SZGR2

Summary ?

GeneID	23429
Symbol	RYBP
Synonyms	AAP1\|APAP-1\|DEDAF\|YEAF1
Description	RING1 and YY1 binding protein
Reference	MIM:607535\|HGNC:HGNC:10480\|HPRD:09607\|
Gene type	protein-coding
Map location	3p13
Pascal p-value	0.235
Sherlock p-value	0.962
Fetal beta	0.544
eGene	Myers' cis & trans Meta

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
GSMA_IIE	Genome scan meta-analysis (European-ancestry samples)	Psr: 0.04359
GSMA_IIA	Genome scan meta-analysis (All samples)	Psr: 0.04047

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs4677155	chr3	72413686	RYBP	23429		6.735E-8		cis
rs4677155	chr3	72413686	RYBP	23429		1.51E-5		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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
GNG13	0.89	0.66
CPNE9	0.86	0.74
WNT2	0.86	0.62
RDH12	0.85	0.64
DPYS	0.83	0.60
FAM19A4	0.83	0.62
CASQ2	0.83	0.52
NPL	0.83	0.46
RGS16	0.82	0.30
CCDC136	0.82	0.36

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
WDR86	-0.37	-0.55
EMID1	-0.31	-0.47
PVRL2	-0.30	-0.55
PLEKHO1	-0.30	-0.43
OLFM2	-0.29	-0.46
AC022098.2	-0.29	-0.46
NR2C2AP	-0.28	-0.44
MARCKSL1	-0.28	-0.54
TUBB2B	-0.28	-0.62
SHF	-0.28	-0.42

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003677	DNA binding	IEA		-
GO:0003714	transcription corepressor activity	TAS		10369680
GO:0008270	zinc ion binding	IEA		-
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	TAS		10369680
GO:0006355	regulation of transcription, DNA-dependent	IEA		-
GO:0006350	transcription	IEA		-
GO:0006915	apoptosis	IEA		-
GO:0007275	multicellular organismal development	TAS		10369680
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005622	intracellular	IEA		-
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IEA		-

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	Far Western Reconstituted Complex Two-hybrid	BioGRID	8943360
CASP10	ALPS2 \| FLICE2 \| MCH4	caspase 10, apoptosis-related cysteine peptidase	-	HPRD,BioGRID	11395500
CASP8	ALPS2B \| CAP4 \| FLICE \| FLJ17672 \| MACH \| MCH5 \| MGC78473	caspase 8, apoptosis-related cysteine peptidase	-	HPRD	11395500
CBX2	CDCA6 \| M33 \| MGC10561	chromobox homolog 2 (Pc class homolog, Drosophila)	Affinity Capture-Western Reconstituted Complex	BioGRID	10369680
E2F2	E2F-2	E2F transcription factor 2	E2F2 interacts with RYBP.	BIND	12411495
E2F2	E2F-2	E2F transcription factor 2	Affinity Capture-Western Two-hybrid	BioGRID	12411495
E2F3	DKFZp686C18211 \| E2F-3 \| KIAA0075 \| MGC104598	E2F transcription factor 3	Affinity Capture-Western Two-hybrid	BioGRID	12411495
E2F3	DKFZp686C18211 \| E2F-3 \| KIAA0075 \| MGC104598	E2F transcription factor 3	E2F3 interacts with RYBP.	BIND	12411495
E2F4	E2F-4	E2F transcription factor 4, p107/p130-binding	Two-hybrid	BioGRID	12411495
E2F6	E2F-6 \| MGC111545	E2F transcription factor 6	Affinity Capture-Western Reconstituted Complex Two-hybrid	BioGRID	11171983 \|12411495
FADD	GIG3 \| MGC8528 \| MORT1	Fas (TNFRSF6)-associated via death domain	Affinity Capture-Western	BioGRID	11395500
RING1	RING1A \| RNF1	ring finger protein 1	-	HPRD,BioGRID	10369680
YY1	DELTA \| INO80S \| NF-E1 \| UCRBP \| YIN-YANG-1	YY1 transcription factor	-	HPRD,BioGRID	10369680

