binding	19811285.	IGI	Function
GO:0050829	defense response to Gram-negative bacterium	23877675.	IDA	Process
GO:0050830	defense response to Gram-positive bacterium	23877675.	IDA	Process
GO:0050918	positive chemotaxis	-	IEA	Process
GO:0051103	DNA ligation involved in DNA repair	-	ISS	Process
GO:0060326	cell chemotaxis	19811285.	IDA	Process
GO:0071222	cellular response to lipopolysaccharide	19811285.	IEP	Process
GO:0072091	regulation of stem cell proliferation	-	ISS	Process
GO:0097100	supercoiled DNA binding	-	ISS	Function
GO:1902042	negative regulation of extrinsic apoptotic signaling pathway via death domain receptors	-	IEA	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

PPI

Orthologs

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.