SZGR2

Summary ?

GeneID	10458
Symbol	BAIAP2
Synonyms	BAP2\|FLAF3\|IRSP53
Description	BAI1 associated protein 2
Reference	MIM:605475\|HGNC:HGNC:947\|Ensembl:ENSG00000175866\|HPRD:05686\|Vega:OTTHUMG00000177698
Gene type	protein-coding
Map location	17q25
Pascal p-value	0.015
Sherlock p-value	0.596
Fetal beta	-1.424
Support	INTRACELLULAR SIGNAL TRANSDUCTION G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS G2Cdb.human_TAP-PSD-95-CORE G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet Potential synaptic genes

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DNM:Fromer_2014	Whole Exome Sequencing analysis	This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
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: 4

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
BAIAP2	chr17	79080665	C	G	NM_001144888 NM_006340 NM_017450 NM_017451	p.486F>L p.486F>L p.486F>L p.486F>L	missense missense missense missense			Schizophrenia	DNM:Fromer_2014
BAIAP2	chr17	79089626..79089629	CCCT	C	NM_001144888 NM_006340 NM_017451	. . .	out-of-frame-codon-deletion 3-UTR intronic			Schizophrenia	DNM:Fromer_2014

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
COPB1	0.95	0.96
XRCC5	0.95	0.94
ARF4	0.95	0.95
POLR2B	0.94	0.93
HSF2	0.94	0.94
MATR3	0.94	0.93
RFWD2	0.94	0.93
CCT6A	0.94	0.92
PTBP2	0.94	0.93
CSE1L	0.94	0.93

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MT-CO2	-0.75	-0.88
AF347015.33	-0.74	-0.88
MT-CYB	-0.74	-0.88
AF347015.31	-0.74	-0.86
AF347015.8	-0.73	-0.90
AF347015.27	-0.73	-0.85
AF347015.15	-0.72	-0.88
HLA-F	-0.71	-0.78
AIFM3	-0.71	-0.78
AF347015.26	-0.70	-0.88

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0008022	protein C-terminus binding	TAS		10343108
GO:0008093	cytoskeletal adaptor activity	TAS		10343108
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007409	axonogenesis	TAS	neuron, axon, neurite (GO term level: 12)	10343108
GO:0046847	filopodium formation	IEA	axon (GO term level: 10)	-
GO:0007399	nervous system development	IEA	neurite (GO term level: 5)	-
GO:0007165	signal transduction	IEA		-
GO:0008286	insulin receptor signaling pathway	TAS		10343108
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0042995	cell projection	IEA	axon (GO term level: 4)	-
GO:0005737	cytoplasm	TAS		10343108
GO:0005886	plasma membrane	TAS		10343108

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ATN1	B37 \| D12S755E \| DRPLA \| NOD	atrophin 1	-	HPRD,BioGRID	10332026
BAI1	FLJ41988	brain-specific angiogenesis inhibitor 1	-	HPRD,BioGRID	10343108
C14orf1	ERG28 \| NET51	chromosome 14 open reading frame 1	Two-hybrid	BioGRID	16169070
CDC42	CDC42Hs \| G25K	cell division cycle 42 (GTP binding protein, 25kDa)	-	HPRD,BioGRID	11696321
DIAPH1	DFNA1 \| DIA1 \| DRF1 \| FLJ25265 \| LFHL1 \| hDIA1	diaphanous homolog 1 (Drosophila)	-	HPRD	10814512
ENAH	ENA \| MENA \| NDPP1	enabled homolog (Drosophila)	Reconstituted Complex	BioGRID	11696321
EPS8	-	epidermal growth factor receptor pathway substrate 8	-	HPRD,BioGRID	15289329
LIN7A	LIN-7A \| LIN7 \| MALS-1 \| MGC148143 \| TIP-33 \| VELI1	lin-7 homolog A (C. elegans)	-	HPRD	14596909
LIN7B	LIN-7B \| MALS-2 \| MALS2 \| VELI2	lin-7 homolog B (C. elegans)	-	HPRD	14596909
NCKIPSD	AF3P21 \| DIP \| DIP1 \| MGC23891 \| ORF1 \| SPIN90 \| WASLBP \| WISH	NCK interacting protein with SH3 domain	Two-hybrid	BioGRID	16189514
PAK1	MGC130000 \| MGC130001 \| PAKalpha	p21 protein (Cdc42/Rac)-activated kinase 1	Reconstituted Complex	BioGRID	11130076
RAC1	MGC111543 \| MIG5 \| TC-25 \| p21-Rac1	ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)	-	HPRD,BioGRID	11130076 \|12054568
SHANK1	SPANK-1 \| SSTRIP \| synamon	SH3 and multiple ankyrin repeat domains 1	-	HPRD,BioGRID	12504591
SHANK2	CORTBP1 \| CTTNBP1 \| ProSAP1 \| SHANK \| SPANK-3	SH3 and multiple ankyrin repeat domains 2	-	HPRD	12504591
WASF1	FLJ31482 \| KIAA0269 \| SCAR1 \| WAVE \| WAVE1	WAS protein family, member 1	Far Western Reconstituted Complex Two-hybrid	BioGRID	11130076
WASF2	SCAR2 \| WAVE2 \| dJ393P12.2	WAS protein family, member 2	-	HPRD,BioGRID	11130076
YWHAG	14-3-3GAMMA	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	Affinity Capture-MS	BioGRID	17353931

