TISIDB

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Basic function annotation. > Subcellular Location, Domain and Function > Gene Ontology > KEGG and Reactome Pathway

> Subcellular Location, Domain and Function [ TOP ]
Subcellular Location	Nucleus
Domain	PF01593 Flavin containing amine oxidoreductase PF04433 SWIRM domain PF07496 CW-type Zinc Finger
Function	Histone demethylase that demethylates 'Lys-4' of histone H3, a specific tag for epigenetic transcriptional activation, thereby acting as a corepressor. Required for de novo DNA methylation of a subset of imprinted genes during oogenesis. Acts by oxidizing the substrate by FAD to generate the corresponding imine that is subsequently hydrolyzed. Demethylates both mono- and di-methylated 'Lys-4' of histone H3. Has no effect on tri-methylated 'Lys-4', mono-, di- or tri-methylated 'Lys-9', mono-, di- or tri-methylated 'Lys-27', mono-, di- or tri-methylated 'Lys-36' of histone H3, or on mono-, di- or tri-methylated 'Lys-20' of histone H4.

> Gene Ontology [ TOP ]
Biological Process	GO:0006304 DNA modification GO:0006305 DNA alkylation GO:0006306 DNA methylation GO:0006349 regulation of gene expression by genetic imprinting GO:0006482 protein demethylation GO:0008214 protein dealkylation GO:0016570 histone modification GO:0016577 histone demethylation GO:0032259 methylation GO:0034720 histone H3-K4 demethylation GO:0040029 regulation of gene expression, epigenetic GO:0043046 DNA methylation involved in gamete generation GO:0043414 macromolecule methylation GO:0044030 regulation of DNA methylation GO:0044728 DNA methylation or demethylation GO:0051052 regulation of DNA metabolic process GO:0070076 histone lysine demethylation GO:0070988 demethylation GO:0071514 genetic imprinting
Molecular Function	GO:0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen GO:0032451 demethylase activity GO:0032452 histone demethylase activity GO:0032453 histone demethylase activity (H3-K4 specific) GO:0034648 histone demethylase activity (H3-dimethyl-K4 specific) GO:0034649 histone demethylase activity (H3-monomethyl-K4 specific) GO:0048037 cofactor binding GO:0050660 flavin adenine dinucleotide binding GO:0050662 coenzyme binding
Cellular Component	-

> KEGG and Reactome Pathway [ TOP ]
KEGG	-
Reactome	R-HSA-3247509: Chromatin modifying enzymes R-HSA-4839726: Chromatin organization R-HSA-5688426: Deubiquitination R-HSA-3214842: HDMs demethylate histones R-HSA-392499: Metabolism of proteins R-HSA-597592: Post-translational protein modification R-HSA-5689603: UCH proteinases

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Literatures that report relations between KDM1B and anti-tumor immunity. The specific mechanism were also collected if the literature reports that a gene specifically promotes or inhibits the infiltration or function of T/NK cells.

> Text Mining [ TOP ]
There is no record.

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	High-throughput screening data (e.g. CRISPR-Cas9, shRNA and RNAi) for T cell-mediated killing. Genetic screen techniques can identify mechanisms of tumor cell resistance (e.g., PTPN2) and sensitivity (e.g., APLNR) to killing by cytotoxic T cells, the central effectors of anti-tumor immunity. After comprehensively searching, eight groups of screening data sets were collected in the current database. In this tab, users can check whether their selected genes cause resistance or increase sensitivity to T cell-mediated killing in various data sets.

> High-throughput Screening

[ TOP ]

Statistical results of KDM1B in screening data sets for detecting immune reponses.

PMID	Screening System	Cancer Type	Cell Line	Data Set	Statistical Results	Relation to immunity
29301958	CRISPR-Cas9	melanoma	B16F10	Pmel-1 T cell	NA/NS	NA/NS
29301958	CRISPR-Cas9	melanoma	B16F10	OT-1 T cell	NA/NS	NA/NS
28783722	CRISPR-Cas9	melanoma	Mel624	2CT-CRISPR	NA/NS	NA/NS
28723893	CRISPR-Cas9	melanoma	B16	GVAX+Anti-PD1	NA/NS	NA/NS
28723893	CRISPR-Cas9	melanoma	B16	GVAX	NA/NS	NA/NS
25691366	RNAi	Breast cancer	MCF7	Luc-CTL assay	NA/NS	NA/NS
24476824	shRNA	melanoma	B16	Primary screen	NA/NS	NA/NS
24476824	shRNA	melanoma	B16	Secondary screen	NA/NS	NA/NS

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Transcriptomic and genomic profiling of pre-treated tumor biopsies from responders and non-responders to immunotherapy. These data were used to identify signatures and mechanisms of response to checkpoint blockade (e.g., anti-PDL1 and anti-PD1). One example is that mutations in the gene PBRM1 benefit clinical survival of patients with clear cell renal cell carcinoma. After comprehensively searching, we collected 5 and 6 of transcriptomic and genomic data sets, respectively. In this tab, users can check whether their selected genes have significant difference of expression or mutation between responders and non-responders in various data sets. > Expression difference between responders and non-responders > Mutation difference between responders and non-responders

> Expression difference between responders and non-responders

[ TOP ]

Points in the above scatter plot represent the expression difference of KDM1B in various data sets.

