mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

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	Gene Summary
	Ligand Binding Site Mutation Information
	Protein Structure Related Information
	Gene Expression and Gene-Gene Network
	Phenotype Information
	Pharmacological Information
	Conservation Information for LBS

Gene summary for FOXM1

Gene summary

Basic gene Info.	Gene symbol	FOXM1
	Gene name	forkhead box M1
	Synonyms	FKHL16\|FOXM1B\|HFH-11\|HFH11\|HNF-3\|INS-1\|MPHOSPH2\|MPP-2\|MPP2\|PIG29\|TGT3\|TRIDENT
	Cytomap	UCSC genome browser: 12p13
	Type of gene	protein-coding
	RefGenes	NM_001243088.1, NM_001243089.1,NM_021953.3,NM_202002.2,NM_202003.2,
	Description	Forkhead, drosophila, homolog-like 16HNF-3/fork-head homolog 11M-phase phosphoprotein 2MPM-2 reactive phosphoprotein 2forkhead box protein M1forkhead-related protein FKHL16hepatocyte nuclear factor 3 forkhead homolog 11transcription factor Trident
	Modification date	20141222
dbXrefs	MIM : 602341
	HGNC : HGNC
	Ensembl : ENSG00000111206
	HPRD : 03823
	Vega : OTTHUMG00000168118
Protein	UniProt: Q08050 go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_FOXM1
	BioGPS: 2305
Pathway	NCI Pathway Interaction Database: FOXM1
	KEGG: FOXM1
	REACTOME: FOXM1
	Pathway Commons: FOXM1
Context	iHOP: FOXM1
	ligand binding site mutation search in PubMed: FOXM1
	UCL Cancer Institute: FOXM1
Assigned class in mutLBSgeneDB	B: This gene belongs to targetable_mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez

GO ID	GO Term	PubMed ID
GO:0000086	G2/M transition of mitotic cell cycle	19160488
GO:0006355	regulation of transcription, DNA-templated	10523841
GO:0006366	transcription from RNA polymerase II promoter	9032290
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	19160488

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Ligand binding site mutations for FOXM1

Lollipop-style diagram of mutations at LBS in amino-acid sequence.
We represented ligand binding site mutations only. (You can see big image via clicking.)

: non-synonymous mutation on LBS, Circle size denotes number of samples.

Cancer type specific mutLBS sorted by frequency

LBS	AAchange of nsSNV	Cancer type	# samples
S306	V305L	COAD	1
S240	S240C	COAD	1
Y241	M242K	LUAD	1
H287,L289	N288S	UCEC	1

cf) Cancer type abbreviation. BLCA: Bladder urothelial carcinoma, BRCA: Breast invasive carcinoma, CESC: Cervical squamous cell carcinoma and endocervical adenocarcinoma, COAD: Colon adenocarcinoma, GBM: Glioblastoma multiforme, LGG: Brain lower grade glioma, HNSC: Head and neck squamous cell carcinoma, KICH: Kidney chromophobe, KIRC: Kidney renal clear cell carcinoma, KIRP: Kidney renal papillary cell carcinoma, LAML: Acute myeloid leukemia, LUAD: Lung adenocarcinoma, LUSC: Lung squamous cell carcinoma, OV: Ovarian serous cystadenocarcinoma, PAAD: Pancreatic adenocarcinoma, PRAD: Prostate adenocarcinoma, SKCM: Skin cutaneous melanoma, STAD: Stomach adenocarcinoma, THCA: Thyroid carcinoma, UCEC: Uterine corpus endometrial carcinoma.

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Protein structure related information for FOXM1

Relative protein structure stability change (ΔΔE) using Mupro 1.1
Mupro score denotes assessment of the effect of mutations on thermodynamic stability.
(ΔΔE<0: mutation decreases stability, ΔΔE>0: mutation increases stability)

: nsSNV at non-LBS

: nsSNV at LBS

nsSNVs sorted by the relative stability change of protein structure by each mutation
Blue: mutations of positive stability change. and red : the most recurrent mutation for this gene.

LBS	AAchange of nsSNV	Relative stability change
Y241	M242K	-1.1875125
S240	S240C	-0.82407462
S306	V305L	-0.70243501
L289	N288S	-0.23915106
H287	N288S	-0.23915106

(MuPro1.1: Jianlin Cheng et al., Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines, PROTEINS: Structure, Function, and Bioinformatics. 2006, 62:1125-1132)

Structure image for FOXM1 from PDB

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Differential gene expression and gene-gene network for FOXM1

Differential gene expression between mutated and non-mutated LBS samples in all 16 major cancer types

Differential co-expressed gene network based on protein-protein interaction data (CePIN)

* Left PPI network was created from samples with mutations in the LBS of FOXM1 and the right PPI network was created from samples without mutations in the LBS of FOXM1. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.

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Phenotype information for FOXM1

Gene level disease information (DisGeNet)

Disease ID	Disease name	# PubMed	Association type
umls:C2239176	Carcinoma, Hepatocellular	18	Biomarker
umls:C0007131	Carcinoma, Non-Small-Cell Lung	9	Biomarker
umls:C0024121	Lung Neoplasms	6	Biomarker, GeneticVariation
umls:C1458155	Breast Neoplasms	3	AlteredExpression, Biomarker
umls:C0023418	Leukemia	2	Biomarker
umls:C0017661	Glomerulonephritis, IGA	1	Biomarker
umls:C0023904	Liver Neoplasms, Experimental	1	Biomarker
umls:C0032927	Precancerous Conditions	1	Biomarker

Mutation level pathogenic information (ClinVar annotation)

Allele ID

AA change

Clinical significance

Origin

Phenotype IDs

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Pharmacological information for FOXM1

Gene expression profile of anticancer drug treated cell-lines (CCLE)
Heatmap showing the correlation between gene expression and drug response across all the cell-lines. We chose the top 20 among 138 drugs.We used Pearson's correlation coefficient.

Drug information targeting mutLBSgene (Approved drugs only)

Drug status

DrugBank ID

Name

Type

Drug structure

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of FOXM1 go to BioLip

Ligand ID	Ligand short name	Ligand long name	PDB ID	PDB name	mutLBS
NUC		Nucleic Acids	3g73	A	H287 S306
NUC		Nucleic Acids	3g73	B	H287 S306
MG		MAGNESIUM(2+)	3g73	A	L289
MG		MAGNESIUM(2+)	3g73	B	L289
NUC		Nucleic Acids	3g73	A	S240 Y241 H287
NUC		Nucleic Acids	3g73	B	S240 Y241 H287

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Conservation information for LBS of FOXM1

Multiple alignments for Q08050 in multiple species

LBS

AA sequence

# species

Species