SZGR2

Summary ?

GeneID	5048
Symbol	PAFAH1B1
Synonyms	LIS1\|LIS2\|MDCR\|MDS\|PAFAH
Description	platelet activating factor acetylhydrolase 1b regulatory subunit 1
Reference	MIM:601545\|HGNC:HGNC:8574\|Ensembl:ENSG00000007168\|HPRD:03329\|Vega:OTTHUMG00000177574
Gene type	protein-coding
Map location	17p13.3
Pascal p-value	0.043
Sherlock p-value	0.446
Fetal beta	0.455
Support	INTRACELLULAR SIGNAL TRANSDUCTION

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
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,schizophrenic,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 8
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.1894

Section I. Genetics and epigenetics annotation

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
CDCA7L	0.87	0.61
CDK2	0.86	0.48
GLI3	0.86	0.68
WEE1	0.85	0.35
HELLS	0.85	0.25
MELK	0.85	0.27
FANCI	0.85	0.26
TEAD2	0.85	0.40
KIF23	0.85	0.19
CCNB2	0.85	0.28

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
ADAP1	-0.34	-0.28
FXYD7	-0.33	-0.25
P2RX5	-0.32	-0.31
KCNF1	-0.32	-0.36
PINK1	-0.32	-0.33
KAZALD1	-0.32	-0.24
RLTPR	-0.32	-0.26
ASPHD1	-0.31	-0.20
CKMT1A	-0.31	-0.29
SULT4A1	-0.31	-0.40

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0008201	heparin binding	ISS		8028668
GO:0008017	microtubule binding	IEA		-
GO:0051219	phosphoprotein binding	ISS		-
GO:0042803	protein homodimerization activity	IEA		-
GO:0043274	phospholipase binding	ISS		8028668
GO:0034452	dynactin binding	ISS		11056532
GO:0045502	dynein binding	IDA		11889140
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007405	neuroblast proliferation	IEA	neuron (GO term level: 8)	-
GO:0001764	neuron migration	IEA	neuron (GO term level: 8)	-
GO:0007268	synaptic transmission	IEA	neuron, Synap, Neurotransmitter (GO term level: 6)	-
GO:0021540	corpus callosum morphogenesis	IMP	neuron, axon (GO term level: 15)	9063735
GO:0048854	brain morphogenesis	IMP	Brain (GO term level: 8)	9063735
GO:0008090	retrograde axon cargo transport	IEA	axon (GO term level: 9)	-
GO:0021819	layer formation in the cerebral cortex	ISS	Glial (GO term level: 15)	-
GO:0007399	nervous system development	IEA	neurite (GO term level: 5)	-
GO:0000132	establishment of mitotic spindle orientation	IMP		11056532
GO:0000226	microtubule cytoskeleton organization	IEA		-
GO:0001675	acrosome formation	IEA		-
GO:0016042	lipid catabolic process	IEA		-
GO:0007049	cell cycle	IEA		-
GO:0007067	mitosis	IEA		-
GO:0008344	adult locomotory behavior	IEA		-
GO:0007611	learning or memory	IEA		-
GO:0006810	transport	IEA		-
GO:0007275	multicellular organismal development	IEA		-
GO:0030154	cell differentiation	IEA		-
GO:0030036	actin cytoskeleton organization	ISS		10729324
GO:0021987	cerebral cortex development	IEA		-
GO:0050885	neuromuscular process controlling balance	IEA		-
GO:0021766	hippocampus development	IEA		-
