SZGR2

Summary ?

GeneID	4628
Symbol	MYH10
Synonyms	NMMHC-IIB\|NMMHCB
Description	myosin, heavy chain 10, non-muscle
Reference	MIM:160776\|HGNC:HGNC:7568\|Ensembl:ENSG00000133026\|HPRD:01178\|Vega:OTTHUMG00000108195
Gene type	protein-coding
Map location	17p13
Pascal p-value	0.02
Sherlock p-value	0.234
TADA p-value	0.028
Fetal beta	-0.022
DMG	1 (# studies)
Support	STRUCTURAL PLASTICITY 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 G2Cdb.humanNRC CompositeSet Darnell FMRP targets Ascano FMRP targets Potential synaptic genes

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.	1
DNM:Xu_2012	Whole Exome Sequencing analysis	De novo mutations of 4 genes were identified by exome sequencing of 795 samples in this study
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
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0044

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
MYH10	chr17	8445550	G	C	NM_001256012 NM_001256095 NM_005964	p.494Q>E p.493Q>E p.484Q>E	missense missense missense			Schizophrenia	DNM:Xu_2012

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg00427296	17	8534932	MYH10	2.76E-8	-0.025	8.68E-6	DMG:Jaffe_2016

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:0000146	microfilament motor activity	IDA		15845534
GO:0000166	nucleotide binding	IEA		-
GO:0005516	calmodulin binding	IEA		-
GO:0005524	ATP binding	NAS		7782316
GO:0051015	actin filament binding	IDA		15845534
GO:0030898	actin-dependent ATPase activity	IDA		15845534
GO:0043531	ADP binding	IDA		15845534
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000281	cytokinesis after mitosis	IDA		15774463
GO:0008360	regulation of cell shape	IEA		-
GO:0008150	biological_process	ND		-
GO:0030048	actin filament-based movement	IDA		15845534
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0001725	stress fiber	IDA		7699007
GO:0005737	cytoplasm	IDA		7699007
GO:0005938	cell cortex	IDA		7699007
GO:0016459	myosin complex	NAS		7499478
GO:0030496	midbody	IDA		11029059
GO:0032154	cleavage furrow	IDA		7699007 \|11029059

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG TIGHT JUNCTION	134	86	All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON	216	144	All SZGR 2.0 genes in this pathway
KEGG VIRAL MYOCARDITIS	73	58	All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY	396	292	All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE	251	188	All SZGR 2.0 genes in this pathway
REACTOME SEMA4D IN SEMAPHORIN SIGNALING	32	22	All SZGR 2.0 genes in this pathway
REACTOME SEMAPHORIN INTERACTIONS	68	53	All SZGR 2.0 genes in this pathway
REACTOME SEMA4D INDUCED CELL MIGRATION AND GROWTH CONE COLLAPSE	27	21	All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 UP	201	125	All SZGR 2.0 genes in this pathway
BERTUCCI MEDULLARY VS DUCTAL BREAST CANCER DN	169	118	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN	663	425	All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER ADVANCED VS EARLY UP	175	120	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 8D UP	157	91	All SZGR 2.0 genes in this pathway
RHEIN ALL GLUCOCORTICOID THERAPY DN	362	238	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 1 DN	242	165	All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS DN	260	143	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP	557	331	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE FIMA DN	284	156	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP	214	155	All SZGR 2.0 genes in this pathway
GRAHAM CML QUIESCENT VS NORMAL QUIESCENT UP	87	45	All SZGR 2.0 genes in this pathway
WAMUNYOKOLI OVARIAN CANCER LMP DN	199	124	All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP	443	294	All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL UP	584	356	All SZGR 2.0 genes in this pathway
FARMER BREAST CANCER APOCRINE VS LUMINAL	326	213	All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER UP	358	245	All SZGR 2.0 genes in this pathway
MANTOVANI VIRAL GPCR SIGNALING UP	86	54	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN	428	306	All SZGR 2.0 genes in this pathway
KIM GERMINAL CENTER T HELPER UP	66	42	All SZGR 2.0 genes in this pathway
ROSS AML OF FAB M7 TYPE	68	44	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
HADDAD T LYMPHOCYTE AND NK PROGENITOR UP	78	56	All SZGR 2.0 genes in this pathway
YAGI AML FAB MARKERS	191	131	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C8	72	56	All SZGR 2.0 genes in this pathway
MCCLUNG DELTA FOSB TARGETS 8WK	47	38	All SZGR 2.0 genes in this pathway
KAAB FAILED HEART ATRIUM DN	141	99	All SZGR 2.0 genes in this pathway
MAHAJAN RESPONSE TO IL1A DN	76	57	All SZGR 2.0 genes in this pathway
GAJATE RESPONSE TO TRABECTEDIN UP	67	45	All SZGR 2.0 genes in this pathway
WELCSH BRCA1 TARGETS UP	198	132	All SZGR 2.0 genes in this pathway
KAYO CALORIE RESTRICTION MUSCLE UP	95	64	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 2	473	224	All SZGR 2.0 genes in this pathway
IZADPANAH STEM CELL ADIPOSE VS BONE DN	108	68	All SZGR 2.0 genes in this pathway
ZEMBUTSU SENSITIVITY TO VINCRISTINE	19	10	All SZGR 2.0 genes in this pathway
HIRSCH CELLULAR TRANSFORMATION SIGNATURE DN	103	67	All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS SENESCENT	572	352	All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 DN	918	550	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE	1137	655	All SZGR 2.0 genes in this pathway
PASINI SUZ12 TARGETS DN	315	215	All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS UP	116	87	All SZGR 2.0 genes in this pathway
KRIEG HYPOXIA NOT VIA KDM3A	770	480	All SZGR 2.0 genes in this pathway
SMIRNOV RESPONSE TO IR 6HR UP	166	97	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-124.1	1127	1133	m8	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	1126	1133	1A,m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	1126	1133	1A,m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-141/200a	1059	1066	1A,m8	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
				hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
				hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
				hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
miR-181	999	1005	m8	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-194	1062	1068	1A	hsa-miR-194	UGUAACAGCAACUCCAUGUGGA
miR-30-5p	1524	1530	m8	hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
miR-320	1334	1340	1A	hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
miR-330	900	907	1A,m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-409-3p	1250	1256	1A	hsa-miR-409-3p	CGAAUGUUGCUCGGUGAACCCCU
miR-543	1000	1006	m8	hsa-miR-543	AAACAUUCGCGGUGCACUUCU

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: MYH10