EuRBPDB

  • Home
  • Cancer
  • Family
  • Species
  • RBPredictor
  • Search
  • Download
  • Submit
  • Help
  • Contact
TCGA tumor abbreviations
  • ACCAdrenocortical carcinoma
  • BLCABladder Urothelial Carcinoma
  • BRCABreast invasive carcinoma
  • CESCCervical squamous cell carcinoma and endocervical adenocarcinoma
  • CHOLCholangio carcinoma
  • COADColon adenocarcinoma
  • DLBCLymphoid Neoplasm Diffuse Large B-cell Lymphoma
  • ESCAEsophageal carcinoma
  • GBMGlioblastoma multiforme
  • HNSCHead and Neck squamous cell carcinoma
  • KICHKidney Chromophobe
  • KIRCKidney renal clear cell carcinoma
  • KIRPKidney renal papillary cell carcinoma
  • LAMLAcute Myeloid Leukemia
  • LGGBrain Lower Grade Glioma
  • LIHCLiver hepatocellular carcinoma
  • LUADLung adenocarcinoma
  • LUSCLung squamous cell carcinoma
  • MESOMesothelioma
  • OVOvarian serous cystadenocarcinoma
  • PAADPancreatic adenocarcinoma
  • PCPGPheochromocytoma and Paraganglioma
  • PRADProstate adenocarcinoma
  • READRectum adenocarcinoma
  • SARCSarcoma
  • SKCMSkin Cutaneous Melanoma
  • STADStomach adenocarcinoma
  • TGCTThyroid carcinoma
  • THCAThyroid carcinoma
  • THYMThymoma
  • UCECUterine Corpus Endometrial Carcinoma
  • UCSUterine Carcinosarcoma
  • UVMUveal Melanoma

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


  • Cancer Related Information
  • Basic Information

Cancer associated literatures
PIDTitleArticle TimeAuthorDoi
23255232High-mobility group box 2 (HMGB2) modulates radioresponse and is downregulated by p53 in colorectal cancer cell.Cancer Biol Ther2013 MarShin YJdoi: 10.4161/cbt.23292
28069585Expression 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 6Cai Xdoi: 10.1093/abbs/gmw124.