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PID E2F PATHWAY	74	48	All SZGR 2.0 genes in this pathway
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN	634	384	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA DN	526	357	All SZGR 2.0 genes in this pathway
GAZDA DIAMOND BLACKFAN ANEMIA MYELOID DN	38	25	All SZGR 2.0 genes in this pathway
PUIFFE INVASION INHIBITED BY ASCITES DN	145	91	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS BLUE UP	136	80	All SZGR 2.0 genes in this pathway
MULLIGHAN NPM1 MUTATED SIGNATURE 1 UP	276	165	All SZGR 2.0 genes in this pathway
MULLIGHAN NPM1 MUTATED SIGNATURE 2 UP	139	83	All SZGR 2.0 genes in this pathway
MULLIGHAN NPM1 SIGNATURE 3 UP	341	197	All SZGR 2.0 genes in this pathway
UDAYAKUMAR MED1 TARGETS DN	240	171	All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS DN	536	332	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 6HR DN	167	100	All SZGR 2.0 genes in this pathway
NAGASHIMA NRG1 SIGNALING DN	58	35	All SZGR 2.0 genes in this pathway
NAGASHIMA EGF SIGNALING UP	58	40	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 8HR UP	164	122	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN	508	354	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
NUYTTEN NIPP1 TARGETS DN	848	527	All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP	811	508	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN	428	306	All SZGR 2.0 genes in this pathway
AMIT SERUM RESPONSE 120 MCF10A	65	44	All SZGR 2.0 genes in this pathway
KIM GERMINAL CENTER T HELPER DN	24	15	All SZGR 2.0 genes in this pathway
JAZAERI BREAST CANCER BRCA1 VS BRCA2 DN	43	31	All SZGR 2.0 genes in this pathway
WU HBX TARGETS 2 DN	16	11	All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION UP	314	201	All SZGR 2.0 genes in this pathway
WU HBX TARGETS 1 DN	23	14	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV SCC DN	123	86	All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D2	41	30	All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN	312	203	All SZGR 2.0 genes in this pathway
JIANG HYPOXIA NORMAL	311	205	All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN UP	439	257	All SZGR 2.0 genes in this pathway
CHEN HOXA5 TARGETS 9HR UP	223	132	All SZGR 2.0 genes in this pathway
LEE DIFFERENTIATING T LYMPHOCYTE	200	115	All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER GOOD SURVIVAL A12	317	177	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS UP	518	299	All SZGR 2.0 genes in this pathway
ROME INSULIN TARGETS IN MUSCLE UP	442	263	All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2 VIA ERCC6 UP	40	30	All SZGR 2.0 genes in this pathway
RAGHAVACHARI PLATELET SPECIFIC GENES	70	46	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 DN	918	550	All SZGR 2.0 genes in this pathway
KRIEG HYPOXIA NOT VIA KDM3A	770	480	All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4	227	149	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-1/206	2133	2139	m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-10	32	38	1A	hsa-miR-10a	UACCCUGUAGAUCCGAAUUUGUG
miR-10	32	38	1A	hsa-miR-10b	UACCCUGUAGAACCGAAUUUGU
miR-103/107	64	70	m8	hsa-miR-103^brain	AGCAGCAUUGUACAGGGCUAUGA
miR-103/107	64	70	m8	hsa-miR-107^brain	AGCAGCAUUGUACAGGGCUAUCA
miR-124.1	3099	3105	m8	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	3099	3105	1A	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	3099	3105	1A	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-125/351	2173	2180	1A,m8	hsa-miR-125b^brain	UCCCUGAGACCCUAACUUGUGA
miR-125/351	2173	2180	1A,m8	hsa-miR-125a^brain	UCCCUGAGACCCUUUAACCUGUG
miR-128	546	553	1A,m8	hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
				hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
				hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
				hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
miR-130/301	2277	2283	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-135	2194	2200	1A	hsa-miR-135a	UAUGGCUUUUUAUUCCUAUGUGA
miR-135	2194	2200	1A	hsa-miR-135b	UAUGGCUUUUCAUUCCUAUGUG
miR-136	3241	3247	m8	hsa-miR-136	ACUCCAUUUGUUUUGAUGAUGGA
miR-141/200a	2864	2871	1A,m8	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
miR-141/200a	2864	2871	1A,m8	hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
miR-142-5p	3695	3701	m8	hsa-miR-142-5p	CAUAAAGUAGAAAGCACUAC
miR-148/152	2278	2284	m8	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-15/16/195/424/497	65	71	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
miR-17-5p/20/93.mr/106/519.d	3694	3700	1A	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
				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-19	3	9	1A	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	3	9	1A	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-208	3583	3589	1A	hsa-miR-208	AUAAGACGAGCAAAAAGCUUGU
miR-217	2968	2974	m8	hsa-miR-217	UACUGCAUCAGGAACUGAUUGGAU
miR-218	2859	2865	m8	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-219	228	234	1A	hsa-miR-219^brain	UGAUUGUCCAAACGCAAUUCU
miR-23	724	730	m8	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
miR-23	724	730	m8	hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-27	547	554	1A,m8	hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
miR-27	547	554	1A,m8	hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
miR-29	534	540	m8	hsa-miR-29a^SZ	UAGCACCAUCUGAAAUCGGUU
				hsa-miR-29b^SZ	UAGCACCAUUUGAAAUCAGUGUU
				hsa-miR-29c^SZ	UAGCACCAUUUGAAAUCGGU
miR-323	724	730	1A	hsa-miR-323^brain	GCACAUUACACGGUCGACCUCU
miR-324-5p	1972	1979	1A,m8	hsa-miR-324-5p	CGCAUCCCCUAGGGCAUUGGUGU
miR-330	812	818	1A	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-335	183	189	1A	hsa-miR-335^brain	UCAAGAGCAAUAACGAAAAAUGU
miR-376	597	604	1A,m8	hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
				hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
				hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
				hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
				hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
				hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
miR-381	3457	3464	1A,m8	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-381	3457	3464	1A,m8	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-410	493	499	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-485-3p	3285	3291	m8	hsa-miR-485-3p	GUCAUACACGGCUCUCCUCUCU
miR-488	3035	3041	1A	hsa-miR-488	CCCAGAUAAUGGCACUCUCAA
miR-493-5p	304	310	m8	hsa-miR-493-5p	UUGUACAUGGUAGGCUUUCAUU
miR-495	3407	3413	1A	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
				hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
				hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-496	2355	2362	1A,m8	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-499	3583	3589	1A	hsa-miR-499	UUAAGACUUGCAGUGAUGUUUAA
miR-499	3583	3589	1A	hsa-miR-499	UUAAGACUUGCAGUGAUGUUUAA
miR-7	433	439	1A	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG
miR-9	2027	2033	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: RYBP