SZGR2

Summary ?

GeneID	274
Symbol	BIN1
Synonyms	AMPH2\|AMPHL\|SH3P9
Description	bridging integrator 1
Reference	MIM:601248\|HGNC:HGNC:1052\|Ensembl:ENSG00000136717\|HPRD:03150\|Vega:OTTHUMG00000131465
Gene type	protein-coding
Map location	2q14
Pascal p-value	0.009
Sherlock p-value	0.956
Fetal beta	-1.322
DMG	2 (# studies)
eGene	Cerebellar Hemisphere Cerebellum Myers' cis & trans
Support	G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS G2Cdb.human_clathrin G2Cdb.human_Synaptosome CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:vanEijk_2014	Genome-wide DNA methylation analysis	This dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250).	3
DMG:Wockner_2014	Genome-wide DNA methylation analysis	This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24).	3
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: 0.023
GSMA_IIA	Genome scan meta-analysis (All samples)	Psr: 0.00755
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias	Click to show details
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.005

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg06021088	2	127822551	BIN1	4.214E-4	-0.36	0.045	DMG:Wockner_2014
cg17105014	2	127413363	BIN1	3.03E-5	4.909		DMG:vanEijk_2014
cg17105014	2	127413363	BIN1	9.35E-5	4.417		DMG:vanEijk_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs1578978	chr8	118196802	BIN1	274		0.18		trans

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.

No co-expressed genes in brain regions

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0030100	regulation of endocytosis	IEA		-
GO:0008283	cell proliferation	TAS		8782822
GO:0007275	multicellular organismal development	IEA		-
GO:0030154	cell differentiation	IEA		-
GO:0045786	negative regulation of cell cycle	IEA		-
GO:0044419	interspecies interaction between organisms	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0015629	actin cytoskeleton	TAS		9182667

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ABL1	ABL \| JTK7 \| bcr/abl \| c-ABL \| p150 \| v-abl	c-abl oncogene 1, receptor tyrosine kinase	-	HPRD	9356459
AMPH	AMPH1	amphiphysin	-	HPRD,BioGRID	9348539
AP2A1	ADTAA \| AP2-ALPHA \| CLAPA1	adaptor-related protein complex 2, alpha 1 subunit	-	HPRD	9280305
AP2A2	ADTAB \| CLAPA2 \| HIP9 \| HYPJ	adaptor-related protein complex 2, alpha 2 subunit	-	HPRD	10430869
BIN1	AMPH2 \| AMPHL \| DKFZp547F068 \| MGC10367 \| SH3P9	bridging integrator 1	-	HPRD,BioGRID	10391921
CUX1	CASP \| CDP \| CDP/Cut \| CDP1 \| COY1 \| CUTL1 \| CUX \| Clox \| Cux/CDP \| GOLIM6 \| Nbla10317 \| p100 \| p110 \| p200 \| p75	cut-like homeobox 1	Two-hybrid	BioGRID	16169070
DNM1	DNM	dynamin 1	-	HPRD,BioGRID	9195986 \|9280305
ITGA1	CD49a \| VLA1	integrin, alpha 1	-	HPRD,BioGRID	10094488
ITGA3	CD49C \| FLJ34631 \| FLJ34704 \| GAP-B3 \| GAPB3 \| MSK18 \| VCA-2 \| VL3A \| VLA3a	integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)	-	HPRD,BioGRID	10094488
MAP4K3	GLK \| MAPKKKK3 \| RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	-	HPRD	11384986
PLD1	-	phospholipase D1, phosphatidylcholine-specific	Phenotypic Suppression Reconstituted Complex	BioGRID	10764771
PLD2	-	phospholipase D2	-	HPRD,BioGRID	10764771
PTK2	FADK \| FAK \| FAK1 \| pp125FAK	PTK2 protein tyrosine kinase 2	-	HPRD,BioGRID	12558988
RIN2	RASSF4	Ras and Rab interactor 2	-	HPRD	12972505
RIN3	DKFZp762H1613 \| FLJ11700 \| FLJ22439	Ras and Rab interactor 3	-	HPRD,BioGRID	12972505
SH3GL2	CNSA2 \| EEN-B1 \| FLJ20276 \| FLJ25015 \| SH3D2A \| SH3P4	SH3-domain GRB2-like 2	-	HPRD	9315708
SH3GL2	CNSA2 \| EEN-B1 \| FLJ20276 \| FLJ25015 \| SH3D2A \| SH3P4	SH3-domain GRB2-like 2	Reconstituted Complex	BioGRID	12456676
SH3GLB1	Bif-1 \| CGI-61 \| KIAA0491 \| dJ612B15.2	SH3-domain GRB2-like endophilin B1	-	HPRD,BioGRID	12456676
SNX4	-	sorting nexin 4	-	HPRD,BioGRID	12668730
SYN1	SYN1a \| SYN1b \| SYNI	synapsin I	-	HPRD,BioGRID	10899172
SYNJ1	INPP5G	synaptojanin 1	-	HPRD,BioGRID	9195986 \|9341169
XRCC5	FLJ39089 \| KARP-1 \| KARP1 \| KU80 \| KUB2 \| Ku86 \| NFIV	X-ray repair complementing defective repair in Chinese hamster cells 5 (double-strand-break rejoining)	Co-purification	BioGRID	17671430
XRCC6	CTC75 \| CTCBF \| G22P1 \| KU70 \| ML8 \| TLAA	X-ray repair complementing defective repair in Chinese hamster cells 6	Co-purification	BioGRID	17671430

