EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
22752059	Identification of novel molecular targets regulated by tumor suppressive miR-375 induced by histone acetylation in esophageal squamous cell carcinoma.	Int J Oncol	2012 Sep	Isozaki Y	doi: 10.3892/ijo.2012.1537
27485076	Use of LDH and autoimmune side effects to predict response to ipilimumab treatment.	Immunotherapy	2016 Sep	Dick J	doi: 10.2217/imt-2016-0083.
23437403	Lactate dehydrogenase-B is silenced by promoter methylation in a high frequency of human breast cancers.	PLoS One	2013	Brown NJ	doi: 10.1371/journal.pone.0057697
25524555	Oxamate-mediated inhibition of lactate dehydrogenase induces protective autophagy in gastric cancer cells: involvement of the Akt-mTOR signaling pathway.	Cancer Lett	2015 Mar 1	Zhao Z	doi: 10.1016/j.canlet.2014.11.046
23224736	Lactate dehydrogenase B is required for the growth of KRAS-dependent lung adenocarcinomas.	Clin Cancer Res	2013 Feb 15	McCleland ML	doi: 10.1158/1078-0432.CCR-12-2638
21356207	Decreased lactate dehydrogenase B expression enhances claudin 1-mediated hepatoma cell invasiveness via mitochondrial defects.	Exp Cell Res	2011 May 1	Kim JH	doi: 10.1016/j.yexcr.2011.02.011
23697991	Lactate dehydrogenase B: a metabolic marker of response to neoadjuvant chemotherapy in breast cancer.	Clin Cancer Res	2013 Jul 1	Dennison JB	doi: 10.1158/1078-0432.CCR-13-0623
23139210	An integrated genomic screen identifies LDHB as an essential gene for triple-negative breast cancer.	Cancer Res	2012 Nov 15	McCleland ML	doi: 10.1158/0008-5472.CAN-12-1098

