SZGR2

Summary ?

GeneID	8349
Symbol	HIST2H2BE
Synonyms	GL105\|H2B\|H2B.1\|H2BFQ\|H2BGL105\|H2BQ
Description	histone cluster 2, H2be
Reference	MIM:601831\|HGNC:HGNC:4760\|Ensembl:ENSG00000184678\|HPRD:03494\|Vega:OTTHUMG00000012095
Gene type	protein-coding
Map location	1q21.2
Sherlock p-value	0.54
Fetal beta	1.092
DMG	1 (# studies)
eGene	Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
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.	2
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).	2
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: 0.0235
GSMA_IIA	Genome scan meta-analysis (All samples)	Psr: 0.00814
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias	Click to show details

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg07015494	1	149857049	HIST2H2BE;HIST2H2AC	5.833E-4	0.365	0.049	DMG:Wockner_2014
cg07015494	1	149857049	HIST2H2BE	7.18E-8	-0.017	1.72E-5	DMG:Jaffe_2016

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs12096089	chr1	112349065	HIST2H2BE	8349	0.14	trans
rs6829546	chr4	12587664	HIST2H2BE	8349	0.13	trans
rs6448932	chr4	12595798	HIST2H2BE	8349	0.15	trans
rs4379216	chr5	177511275	HIST2H2BE	8349	0.04	trans
rs1917357	chr7	124268065	HIST2H2BE	8349	0.16	trans
rs11656351	chr17	9489574	HIST2H2BE	8349	0.01	trans
rs6637217	chrX	143443905	HIST2H2BE	8349	0.17	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
CLIC1	0.74	0.65
EFNA4	0.71	0.45
CNN3	0.71	0.46
VIM	0.70	0.45
TGIF1	0.69	0.42
RFXANK	0.68	0.60
IQGAP2	0.68	0.22
LRRC3B	0.67	0.47
FKBP10	0.67	0.48
PDLIM3	0.67	0.50

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
SYNJ2	-0.32	-0.35
ITPR1	-0.31	-0.35
TDRD6	-0.31	-0.40
JAKMIP3	-0.31	-0.35
ITSN2	-0.31	-0.39
KIF16B	-0.31	-0.34
PIP5K2A	-0.30	-0.34
GPATCH4	-0.30	-0.40
GREM1	-0.29	-0.33
MYH7B	-0.29	-0.26

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003677	DNA binding	NAS		1469070
GO:0005515	protein binding	IPI		17353931
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006334	nucleosome assembly	NAS		1469070
GO:0042742	defense response to bacterium	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000786	nucleosome	NAS		1469070
GO:0005634	nucleus	IEA		-
GO:0005694	chromosome	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
BRD7	BP75 \| CELTIX1 \| NAG4	bromodomain containing 7	-	HPRD	12489984
DNTTIP2	ERBP \| FCF2 \| HSU15552 \| LPTS-RP2 \| MGC163494 \| RP4-561L24.1 \| TdIF2	deoxynucleotidyltransferase, terminal, interacting protein 2	-	HPRD	12786946
DYRK2	FLJ21217 \| FLJ21365	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	-	HPRD	9748265
HIRA	DGCR1 \| TUP1 \| TUPLE1	HIR histone cell cycle regulation defective homolog A (S. cerevisiae)	-	HPRD	9710638
HIRIP3	-	HIRA interacting protein 3	-	HPRD	9710638
HSPD1	CPN60 \| GROEL \| HSP60 \| HSP65 \| HuCHA60 \| SPG13	heat shock 60kDa protein 1 (chaperonin)	-	HPRD,BioGRID	9724719
KPNA1	IPOA5 \| NPI-1 \| RCH2 \| SRP1	karyopherin alpha 1 (importin alpha 5)	-	HPRD	11824786
LALBA	MGC138521 \| MGC138523	lactalbumin, alpha-	-	HPRD	12888554
NAP1L4	MGC4565 \| NAP2 \| NAP2L \| hNAP2	nucleosome assembly protein 1-like 4	-	HPRD	9325046
PARP3	ADPRT3 \| ADPRTL2 \| ADPRTL3 \| IRT1 \| hPARP-3 \| pADPRT-3	poly (ADP-ribose) polymerase family, member 3	Affinity Capture-MS	BioGRID	17353931
PTMA	MGC104802 \| TMSA	prothymosin, alpha	-	HPRD	11310559
RCC1	CHC1 \| RCC1-I	regulator of chromosome condensation 1	-	HPRD	11375490
TBL1X	EBI \| SMAP55 \| TBL1	transducin (beta)-like 1X-linked	H2B interacts with TBL1.	BIND	12628926
TBL1X	EBI \| SMAP55 \| TBL1	transducin (beta)-like 1X-linked	-	HPRD,BioGRID	12628926
TBL1XR1	C21 \| DC42 \| FLJ12894 \| IRA1 \| TBLR1	transducin (beta)-like 1 X-linked receptor 1	H2B interacts with TBLR1.	BIND	12628926
TBL1XR1	C21 \| DC42 \| FLJ12894 \| IRA1 \| TBLR1	transducin (beta)-like 1 X-linked receptor 1	Reconstituted Complex	BioGRID	12628926
TGM2	G-ALPHA-h \| GNAH \| TG2 \| TGC	transglutaminase 2 (C polypeptide, protein-glutamine-gamma-glutamyltransferase)	-	HPRD	9973324
TNPO1	IPO2 \| KPNB2 \| MIP \| MIP1 \| TRN	transportin 1	-	HPRD	11824786

