SZGR2

Summary ?

GeneID	2290
Symbol	FOXG1
Synonyms	BF1\|BF2\|FHKL3\|FKH2\|FKHL1\|FKHL2\|FKHL3\|FKHL4\|FOXG1A\|FOXG1B\|FOXG1C\|HBF-1\|HBF-2\|HBF-3\|HBF-G2\|HBF2\|HFK1\|HFK2\|HFK3\|KHL2\|QIN
Description	forkhead box G1
Reference	MIM:164874\|HGNC:HGNC:3811\|HPRD:01283\|
Gene type	protein-coding
Map location	14q13
Pascal p-value	0.167
Sherlock p-value	0.84
Fetal beta	2.6
DMG	1 (# studies)

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
DMG:Jaffe_2016	Genome-wide DNA methylation analysis	This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05.	1
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_I	Genome scan meta-analysis	Psr: 0.047
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 5

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg21923619	14	29235469	FOXG1	9.88E-9	-0.029	4.33E-6	DMG:Jaffe_2016

Section II. Transcriptome annotation

General gene expression (GTEx)

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
FOXC2	0.85	0.62
CFH	0.79	0.58
GJB2	0.78	0.49
SIX2	0.78	0.42
OGN	0.76	0.47
SCARA5	0.75	0.40
DSP	0.75	0.47
SIX1	0.74	0.46
ITGBL1	0.74	0.42
OSR1	0.71	0.38

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
C1orf63	-0.17	-0.17
AC007216.4	-0.16	-0.15
SLC25A41	-0.15	-0.14
SNHG12	-0.15	-0.31
C11orf51	-0.15	-0.21
CRYGS	-0.15	-0.10
KCNMB3	-0.14	-0.24
CYP2C8	-0.14	-0.18
NPIP	-0.14	-0.10
DFNB59	-0.14	-0.12

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003700	transcription factor activity	TAS		-
GO:0043565	sequence-specific DNA binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0048667	cell morphogenesis involved in neuron differentiation	IEA	neuron (GO term level: 10)	-
GO:0016199	axon midline choice point recognition	IEA	axon (GO term level: 15)	-
GO:0030900	forebrain development	IEA	Brain (GO term level: 8)	-
GO:0021954	central nervous system neuron development	IEA	neuron (GO term level: 10)	-
GO:0045665	negative regulation of neuron differentiation	IEA	neuron (GO term level: 10)	-
GO:0002052	positive regulation of neuroblast proliferation	IEA		-
GO:0006355	regulation of transcription, DNA-dependent	NAS		-
GO:0006350	transcription	IEA		-
GO:0007346	regulation of mitotic cell cycle	IEA		-
GO:0009953	dorsal/ventral pattern formation	IEA		-
GO:0007275	multicellular organismal development	IEA		-
GO:0042472	inner ear morphogenesis	IEA		-
GO:0045787	positive regulation of cell cycle	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	NAS		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
EEF1G	EF1G \| GIG35	eukaryotic translation elongation factor 1 gamma	Two-hybrid	BioGRID	16169070
FOXH1	FAST-1 \| FAST1	forkhead box H1	-	HPRD,BioGRID	10938097
FOXO1	FKH1 \| FKHR \| FOXO1A	forkhead box O1	FoxO1 interacts with FoxG1. This interaction was modelled on an interaction demonstrated between FoxO1 from an unspecified species and mouse FoxG1.	BIND	15084259
FOXO3	AF6q21 \| DKFZp781A0677 \| FKHRL1 \| FKHRL1P2 \| FOXO2 \| FOXO3A \| MGC12739 \| MGC31925	forkhead box O3	FoxO3 interacts with FoxG1.	BIND	15084259
FOXO4	AFX \| AFX1 \| MGC120490 \| MLLT7	forkhead box O4	FoxO4 interacts with FoxG1. This interaction was modelled on a demonstrated interaction between human FoxO4 and mouse FoxG1.	BIND	15084259
GDF9	-	growth differentiation factor 9	Two-hybrid	BioGRID	16169070
HDAC1	DKFZp686H12203 \| GON-10 \| HD1 \| RPD3 \| RPD3L1	histone deacetylase 1	-	HPRD	11238932
HES1	FLJ20408 \| HES-1 \| HHL \| HRY \| bHLHb39	hairy and enhancer of split 1, (Drosophila)	-	HPRD	11238932
JARID1B	FLJ10538 \| FLJ12459 \| FLJ12491 \| FLJ16281 \| FLJ23670 \| KDM5B \| PLU-1 \| PUT1 \| RBBP2H1A	jumonji, AT rich interactive domain 1B	-	HPRD,BioGRID	12657635
SMAD1	BSP1 \| JV4-1 \| JV41 \| MADH1 \| MADR1	SMAD family member 1	-	HPRD,BioGRID	11387330
TLE1	ESG \| ESG1 \| GRG1	transducin-like enhancer of split 1 (E(sp1) homolog, Drosophila)	-	HPRD	11238932
TLE3	ESG \| ESG3 \| FLJ39460 \| GRG3 \| HsT18976 \| KIAA1547	transducin-like enhancer of split 3 (E(sp1) homolog, Drosophila)	-	HPRD	11238932