GO:0032319	regulation of Rho GTPase activity	ISS		10729324
GO:0051301	cell division	IEA		-
GO:0047496	vesicle transport along microtubule	IEA		-
GO:0046469	platelet activating factor metabolic process	ISS		8028668
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000235	astral microtubule	IDA		11940666
GO:0000776	kinetochore	IDA		11056532 \|11889140 \|11940666
GO:0005813	centrosome	IEA		-
GO:0005819	spindle	IEA		-
GO:0005829	cytosol	ISS		8028668
GO:0005874	microtubule	IEA		-
GO:0005875	microtubule associated complex	IDA		11889140
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0016020	membrane	IEA		-
GO:0005938	cell cortex	IDA		11940666
GO:0048471	perinuclear region of cytoplasm	ISS		-
GO:0031513	nonmotile primary cilium	ISS		-
GO:0031512	motile primary cilium	IEA		-
GO:0031252	cell leading edge	IEA		-
GO:0031965	nuclear membrane	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
CLIP1	CLIP \| CLIP-170 \| CLIP170 \| CYLN1 \| MGC131604 \| RSN	CAP-GLY domain containing linker protein 1	-	HPRD,BioGRID	11940666
CSNK2A1	CK2A1 \| CKII	casein kinase 2, alpha 1 polypeptide	-	HPRD,BioGRID	10491172
DAB1	-	disabled homolog 1 (Drosophila)	-	HPRD	14578885
DCTN1	DAP-150 \| DP-150 \| HMN7B \| P135	dynactin 1 (p150, glued homolog, Drosophila)	-	HPRD,BioGRID	11889140\|14584027
DCTN2	DCTN50 \| DYNAMITIN \| RBP50	dynactin 2 (p50)	Two-hybrid	BioGRID	11889140
DCX	DBCN \| DC \| LISX \| SCLH \| XLIS	doublecortin	-	HPRD,BioGRID	11001923
DNAI1	CILD1 \| ICS \| MGC26204 \| PCD	dynein, axonemal, intermediate chain 1	-	HPRD	11889140
DYNC1H1	DHC1 \| DHC1a \| DKFZp686P2245 \| DNCH1 \| DNCL \| DNECL \| DYHC \| Dnchc1 \| HL-3 \| KIAA0325 \| p22	dynein, cytoplasmic 1, heavy chain 1	Affinity Capture-Western Two-hybrid	BioGRID	11889140
HSPH1	DKFZp686M05240 \| HSP105 \| HSP105A \| HSP105B \| KIAA0201 \| NY-CO-25	heat shock 105kDa/110kDa protein 1	-	HPRD	14733918
KARS	KARS2 \| KIAA0070 \| KRS	lysyl-tRNA synthetase	Two-hybrid	BioGRID	16169070
NDE1	FLJ20101 \| HOM-TES-87 \| NUDE \| NUDE1	nudE nuclear distribution gene E homolog 1 (A. nidulans)	-	HPRD	11163258
NDEL1	DKFZp451M0318 \| EOPA \| MITAP1 \| NUDEL	nudE nuclear distribution gene E homolog (A. nidulans)-like 1	-	HPRD,BioGRID	11163260
NUDC	HNUDC \| MNUDC \| NPD011	nuclear distribution gene C homolog (A. nidulans)	-	HPRD,BioGRID	9601647 \|11734602
PAFAH1B1	LIS1 \| LIS2 \| MDCR \| MDS \| PAFAH	platelet-activating factor acetylhydrolase, isoform Ib, alpha subunit 45kDa	-	HPRD,BioGRID	11889140
PAFAH1B2	-	platelet-activating factor acetylhydrolase, isoform Ib, beta subunit 30kDa	-	HPRD,BioGRID	10727864
PAFAH1B3	-	platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit 29kDa	-	HPRD,BioGRID	10727864
TUBA1A	B-ALPHA-1 \| FLJ25113 \| LIS3 \| TUBA3	tubulin, alpha 1a	Reconstituted Complex	BioGRID	9384577