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG SYSTEMIC LUPUS ERYTHEMATOSUS	140	100	All SZGR 2.0 genes in this pathway
REACTOME MEIOSIS	116	81	All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE	421	253	All SZGR 2.0 genes in this pathway
REACTOME RNA POL I TRANSCRIPTION	89	64	All SZGR 2.0 genes in this pathway
REACTOME TRANSCRIPTION	210	127	All SZGR 2.0 genes in this pathway
REACTOME RNA POL I RNA POL III AND MITOCHONDRIAL TRANSCRIPTION	122	80	All SZGR 2.0 genes in this pathway
REACTOME CHROMOSOME MAINTENANCE	122	80	All SZGR 2.0 genes in this pathway
REACTOME DEPOSITION OF NEW CENPA CONTAINING NUCLEOSOMES AT THE CENTROMERE	64	43	All SZGR 2.0 genes in this pathway
REACTOME RNA POL I PROMOTER OPENING	62	49	All SZGR 2.0 genes in this pathway
REACTOME MEIOTIC RECOMBINATION	86	62	All SZGR 2.0 genes in this pathway
REACTOME MEIOTIC SYNAPSIS	73	57	All SZGR 2.0 genes in this pathway
REACTOME AMYLOIDS	83	63	All SZGR 2.0 genes in this pathway
REACTOME PACKAGING OF TELOMERE ENDS	48	40	All SZGR 2.0 genes in this pathway
REACTOME TELOMERE MAINTENANCE	75	57	All SZGR 2.0 genes in this pathway
SENGUPTA NASOPHARYNGEAL CARCINOMA DN	349	157	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA UP	177	110	All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP	368	234	All SZGR 2.0 genes in this pathway
OSMAN BLADDER CANCER DN	406	230	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
GRAHAM CML QUIESCENT VS NORMAL QUIESCENT DN	47	32	All SZGR 2.0 genes in this pathway
GRAHAM CML DIVIDING VS NORMAL QUIESCENT DN	95	57	All SZGR 2.0 genes in this pathway
GRAHAM NORMAL QUIESCENT VS NORMAL DIVIDING UP	66	47	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP	1821	933	All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN	781	465	All SZGR 2.0 genes in this pathway
HAHTOLA MYCOSIS FUNGOIDES CD4 UP	64	46	All SZGR 2.0 genes in this pathway
HAHTOLA MYCOSIS FUNGOIDES UP	19	15	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP	1142	669	All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS	1174	695	All SZGR 2.0 genes in this pathway
SANCHEZ MDM2 TARGETS	15	10	All SZGR 2.0 genes in this pathway
HERNANDEZ ABERRANT MITOSIS BY DOCETACEL 4NM UP	23	15	All SZGR 2.0 genes in this pathway
HERNANDEZ MITOTIC ARREST BY DOCETAXEL 1 UP	36	18	All SZGR 2.0 genes in this pathway
HERNANDEZ ABERRANT MITOSIS BY DOCETACEL 2NM UP	81	57	All SZGR 2.0 genes in this pathway
XU HGF SIGNALING NOT VIA AKT1 48HR DN	20	12	All SZGR 2.0 genes in this pathway
PATIL LIVER CANCER	747	453	All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER UP	358	245	All SZGR 2.0 genes in this pathway
WANG RESPONSE TO PACLITAXEL VIA MAPK8 UP	14	9	All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP	769	437	All SZGR 2.0 genes in this pathway
PASQUALUCCI LYMPHOMA BY GC STAGE DN	165	104	All SZGR 2.0 genes in this pathway
BENPORATH OCT4 TARGETS	290	172	All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS	734	436	All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES	648	385	All SZGR 2.0 genes in this pathway
GNATENKO PLATELET SIGNATURE	48	28	All SZGR 2.0 genes in this pathway