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr12	21635550	Missense_Mutation	novel	D333H	0.06
BLCA	chr12	21646995	Missense_Mutation	novel	L51V	0.45
BRCA	chr12	21637158	Missense_Mutation	novel	N250K	0.13
CESC	chr12	21637182	Silent	NA	V242V	0.24
CESC	chr12	21635488	3'UTR	rs765895457		0.34
CESC	chr12	21642122	Missense_Mutation	novel	D142G	0.43
CESC	chr12	21643936	Splice_Region	novel	P140P	0.46
CESC	chr12	21646939	Silent	novel	G69G	0.44
COAD	chr12	21646964	Missense_Mutation	novel	G61E	0.16
COAD	chr12	21642074	Missense_Mutation	rs200163319	R158H	0.18
COAD	chr12	21644058	Missense_Mutation	rs759971220	R100C	0.23
COAD	chr12	21635542	Nonstop_Mutation	novel	335Cext7	0.09
COAD	chr12	21638456	Missense_Mutation	novel	G204C	0.23
ESCA	chr12	21635638	Silent	rs765924083	S303S	0.38
ESCA	chr12	21638447	Frame_Shift_Del	novel	*N206Wfs9**	0.11
GBM	chr12	21646920	Missense_Mutation	novel	P76T	0.1
GBM	chr12	21635428	3'UTR	novel		0.07
HNSC	chr12	21638411	Missense_Mutation	NA	M219V	0.33
HNSC	chr12	21641992	Silent	novel	S185S	0.2
LAML	chr12	21643974	Missense_Mutation	novel	Y128H	0.14
LGG	chr12	21637133	Missense_Mutation	rs762586092	D259N	0.42
LIHC	chr12	21646913	Missense_Mutation	novel	I78S	0.29
LUAD	chr12	21635565	Nonsense_Mutation	NA	Q328*	0.78
LUAD	chr12	21635575	Silent	rs769013947	L324L	0.19
LUAD	chr12	21635559	Missense_Mutation	novel	D330Y	0.14
LUAD	chr12	21654569	Missense_Mutation	NA	A35S	0.21
LUAD	chr12	21642122	Missense_Mutation	novel	D142G	0.41
LUSC	chr12	21635500	3'UTR	novel		0.18
LUSC	chr12	21635680	Silent	NA	F289F	0.23
LUSC	chr12	21635707	Splice_Region	NA	G280G	0.21
LUSC	chr12	21637151	Missense_Mutation	rs373042868	I253V	0.33
LUSC	chr12	21642017	Missense_Mutation	NA	E177V	0.22
LUSC	chr12	21635408	3'UTR	novel		0.07
LUSC	chr12	21644036	Missense_Mutation	NA	R107P	0.25
OV	chr12	21635625	Missense_Mutation	novel	K308Q	0.1
OV	chr12	21643975	Missense_Mutation	NA	K127N	0.33
PAAD	chr12	21642072	Missense_Mutation	rs774614448	V159M	0.18
PRAD	chr12	21637163	Missense_Mutation	novel	T249A	0.32
READ	chr12	21637074	Frame_Shift_Ins	novel	*M281Dfs5**	0.09
READ	chr12	21637076	Missense_Mutation	NA	V278L	0.1
READ	chr12	21635439	3'UTR	novel		0.22
READ	chr12	21638367	Missense_Mutation	novel	K233N	0.41
READ	chr12	21642044	Missense_Mutation	novel	S168Y	0.45
SARC	chr12	21647014	Splice_Site	novel	X44_splice	0.26
SKCM	chr12	21654606	Silent	NA	N22N	0.31
SKCM	chr12	21646958	Missense_Mutation	novel	M63T	0.36
SKCM	chr12	21644102	Missense_Mutation	NA	S85F	0.41
SKCM	chr12	21654604	Missense_Mutation	NA	K23R	0.2
STAD	chr12	21654573	Silent	NA	G33G	0.21
STAD	chr12	21635651	Missense_Mutation	rs753313189	R299Q	0.14
STAD	chr12	21644094	Missense_Mutation	rs145369309	A88T	0.21
STAD	chr12	21637090	Missense_Mutation	NA	P273L	0.31
STAD	chr12	21635501	3'UTR	novel		0.26
STAD	chr12	21654623	Missense_Mutation	rs750649581	A17T	0.26
STAD	chr12	21646967	Missense_Mutation	novel	K60R	0.13
STAD	chr12	21654593	Missense_Mutation	NA	V27M	0.11
UCEC	chr12	21635710	Splice_Site	novel	X280_splice	0.23
UCEC	chr12	21642075	Missense_Mutation	rs532712842	R158C	0.33
UCEC	chr12	21644078	Missense_Mutation	NA	V93A	0.28
UCEC	chr12	21642112	Silent	rs112045700	T145T	0.51
UCEC	chr12	21646912	Missense_Mutation	novel	I78M	0.23
UCEC	chr12	21637089	Silent	rs748636200	P273P	0.4
UCEC	chr12	21654568	Missense_Mutation	NA	A35V	0.47
UCEC	chr12	21637169	Nonsense_Mutation	novel	G247*	0.54
UCEC	chr12	21644109	Splice_Site	novel	X83_splice	0.37
UCEC	chr12	21635703	Missense_Mutation	novel	Y282H	0.08
UCEC	chr12	21654620	Missense_Mutation	novel	T18A	0.3
UCEC	chr12	21637154	Missense_Mutation	NA	A252T	0.35
UCEC	chr12	21635692	Missense_Mutation	novel	E285D	0.2
UCEC	chr12	21641949	Splice_Region	novel		0.24
UCEC	chr12	21635654	Missense_Mutation	novel	A298V	0.38
UCEC	chr12	21637169	Nonsense_Mutation	novel	G247*	0.35
UCEC	chr12	21654668	Missense_Mutation	NA	A2T	0.06
UCEC	chr12	21635651	Missense_Mutation	rs753313189	R299Q	0.19
UCEC	chr12	21654591	Silent	novel	V27V	0.3
UCEC	chr12	21644090	Missense_Mutation	rs760127821	N89S	0.2
UCEC	chr12	21644072	Missense_Mutation	novel	V95A	0.55
UCEC	chr12	21635399	3'UTR	novel		0.17
UCEC	chr12	21635650	Silent	novel	R299R	0.46
UCEC	chr12	21637102	Missense_Mutation	novel	S269F	0.33

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
DLBC	DEL	0.0833	0.11856
PAAD	DEL	0.1087	0.0019175
READ	DEL	0.103	0.064633
TGCT	AMP	0.9467	1.4729e-22
THYM	AMP	0.0325	0.24554