Differential Expression

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
BLCAchr41733319343'UTRnovel0.08
BLCAchr4173332710Intronnovel0.93
BLCAchr4173333593SilentNAF19F0.08
BLCAchr4173332826Missense_MutationNAE156K0.41
BLCAchr4173332763Intronnovel0.19
BLCAchr4173332811Intronnovel0.2
BLCAchr41733318803'UTRnovel0.24
BLCAchr41733320553'UTRnovel0.48
BLCAchr4173332922Missense_MutationNAD124H0.43
BLCAchr4173332682Intronnovel0.36
BLCAchr4173333085Missense_MutationNAA94S0.16
BLCAchr4173332833SilentnovelE153E0.12
BLCAchr4173333593SilentNAF19F0.39
BRCAchr4173333553Missense_MutationNAD33N0.16
BRCAchr41733318923'UTRnovel0.09
BRCAchr4173333614Missense_MutationNAK12N0.25
BRCAchr4173332946Missense_MutationNAE116K0.28
CESCchr4173332946Missense_MutationNAE116K0.45
COADchr4173333102Missense_MutationnovelK88T0.3
COADchr41733317573'UTRnovel0.67
COADchr41733320213'UTRnovel0.82
COADchr4173332661Intronnovel0.3
COADchr4173333057Intronnovel0.34
COADchr4173332869Nonsense_MutationnovelK141delinsN*0.03
COADchr4173332870Missense_MutationnovelK141R0.02
COADchr4173333114Missense_MutationNAD84V0.09
DLBCchr4173333629Missense_MutationnovelN7K0.19
ESCAchr4173332935SilentnovelG119G0.29
ESCAchr41733317113'UTRnovel0.33
GBMchr4173332744Intronnovel0.18
HNSCchr4173332281Intronnovel0.51
HNSCchr4173333555Missense_MutationnovelP32R0.2
KICHchr4173333499Splice_SitenovelX50_splice0.5
KIRCchr4173332274Intronnovel0.18
KIRCchr41733320693'UTRnovel0.09
KIRCchr4173332306Intronnovel0.36
KIRCchr4173332742Intronnovel0.06
KIRCchr4173332869Frame_Shift_InsnovelQ142Lfs*50.07
KIRCchr4173332870Frame_Shift_InsnovelK141Tfs*140.06
KIRPchr4173333624Missense_Mutationrs768983347P9L0.5
KIRPchr4173333096Missense_MutationNAK90R0.37
KIRPchr41733318563'UTRnovel0.33
LGGchr4173332146SilentnovelE188E0.09
LIHCchr4173332710Intronnovel0.16
LIHCchr4173332085Missense_MutationNAE209K0.2
LUADchr4173333104SilentnovelG87G0.3
LUADchr4173333598Missense_MutationnovelF18L0.07
LUADchr4173333131SilentNAY78Y0.19
LUADchr4173333012Intronnovel0.07
LUADchr41733320003'UTRnovel0.32
LUSCchr4173332100Missense_MutationnovelE204K0.78
LUSCchr4173333611Missense_MutationNAM13I0.34
LUSCchr4173332227SilentnovelA161A0.22
OVchr4173332722Intronnovel0.11
OVchr4173332336Intronnovel0.4
PAADchr4173333188SilentnovelK59K0.09
PAADchr4173332178Missense_MutationnovelP178S0.19
PRADchr4173333019Intronnovel0.12
PRADchr41733320553'UTRnovel0.22
PRADchr4173332117In_Frame_Delrs772839338E196_E197del0.24
PRADchr4173332102Missense_MutationnovelE203G0.05
PRADchr4173333010Intronnovel0.06
READchr4173333617SilentNAG11G0.32
READchr4173332083Missense_MutationNAE209D0.12
SARCchr4173332128SilentNAE194E0.13
SARCchr4173332270Intronnovel0.5
SKCMchr4173332826Missense_MutationNAE156K0.06
SKCMchr4173333105Missense_MutationNAG87E0.24
SKCMchr4173332896Missense_MutationnovelM132I0.37
SKCMchr4173332982Silentrs756968769L104L0.31
SKCMchr4173333127Missense_MutationnovelP80S0.39
SKCMchr41733319473'UTRnovel0.13
STADchr4173332631Intronnovel0.21
STADchr4173333099Missense_MutationNAK89T0.16
STADchr4173333165Missense_MutationNAD67G0.4
STADchr4173332720Intronnovel0.26
STADchr4173333211Missense_MutationNAM52V0.1
STADchr41733319153'UTRnovel0.31
STADchr4173333096Frame_Shift_DelnovelK90Rfs*620.06
UCECchr4173332155Missense_Mutationrs766247171N185K0.17
UCECchr4173332121Nonsense_MutationNAE197*0.37
UCECchr41733319733'UTRnovel0.27
UCECchr4173333566SilentNAK28K0.18
UCECchr4173332854Missense_MutationnovelQ146H0.05
UCECchr41733318193'UTRnovel0.27
UCECchr41733317373'UTRnovel0.31
UCECchr4173332614Intronnovel0.13
UCECchr4173333074SilentnovelR97R0.06
UCECchr4173332125SilentNAE195E0.41
UCECchr41733320393'UTRrs1887354840.33
UCECchr4173332871Missense_MutationnovelK141E0.2
UCECchr41733319603'UTRnovel0.27
UCECchr4173332140SilentnovelE190E0.2
UCECchr4173333189Missense_MutationnovelK59T0.32
UCECchr41733318243'UTRnovel0.35
UCECchr41733319153'UTRnovel0.17
UCECchr41733319413'UTRnovel0.43
UCECchr4173332739Intronnovel0.16
UCECchr4173332819Splice_SiteNAX157_splice0.32
UCECchr4173333622Missense_MutationnovelR10W0.39
UCECchr41733318193'UTRnovel0.45
UCECchr4173332605Intronnovel0.5
UCECchr41733317233'UTRnovel0.3
UCECchr41733319203'UTRnovel0.26
UCECchr41733320703'UTRnovel0.12
UCECchr4173333092SilentnovelD91D0.36
UCECchr4173332789Intronnovel0.14
UCECchr4173333096Missense_MutationNAK90R0.12
UCECchr4173332624Intronnovel0.24
UCECchr4173332974Nonsense_MutationNAC106*0.12
UCECchr4173332128SilentNAE194E0.23
UCECchr41733320593'UTRrs2006771680.18
UCECchr4173333540Missense_Mutationrs772843489N37S0.38
UCECchr4173332538Intronnovel0.46
UCECchr4173332274Intronnovel0.15
UCECchr4173332102Missense_MutationnovelE203G0.42
UCECchr41733317683'UTRnovel0.28
UCSchr4173333022Intronnovel0.29