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG ETHER LIPID METABOLISM	33	15	All SZGR 2.0 genes in this pathway
PID REELIN PATHWAY	29	29	All SZGR 2.0 genes in this pathway
PID LIS1 PATHWAY	28	22	All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE	421	253	All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE MITOTIC	325	185	All SZGR 2.0 genes in this pathway
REACTOME RECRUITMENT OF MITOTIC CENTROSOME PROTEINS AND COMPLEXES	66	43	All SZGR 2.0 genes in this pathway
REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES	59	38	All SZGR 2.0 genes in this pathway
REACTOME MITOTIC M M G1 PHASES	172	98	All SZGR 2.0 genes in this pathway
REACTOME MITOTIC G2 G2 M PHASES	81	50	All SZGR 2.0 genes in this pathway
REACTOME DNA REPLICATION	192	110	All SZGR 2.0 genes in this pathway
REACTOME MITOTIC PROMETAPHASE	87	51	All SZGR 2.0 genes in this pathway
LIU SOX4 TARGETS DN	309	191	All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP	332	228	All SZGR 2.0 genes in this pathway
GARY CD5 TARGETS DN	431	263	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
TIEN INTESTINE PROBIOTICS 24HR UP	557	331	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN	485	334	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
LASTOWSKA NEUROBLASTOMA COPY NUMBER UP	181	108	All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN	712	443	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 COMMON DN	483	336	All SZGR 2.0 genes in this pathway
DAIRKEE TERT TARGETS DN	124	79	All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP	769	437	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP	1037	673	All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP	811	508	All SZGR 2.0 genes in this pathway
SCHWAB TARGETS OF BMYB POLYMORPHIC VARIANTS DN	17	12	All SZGR 2.0 genes in this pathway
GOTZMANN EPITHELIAL TO MESENCHYMAL TRANSITION UP	69	55	All SZGR 2.0 genes in this pathway
GEORGES CELL CYCLE MIR192 TARGETS	62	46	All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215	893	528	All SZGR 2.0 genes in this pathway
SHEN SMARCA2 TARGETS UP	424	268	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 1 DN	169	102	All SZGR 2.0 genes in this pathway
GOLDRATH HOMEOSTATIC PROLIFERATION	171	102	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT REJECTED VS OK DN	546	351	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP	555	346	All SZGR 2.0 genes in this pathway
KAAB FAILED HEART ATRIUM DN	141	99	All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX UP	36	27	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
ZHU CMV 24 HR DN	91	64	All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D6	37	25	All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN	312	203	All SZGR 2.0 genes in this pathway
ZHU CMV ALL DN	128	93	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT DN	165	106	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK DN	318	220	All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN	434	302	All SZGR 2.0 genes in this pathway
LY AGING OLD DN	56	35	All SZGR 2.0 genes in this pathway
DAZARD UV RESPONSE CLUSTER G6	153	112	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C5	46	36	All SZGR 2.0 genes in this pathway
GENTILE UV LOW DOSE DN	67	46	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 12HR DN	101	64	All SZGR 2.0 genes in this pathway
JIANG AGING HYPOTHALAMUS UP	47	31	All SZGR 2.0 genes in this pathway
OUILLETTE CLL 13Q14 DELETION UP	74	40	All SZGR 2.0 genes in this pathway
DE YY1 TARGETS DN	92	64	All SZGR 2.0 genes in this pathway
MATZUK SPERMATID DIFFERENTIATION	37	26	All SZGR 2.0 genes in this pathway
BONCI TARGETS OF MIR15A AND MIR16 1	91	75	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS UP	518	299	All SZGR 2.0 genes in this pathway
YAGI AML WITH 11Q23 REARRANGED	351	238	All SZGR 2.0 genes in this pathway
RAMPON ENRICHED LEARNING ENVIRONMENT EARLY DN	10	10	All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP	548	370	All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN	1080	713	All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG BOUND 8D	658	397	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-1/206	2739	2746	1A,m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-10	1040	1046	m8	hsa-miR-10a	UACCCUGUAGAUCCGAAUUUGUG
miR-10	1040	1046	m8	hsa-miR-10b	UACCCUGUAGAACCGAAUUUGU
miR-101	181	187	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-124/506	2549	2555	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	2549	2555	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-125/351	2362	2369	1A,m8	hsa-miR-125b^brain	UCCCUGAGACCCUAACUUGUGA
miR-125/351	2362	2369	1A,m8	hsa-miR-125a^brain	UCCCUGAGACCCUUUAACCUGUG
miR-130/301	2868	2874	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-144	180	187	1A,m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-15/16/195/424/497	2005	2012	1A,m8	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
				hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
				hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-150	2287	2294	1A,m8	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-151	202	208	1A	hsa-miR-151^brain	ACUAGACUGAAGCUCCUUGAGG
miR-17-5p/20/93.mr/106/519.d	2870	2877	1A,m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
miR-181	3673	3679	1A	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-182	566	573	1A,m8	hsa-miR-182	UUUGGCAAUGGUAGAACUCACA
miR-194	139	145	1A	hsa-miR-194	UGUAACAGCAACUCCAUGUGGA
miR-205	3555	3561	m8	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-214	2304	2310	m8	hsa-miR-214^brain	ACAGCAGGCACAGACAGGCAG
miR-22	667	673	1A	hsa-miR-22^brain	AAGCUGCCAGUUGAAGAACUGU
miR-223	3549	3555	1A	hsa-miR-223	UGUCAGUUUGUCAAAUACCCC
miR-25/32/92/363/367	893	899	m8	hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
miR-324-5p	38	44	1A	hsa-miR-324-5p	CGCAUCCCCUAGGGCAUUGGUGU
miR-330	2638	2644	m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-339	1039	1045	m8	hsa-miR-339	UCCCUGUCCUCCAGGAGCUCA
miR-376c	431	438	1A,m8	hsa-miR-376c	AACAUAGAGGAAAUUCCACG
miR-381	176	182	1A	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-496	101	108	1A,m8	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-503	2006	2012	1A	hsa-miR-503	UAGCAGCGGGAACAGUUCUGCAG
miR-543	137	143	1A	hsa-miR-543	AAACAUUCGCGGUGCACUUCU
miR-96	567	573	1A	hsa-miR-96^brain	UUUGGCACUAGCACAUUUUUGC

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: PAFAH1B1