Survival Analysis

Cancer	P-value	Q-value
THYM	0.028	Kaplan-Meier Survival Analysis
SARC	0.046	Kaplan-Meier Survival Analysis
MESO	0.021	Kaplan-Meier Survival Analysis
HNSC	0.0058	Kaplan-Meier Survival Analysis
SKCM	0.021	Kaplan-Meier Survival Analysis
READ	0.043	Kaplan-Meier Survival Analysis
GBM	0.0042	Kaplan-Meier Survival Analysis
LIHC	0.043	Kaplan-Meier Survival Analysis
LUAD	0.0039	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathway

PPI

Ortholog

Gene Ontology

Description

Ensembl ID: ENSG00000111716 (Gene tree)
Gene ID: 3945
Gene Symbol: LDHB
Alias: N
Full Name: lactate dehydrogenase B
Gene Type: protein_coding
Specie: Homo_sapiens
Strand: Minus strand
Length: 122,517 bases
Position: chr12:21,635,341-21,757,857
Accession: 6541
Summary: This gene encodes the B subunit of lactate dehydrogenase enzyme, which catalyzes the interconversion of pyruvate and lactate with concomitant interconversion of NADH and NAD+ in a post-glycolysis process. Alternatively spliced transcript variants have been found for this gene. Recent studies have shown that a C-terminally extended isoform is produced by use of an alternative in-frame translation termination codon via a stop codon readthrough mechanism, and that this isoform is localized in the peroxisomes. Mutations in this gene are associated with lactate dehydrogenase B deficiency. Pseudogenes have been identified on chromosomes X, 5 and 13. [provided by RefSeq, Feb 2016]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
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
29431736	Capturing the interactome of newly transcribed RNA	NascentRICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	PolyT-RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
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	PolyT & 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
30136864	Gordon H. Dixon's trace in my personal career and the quantic jump experienced in regulatory information.	Syst Biol Reprod Med	2018 Dec	Mezquita-Pla J	doi: 10.1080/19396368.2018.1503752

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000470280	LDHB-205	710	-	-	- (aa)	-	-
ENST00000470985	LDHB-206	678	-	-	- (aa)	-	-
ENST00000544151	LDHB-210	544	-	-	- (aa)	-	-
ENST00000539782	LDHB-208	487	-	ENSP00000442680	102 (aa)	-	F5H793
ENST00000450584	LDHB-204	732	-	ENSP00000398015	136 (aa)	-	C9J7H8
ENST00000396075	LDHB-202	744	XM_006719074	ENSP00000379385	232 (aa)	XP_006719137	A8MW50
ENST00000396076	LDHB-203	1538	-	ENSP00000379386	334 (aa)	-	P07195
ENST00000542765	LDHB-209	672	-	-	- (aa)	-	-
ENST00000535112	LDHB-207	252	-	-	- (aa)	-	-
ENST00000350669	LDHB-201	1303	-	ENSP00000229319	334 (aa)	-	P07195

Gene Model

Click here to download ENSG00000111716's gene model file

Pathway

Pathway ID	Pathway Name	Source
hsa00010	Glycolysis / Gluconeogenesis	KEGG
hsa00270	Cysteine and methionine metabolism	KEGG
hsa00620	Pyruvate metabolism	KEGG
hsa00640	Propanoate metabolism	KEGG
hsa01100	Metabolic pathways	KEGG
hsa04922	Glucagon signaling pathway	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000111716's network

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Paralog	Gene Symbol	Coverage	Identiy	Species
ENSG00000111716	LDHB	100	97.904	ENSMUSG00000030246	Ldhb	100	97.904	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0004459	L-lactate dehydrogenase activity	-	IEA	Function
GO:0005515	protein binding	21044950.24725412.25416956.25910212.27622334.	IPI	Function
GO:0005737	cytoplasm	16130169.	TAS	Component
GO:0005829	cytosol	-	IDA	Component
GO:0005829	cytosol	-	TAS	Component
GO:0005975	carbohydrate metabolic process	-	IEA	Process
GO:0006090	pyruvate metabolic process	-	TAS	Process
GO:0016020	membrane	19946888.	HDA	Component
GO:0042802	identical protein binding	25416956.	IPI	Function
GO:0045121	membrane raft	25204797.	IDA	Component
GO:0055114	oxidation-reduction process	-	IEA	Process
GO:0070062	extracellular exosome	19056867.20458337.23533145.	HDA	Component

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

Pathway

PPI

Ortholog

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.