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
ACCDEL0.15562.13e-13
BLCADEL0.31623.0518e-13
DLBCDEL0.1250.037264
ESCADEL0.46740.000831
KIRCDEL0.10980.0008848
MESODEL0.36780.10007
PAADDEL0.10870.027407
PCPGDEL0.07410.003794
THCADEL0.0060.065321

Survival Analysis
CancerP-value Q-value
THYM0.008

Kaplan-Meier Survival Analysis

KIRC0.0003

Kaplan-Meier Survival Analysis

STAD0.025

Kaplan-Meier Survival Analysis

MESO0.00011

Kaplan-Meier Survival Analysis

ACC0.0001

Kaplan-Meier Survival Analysis

UCS0.049

Kaplan-Meier Survival Analysis

SKCM0.0032

Kaplan-Meier Survival Analysis

TGCT0.032

Kaplan-Meier Survival Analysis

KIRP0.00029

Kaplan-Meier Survival Analysis

PAAD0.0034

Kaplan-Meier Survival Analysis

BLCA0.035

Kaplan-Meier Survival Analysis

CESC0.018

Kaplan-Meier Survival Analysis

LAML0.016

Kaplan-Meier Survival Analysis

LIHC0.00046

Kaplan-Meier Survival Analysis

DLBC0.035

Kaplan-Meier Survival Analysis

LUAD0.019

Kaplan-Meier Survival Analysis

UVM0.0068

Kaplan-Meier Survival Analysis

Drugs

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
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)
PIDTitleMethod TimeAuthorDoi
22681889The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts4SURIC & HEK2932012 MayBaltz AGDOI: 10.1016/j.molcel.2012.05.021
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & HEK2932019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & HEK2932018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
22658674Insights into RNA biology from an atlas of mammalian mRNA-binding proteinsRIC & Hela2012 May 31Castello ADOI: 10.1016/j.cell.2012.04.031
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & MCF10A2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & U2OS2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
27453046Comprehensive Identification of RNA-Binding Domains in Human CellsRIC & Hela2016 Aug 18Castello ADOI: 10.1016/j.molcel.2016.06.029