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
BIOCARTA NDKDYNAMIN PATHWAY	21	15	All SZGR 2.0 genes in this pathway
PID P73PATHWAY	79	59	All SZGR 2.0 genes in this pathway
PID ARF6 TRAFFICKING PATHWAY	49	34	All SZGR 2.0 genes in this pathway
PARENT MTOR SIGNALING UP	567	375	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP	783	507	All SZGR 2.0 genes in this pathway
PRAMOONJAGO SOX4 TARGETS DN	51	35	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL DN	455	304	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN	460	312	All SZGR 2.0 genes in this pathway
GAL LEUKEMIC STEM CELL UP	133	78	All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS DN	158	102	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 1 DN	242	165	All SZGR 2.0 genes in this pathway
ODONNELL TFRC TARGETS UP	456	228	All SZGR 2.0 genes in this pathway
BIDUS METASTASIS DN	161	93	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
BEGUM TARGETS OF PAX3 FOXO1 FUSION DN	45	34	All SZGR 2.0 genes in this pathway
EBAUER TARGETS OF PAX3 FOXO1 FUSION UP	207	128	All SZGR 2.0 genes in this pathway
EBAUER MYOGENIC TARGETS OF PAX3 FOXO1 FUSION	50	26	All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION UP	195	138	All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 480 HELA	164	118	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 UP	256	159	All SZGR 2.0 genes in this pathway
ONDER CDH1 SIGNALING VIA CTNNB1	83	58	All SZGR 2.0 genes in this pathway
ASTON MAJOR DEPRESSIVE DISORDER DN	160	110	All SZGR 2.0 genes in this pathway
BASSO B LYMPHOCYTE NETWORK	143	96	All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS B LYMPHOCYTE DN	38	25	All SZGR 2.0 genes in this pathway
FERRANDO T ALL WITH MLL ENL FUSION UP	87	67	All SZGR 2.0 genes in this pathway
BROWN MYELOID CELL DEVELOPMENT DN	129	86	All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA UP	98	64	All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS POSTNATAL	63	50	All SZGR 2.0 genes in this pathway
RAMALHO STEMNESS DN	74	55	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
DELASERNA MYOD TARGETS UP	89	51	All SZGR 2.0 genes in this pathway
JACKSON DNMT1 TARGETS UP	77	57	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3	720	440	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
AMBROSINI FLAVOPIRIDOL TREATMENT TP53	109	63	All SZGR 2.0 genes in this pathway
SMID BREAST CANCER LUMINAL B DN	564	326	All SZGR 2.0 genes in this pathway
SMID BREAST CANCER NORMAL LIKE UP	476	285	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
VANTVEER BREAST CANCER ESR1 DN	240	153	All SZGR 2.0 genes in this pathway
WALLACE JAK2 TARGETS UP	26	15	All SZGR 2.0 genes in this pathway
HOFFMANN PRE BI TO LARGE PRE BII LYMPHOCYTE DN	75	61	All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION	422	277	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
WIERENGA STAT5A TARGETS DN	213	127	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 UP	344	215	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-22	362	368	m8	hsa-miR-22^brain	AAGCUGCCAGUUGAAGAACUGU
miR-377	27	33	1A	hsa-miR-377	AUCACACAAAGGCAACUUUUGU
miR-9	147	153	1A	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: BIN1