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PID SMAD2 3NUCLEAR PATHWAY	82	63	All SZGR 2.0 genes in this pathway
LEE NEURAL CREST STEM CELL DN	118	79	All SZGR 2.0 genes in this pathway
LI CISPLATIN RESISTANCE DN	35	20	All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS NEUROEPITHELIUM DN	164	111	All SZGR 2.0 genes in this pathway
DAWSON METHYLATED IN LYMPHOMA TCL1	59	45	All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA HIF1A DN	110	78	All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS	1038	678	All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS	1062	725	All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3	1118	744	All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS	652	441	All SZGR 2.0 genes in this pathway
BENPORATH ES CORE NINE CORRELATED	100	68	All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS	882	572	All SZGR 2.0 genes in this pathway
GERY CEBP TARGETS	126	90	All SZGR 2.0 genes in this pathway
LU AGING BRAIN DN	153	120	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
PAL PRMT5 TARGETS UP	203	135	All SZGR 2.0 genes in this pathway
WANG LSD1 TARGETS UP	24	14	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP	461	298	All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN	342	220	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
SCHRAETS MLL TARGETS UP	35	21	All SZGR 2.0 genes in this pathway
LI WILMS TUMOR	27	12	All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER POOR SURVIVAL A6	456	285	All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP	395	249	All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2 AND H3K27ME3	349	234	All SZGR 2.0 genes in this pathway
MIKKELSEN NPC HCP WITH H3K27ME3	341	243	All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3	590	403	All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP	756	494	All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP	682	440	All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP	548	370	All SZGR 2.0 genes in this pathway
CARD MIR302A TARGETS	77	62	All SZGR 2.0 genes in this pathway
AZARE NEOPLASTIC TRANSFORMATION BY STAT3 DN	17	10	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 1HR UP	33	25	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 10HR DN	30	25	All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY	1725	838	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-133	8	14	m8	hsa-miR-133a	UUGGUCCCCUUCAACCAGCUGU
miR-133	8	14	m8	hsa-miR-133b	UUGGUCCCCUUCAACCAGCUA
miR-144	835	841	m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-186	477	483	1A	hsa-miR-186	CAAAGAAUUCUCCUUUUGGGCUU
miR-200bc/429	315	322	1A,m8	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
				hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-203.1	259	265	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-208	813	819	1A	hsa-miR-208	AUAAGACGAGCAAAAAGCUUGU
miR-217	313	319	1A	hsa-miR-217	UACUGCAUCAGGAACUGAUUGGAU
miR-25/32/92/363/367	172	178	m8	hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
miR-299-5p	746	752	m8	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-30-5p	874	880	m8	hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
				hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
miR-330	251	257	m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-34/449	599	605	m8	hsa-miR-34a^brain	UGGCAGUGUCUUAGCUGGUUGUU
				hsa-miR-34c	AGGCAGUGUAGUUAGCUGAUUGC
				hsa-miR-449	UGGCAGUGUAUUGUUAGCUGGU
				hsa-miR-449b	AGGCAGUGUAUUGUUAGCUGGC
miR-369-3p	317	324	1A,m8	hsa-miR-369-3p	AAUAAUACAUGGUUGAUCUUU
miR-374	318	325	1A,m8	hsa-miR-374	UUAUAAUACAACCUGAUAAGUG
miR-376	880	886	1A	hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
miR-376	880	886	1A	hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
miR-378*	70	76	m8	hsa-miR-422b	CUGGACUUGGAGUCAGAAGGCC
miR-378*	70	76	m8	hsa-miR-422a	CUGGACUUAGGGUCAGAAGGCC
miR-499	813	819	1A	hsa-miR-499	UUAAGACUUGCAGUGAUGUUUAA
miR-500	170	177	1A,m8	hsa-miR-500	AUGCACCUGGGCAAGGAUUCUG
miR-543	392	398	1A	hsa-miR-543	AAACAUUCGCGGUGCACUUCU
miR-543	392	398	1A	hsa-miR-543	AAACAUUCGCGGUGCACUUCU
miR-9	518	525	1A,m8	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: FOXG1