FRASOR RESPONSE TO ESTRADIOL DN	82	52	All SZGR 2.0 genes in this pathway
REN BOUND BY E2F	61	40	All SZGR 2.0 genes in this pathway
VERNELL RETINOBLASTOMA PATHWAY DN	22	13	All SZGR 2.0 genes in this pathway
ALCALAY AML BY NPM1 LOCALIZATION UP	140	83	All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA UP	64	46	All SZGR 2.0 genes in this pathway
VERHAAK AML WITH NPM1 MUTATED UP	183	111	All SZGR 2.0 genes in this pathway
NOUZOVA TRETINOIN AND H4 ACETYLATION	143	85	All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION UP	314	201	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
KAYO AGING MUSCLE DN	123	76	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK UP	244	151	All SZGR 2.0 genes in this pathway
ZHENG RESPONSE TO ARSENITE UP	18	14	All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE DN	261	183	All SZGR 2.0 genes in this pathway
GEORGANTAS HSC MARKERS	71	47	All SZGR 2.0 genes in this pathway
LIANG SILENCED BY METHYLATION UP	32	18	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C3	20	15	All SZGR 2.0 genes in this pathway
DAZARD UV RESPONSE CLUSTER G2	30	18	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED	1022	619	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED	1229	713	All SZGR 2.0 genes in this pathway
MARSON BOUND BY E2F4 UNSTIMULATED	728	415	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS UP	317	208	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
SARRIO EPITHELIAL MESENCHYMAL TRANSITION DN	154	101	All SZGR 2.0 genes in this pathway
CAMPS COLON CANCER COPY NUMBER DN	74	34	All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D DN	270	181	All SZGR 2.0 genes in this pathway
MOLENAAR TARGETS OF CCND1 AND CDK4 UP	67	48	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP	973	570	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP	863	514	All SZGR 2.0 genes in this pathway
RAY TARGETS OF P210 BCR ABL FUSION UP	18	13	All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G3 UP	188	121	All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION	422	277	All SZGR 2.0 genes in this pathway
KOBAYASHI EGFR SIGNALING 24HR UP	101	65	All SZGR 2.0 genes in this pathway
HAHTOLA CTCL CUTANEOUS	26	19	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
DAZARD UV RESPONSE CLUSTER G24	28	19	All SZGR 2.0 genes in this pathway
DASU IL6 SIGNALING UP	59	44	All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE M G1	148	95	All SZGR 2.0 genes in this pathway
RAGHAVACHARI PLATELET SPECIFIC GENES	70	46	All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE DN	841	431	All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3	824	528	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 RXRA BOUND 8D	882	506	All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL DN	428	246	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-23	1095	1101	1A	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
miR-23	1095	1101	1A	hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC

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: HIST2H2BE