Literatures on RNA binding capacity
PIDTitleArticle TimeAuthorDoi
14703492[Construction of subtracted cDNA library in human Jurkat T cell line induced by arsenic trioxide in vitro].Zhonghua Yu Fang Yi Xue Za Zhi2003 NovZhang YX-
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000446922HMGB2-2031175-ENSP00000393448209 (aa)-P26583
ENST00000511316HMGB2-2051841--- (aa)--
ENST00000506267HMGB2-204629-ENSP00000423001134 (aa)-D6R9A6
ENST00000296503HMGB2-2011889-ENSP00000296503209 (aa)-P26583
ENST00000438704HMGB2-2021032-ENSP00000404912209 (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 IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000164104HMGB210097.761ENSMUSG00000054717Hmgb210098.990Mus_musculus
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000400four-way junction DNA binding-ISSFunction
GO:0000790nuclear chromatin21873635.IBAComponent
GO:0000790nuclear chromatin-ISSComponent
GO:0000793condensed chromosome12925773.IDAComponent
GO:0001158enhancer sequence-specific DNA binding-ISSFunction
GO:0001938positive regulation of endothelial cell proliferation19811285.IDAProcess
GO:0002437inflammatory response to antigenic stimulus-ISSProcess
GO:0003677DNA binding11909973.IMPFunction
GO:0003684damaged DNA binding8226934.IDAFunction
GO:0003690double-stranded DNA binding-ISSFunction
GO:0003697single-stranded DNA binding-ISSFunction
GO:0003713transcription coactivator activity19223331.IDAFunction
GO:0003723RNA binding22658674.22681889.HDAFunction
GO:0005515protein binding9636147.11909973.25416956.IPIFunction
GO:0005615extracellular space19811285.IDAComponent
GO:0005623cell15496585.IDAComponent
GO:0005634nucleus8339930.11909973.IDAComponent
GO:0005654nucleoplasm-TASComponent
GO:0005730nucleolus-IDAComponent
GO:0005737cytoplasm21873635.IBAComponent
GO:0005737cytoplasm11909973.IDAComponent
GO:0006265DNA topological change-ISSProcess
GO:0006309apoptotic DNA fragmentation-TASProcess
GO:0006310DNA recombination21873635.IBAProcess
GO:0006325chromatin organization11909973.NASProcess
GO:0006334nucleosome assembly11909973.NASProcess
GO:0006338chromatin remodeling21873635.IBAProcess
GO:0006357regulation of transcription by RNA polymerase II21873635.IBAProcess
GO:0006357regulation of transcription by RNA polymerase II7797075.IDAProcess
GO:0007289spermatid nucleus differentiation-IEAProcess
GO:0008134transcription factor binding21873635.IBAFunction
GO:0008134transcription factor binding-ISSFunction
GO:0008144drug binding-ISSFunction
GO:0008301DNA binding, bending21873635.IBAFunction
GO:0008301DNA binding, bending8339930.11909973.IDAFunction
GO:0008584male gonad development-IEAProcess
GO:0019904protein domain specific binding-IEAFunction
GO:0032075positive regulation of nuclease activity978439.IDAProcess
GO:0032392DNA geometric change-ISSProcess
GO:0032496response to lipopolysaccharide-ISSProcess
GO:0032728positive regulation of interferon-beta production-IEAProcess
GO:0032991protein-containing complex11909973.IDAComponent
GO:0033151V(D)J recombination-ISSProcess
GO:0042056chemoattractant activity19811285.IDAFunction
GO:0042493response to drug-ISSProcess
GO:0043388positive regulation of DNA binding19965638.IDAProcess
GO:0044212transcription regulatory region DNA binding19965638.IDAFunction
GO:0044378non-sequence-specific DNA binding, bending-ISSFunction
GO:0045087innate immune response-IEAProcess
GO:0045089positive regulation of innate immune response21873635.IBAProcess
GO:0045648positive regulation of erythrocyte differentiation19965638.IMPProcess
GO:0045654positive regulation of megakaryocyte differentiation19965638.IMPProcess
GO:0045892negative regulation of transcription, DNA-templated9636147.IDAProcess
GO:0045893positive regulation of transcription, DNA-templated19965638.IDAProcess
GO:0045944positive regulation of transcription by RNA polymerase II21873635.IBAProcess
GO:0045944positive regulation of transcription by RNA polymerase II19223331.19965638.IDAProcess
GO:0048471perinuclear region of cytoplasm9010268.11909973.IDAComponent
GO:0048545response to steroid hormone-IEAProcess
GO:0050767regulation of neurogenesis-ISSProcess
GO:0050786RAGE receptor binding19811285.IGIFunction
GO:0050829defense response to Gram-negative bacterium23877675.IDAProcess
GO:0050830defense response to Gram-positive bacterium23877675.IDAProcess
GO:0050918positive chemotaxis-IEAProcess
GO:0051103DNA ligation involved in DNA repair-ISSProcess
GO:0060326cell chemotaxis19811285.IDAProcess
GO:0071222cellular response to lipopolysaccharide19811285.IEPProcess
GO:0072091regulation of stem cell proliferation-ISSProcess
GO:0097100supercoiled DNA binding-ISSFunction
GO:1902042negative regulation of extrinsic apoptotic signaling pathway via death domain receptors-IEAProcess
To top

Copyright © , Bioinformatics Center, Sun Yat-sen Memorial Hospital, Sun Yat-sen University, China. All Rights Reserved.

Any comment and suggestion, please contact us