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG ADHERENS JUNCTION	75	53	All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON	216	144	All SZGR 2.0 genes in this pathway
BIOCARTA RHO PATHWAY	32	23	All SZGR 2.0 genes in this pathway
PID CDC42 PATHWAY	70	51	All SZGR 2.0 genes in this pathway
PID ERBB1 DOWNSTREAM PATHWAY	105	78	All SZGR 2.0 genes in this pathway
PID PDGFRB PATHWAY	129	103	All SZGR 2.0 genes in this pathway
PID RAC1 PATHWAY	54	37	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP	783	507	All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS DN	260	143	All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION DN	329	219	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP	214	155	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 8HR UP	164	122	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP	1821	933	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN	485	334	All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION CDC25 DN	153	100	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP	1142	669	All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP	612	367	All SZGR 2.0 genes in this pathway
DARWICHE SKIN TUMOR PROMOTER UP	142	96	All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK LOW DN	165	107	All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK HIGH DN	180	110	All SZGR 2.0 genes in this pathway
DARWICHE SQUAMOUS CELL CARCINOMA UP	146	104	All SZGR 2.0 genes in this pathway
LASTOWSKA NEUROBLASTOMA COPY NUMBER UP	181	108	All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS	1174	695	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP	1037	673	All SZGR 2.0 genes in this pathway
SCIAN INVERSED TARGETS OF TP53 AND TP73 DN	31	23	All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS DN	261	155	All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS	1062	725	All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES	648	385	All SZGR 2.0 genes in this pathway
WANG PROSTATE CANCER ANDROGEN INDEPENDENT	66	37	All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 17Q21 Q25 AMPLICON	335	181	All SZGR 2.0 genes in this pathway
LEI MYB TARGETS	318	215	All SZGR 2.0 genes in this pathway
GERY CEBP TARGETS	126	90	All SZGR 2.0 genes in this pathway
CHIARETTI ACUTE LYMPHOBLASTIC LEUKEMIA ZAP70	67	33	All SZGR 2.0 genes in this pathway
CROMER METASTASIS DN	81	58	All SZGR 2.0 genes in this pathway
MCCLUNG COCAINE REWARD 5D	79	62	All SZGR 2.0 genes in this pathway
DELASERNA MYOD TARGETS DN	57	42	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV SCC DN	123	86	All SZGR 2.0 genes in this pathway
KIM GASTRIC CANCER CHEMOSENSITIVITY	103	64	All SZGR 2.0 genes in this pathway
VARELA ZMPSTE24 TARGETS UP	40	30	All SZGR 2.0 genes in this pathway
BANDRES RESPONSE TO CARMUSTIN MGMT 48HR DN	161	105	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
MASSARWEH TAMOXIFEN RESISTANCE UP	578	341	All SZGR 2.0 genes in this pathway
OUYANG PROSTATE CANCER PROGRESSION DN	21	16	All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING	510	309	All SZGR 2.0 genes in this pathway
FLOTHO PEDIATRIC ALL THERAPY RESPONSE DN	29	17	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR UP	293	203	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN	457	302	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN	668	419	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SURVIVAL DN	113	76	All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE G1 S	147	76	All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN	784	464	All SZGR 2.0 genes in this pathway
FOSTER KDM1A TARGETS DN	211	119	All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY	1839	928	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-149	338	344	m8	hsa-miR-149^brain	UCUGGCUCCGUGUCUUCACUCC
miR-181	1369	1376	1A,m8	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-29	171	177	m8	hsa-miR-29a^SZ	UAGCACCAUCUGAAAUCGGUU
				hsa-miR-29b^SZ	UAGCACCAUUUGAAAUCAGUGUU
				hsa-miR-29c^SZ	UAGCACCAUUUGAAAUCGGU
miR-331	1345	1352	1A,m8	hsa-miR-331^brain	GCCCCUGGGCCUAUCCUAGAA
miR-495	87	93	m8	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-496	1405	1411	1A	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-504	162	168	m8	hsa-miR-504	AGACCCUGGUCUGCACUCUAU
miR-9	791	797	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: BAIAP2