No	PMID	Cancer type	Group	Drug	# Res	# NRes	Log2 (Fold Change)	P value
1	26997480	Melanoma	all	Anti-PD-1 (pembrolizumab and nivolumab)	14	12	0.678	0.0147
2	26997480	Melanoma	MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	6	5	0.858	0.532
3	26997480	Melanoma	non-MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	8	7	0.543	0.615
4	28552987	Urothelial cancer	all	Anti-PD-L1 (atezolizumab)	9	16	0.223	0.534
5	28552987	Urothelial cancer	smoking	Anti-PD-L1 (atezolizumab)	5	9	-0.095	0.952
6	28552987	Urothelial cancer	non-smoking	Anti-PD-L1 (atezolizumab)	4	7	0.632	0.773
7	29033130	Melanoma	all	Anti-PD-1 (nivolumab)	26	23	0.012	0.974
8	29033130	Melanoma	NIV3-PROG	Anti-PD-1 (nivolumab)	15	11	0.084	0.959
9	29033130	Melanoma	NIV3-NAIVE	Anti-PD-1 (nivolumab)	11	12	-0.036	0.984
10	29301960	Clear cell renal cell carcinoma (ccRCC)	all	Anti-PD-1 (nivolumab)	4	8	0.089	0.929
11	29301960	Clear cell renal cell carcinoma (ccRCC)	VEGFRi	Anti-PD-1 (nivolumab)	2	0	0	1
12	29301960	Clear cell renal cell carcinoma (ccRCC)	non-VEGFRi	Anti-PD-1 (nivolumab)	2	8	0.488	0.729
13	29443960	Urothelial cancer	all	Anti-PD-L1 (atezolizumab)	68	230	0.137	0.118

> Mutation difference between responders and non-responders

[ TOP ]

Points in the above scatter plot represent the mutation difference of KDM1B in various data sets.

No	PMID	Cancer type	Group	Drug	# Res	# NRes	% Mut/Res	% Mut/NRes	% Diff (R vs NR)	Pval
1	25765070	Non-small cell lung cancer (NSCLC)	all	Anti-PD-1 (pembrolizumab)	14	17	0	0	0	1
2	25765070	Non-small cell lung cancer (NSCLC)	smoking	Anti-PD-1 (pembrolizumab)	10	3	0	0	0	1
3	25765070	Non-small cell lung cancer (NSCLC)	non-smoking	Anti-PD-1 (pembrolizumab)	4	14	0	0	0	1
4	26359337	Melanoma	all	Anti-CTLA-4 (ipilimumab)	27	73	3.7	1.4	2.3	0.469
5	26359337	Melanoma	BRAFi	Anti-CTLA-4 (ipilimumab)	0	14	0	0	0	1
6	26359337	Melanoma	non-BRAFi	Anti-CTLA-4 (ipilimumab)	27	59	3.7	1.7	2	0.532
7	26997480	Melanoma	all	Anti-PD-1 (pembrolizumab and nivolumab)	21	17	0	0	0	1
8	26997480	Melanoma	MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	8	6	0	0	0	1
9	26997480	Melanoma	non-MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	13	11	0	0	0	1
10	28552987	Urothelial cancer	all	Anti-PD-L1 (atezolizumab)	9	16	0	6.2	-6.2	1
11	28552987	Urothelial cancer	smoking	Anti-PD-L1 (atezolizumab)	5	9	0	11.1	-11.1	1
12	28552987	Urothelial cancer	non-smoking	Anti-PD-L1 (atezolizumab)	4	7	0	0	0	1
13	29033130	Melanoma	all	Anti-PD-1 (nivolumab)	38	27	0	0	0	1
14	29033130	Melanoma	NIV3-PROG	Anti-PD-1 (nivolumab)	22	13	0	0	0	1
15	29033130	Melanoma	NIV3-NAIVE	Anti-PD-1 (nivolumab)	16	14	0	0	0	1
16	29301960	Clear cell renal cell carcinoma (ccRCC)	all	Anti-PD-1 (nivolumab)	11	13	0	0	0	1
17	29301960	Clear cell renal cell carcinoma (ccRCC)	VEGFRi	Anti-PD-1 (nivolumab)	6	1	0	0	0	1
18	29301960	Clear cell renal cell carcinoma (ccRCC)	non-VEGFRi	Anti-PD-1 (nivolumab)	5	12	0	0	0	1

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of KDM1B. The immune-related signatures of 28 TIL types from Charoentong's study, which can be viewed in the download page. For each cancer type, the relative abundance of TILs were inferred by using gene set variation analysis (GSVA) based on gene expression profile. In this tab, users can examine which kinds of TILs might be regulated by the current gene.

> Lymphocyte [ TOP ]

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of KDM1B. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by KDM1B. > Immunoinhibitor > Immunostimulator > MHC molecule

> Immunoinhibitor [ TOP ]

> Immunostimulator [ TOP ]

> MHC molecule [ TOP ]

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of KDM1B. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene. > Chemokine > Receptor

> Chemokine [ TOP ]

> Receptor [ TOP ]

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Distribution of KDM1B expression across immune and molecular subtypes. > Immune subtype > Molecular subtype

> Immune subtype [ TOP ]

> Molecular subtype [ TOP ]

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Associations between KDM1B and clinical features. > Overall survival analysis > Cancer stage > Tumor grade

> Overall survival [ TOP ]

> Stage [ TOP ]

> Grade [ TOP ]

Summary
Symbol	KDM1B
Name	lysine (K)-specific demethylase 1B
Aliases	FLJ34109; FLJ33898; dJ298J15.2; bA204B7.3; FLJ43328; LSD2; C6orf193; AOF1; amine oxidase, flavin containing ......
Chromosomal Location	6p22.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Drugs targeting KDM1B collected from DrugBank database.

> Drugs from DrugBank database [ TOP ]
There is no record.

Browse KDM1B