SZGR2

Summary ?

GeneID	23705
Symbol	CADM1
Synonyms	BL2\|IGSF4\|IGSF4A\|NECL2\|Necl-2\|RA175\|ST17\|SYNCAM\|TSLC1\|sTSLC-1\|sgIGSF\|synCAM1
Description	cell adhesion molecule 1
Reference	MIM:605686\|HGNC:HGNC:5951\|Ensembl:ENSG00000182985\|HPRD:05746\|Vega:OTTHUMG00000168202
Gene type	protein-coding
Map location	11q23.2
Pascal p-value	0.017
Sherlock p-value	0.835
Fetal beta	0.531
DMG	1 (# studies)
eGene	Myers' cis & trans Meta
Support	CELL ADHESION AND TRANSSYNAPTIC SIGNALING

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
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: 0.006
Expression	Meta-analysis of gene expression	P value: 1.893
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: 2
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.004

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg23202979	11	115373757	CADM1	1.66E-9	-0.015	1.48E-6	DMG:Jaffe_2016

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs2427665	chr11	114956088	CADM1	23705	0.19	cis
rs2507909	chr11	115010866	CADM1	23705	0.01	cis
rs7125361	chr11	115080041	CADM1	23705	3.845E-5	cis
rs11601041	chr11	115083347	CADM1	23705	0.06	cis
rs12274772	chr11	115098767	CADM1	23705	0.05	cis
rs16829545	chr2	151977407	CADM1	23705	0	trans
rs7125361	chr11	115080041	CADM1	23705	0	trans
rs16955618	chr15	29937543	CADM1	23705	0.01	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.

No co-expressed genes in brain regions

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005102	receptor binding	IPI	Neurotransmitter (GO term level: 4)	15811952
GO:0005102	receptor binding	ISS	Neurotransmitter (GO term level: 4)	12826663
GO:0030165	PDZ domain binding	ISS		12826663
GO:0008022	protein C-terminus binding	ISS		12826663
GO:0042803	protein homodimerization activity	ISS		12826663
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0001913	T cell mediated cytotoxicity	IDA		15811952
GO:0007155	cell adhesion	IEA		-
GO:0007156	homophilic cell adhesion	ISS		12826663
GO:0007157	heterophilic cell adhesion	ISS		12826663
GO:0007283	spermatogenesis	IEA		-
GO:0008037	cell recognition	IDA		15811952
GO:0008037	cell recognition	ISS		12826663
GO:0006955	immune response	IEA		-
GO:0006915	apoptosis	IEA		-
GO:0007275	multicellular organismal development	IEA		-
GO:0042271	susceptibility to natural killer cell mediated cytotoxicity	IDA		15811952
GO:0042271	susceptibility to natural killer cell mediated cytotoxicity	ISS		12826663
GO:0030154	cell differentiation	IEA		-
GO:0051606	detection of stimulus	IDA		15811952
GO:0051606	detection of stimulus	ISS		12826663
GO:0050715	positive regulation of cytokine secretion	IDA		15811952
GO:0045786	negative regulation of cell cycle	IEA		-
GO:0050798	activated T cell proliferation	IDA		15811952
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0016021	integral to membrane	IEA		-
GO:0005911	cell-cell junction	ISS		12826663
GO:0005886	plasma membrane	IDA		15811952
GO:0016323	basolateral plasma membrane	ISS		12826663

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG CELL ADHESION MOLECULES CAMS	134	93	All SZGR 2.0 genes in this pathway
REACTOME CELL CELL COMMUNICATION	120	77	All SZGR 2.0 genes in this pathway
REACTOME ADHERENS JUNCTIONS INTERACTIONS	27	20	All SZGR 2.0 genes in this pathway
REACTOME CELL CELL JUNCTION ORGANIZATION	56	31	All SZGR 2.0 genes in this pathway
REACTOME CELL JUNCTION ORGANIZATION	78	43	All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER UP	96	57	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP	783	507	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
DAVICIONI TARGETS OF PAX FOXO1 FUSIONS UP	255	177	All SZGR 2.0 genes in this pathway
TURASHVILI BREAST DUCTAL CARCINOMA VS LOBULAR NORMAL DN	69	43	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL UP	380	215	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 10D UP	194	122	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 2HR DN	88	53	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 6HR DN	167	100	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP	557	331	All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA UP	171	112	All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA BY DMOG UP	130	85	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN	508	354	All SZGR 2.0 genes in this pathway
MARKEY RB1 CHRONIC LOF DN	118	78	All SZGR 2.0 genes in this pathway
VANHARANTA UTERINE FIBROID WITH 7Q DELETION DN	36	23	All SZGR 2.0 genes in this pathway
CONCANNON APOPTOSIS BY EPOXOMICIN DN	172	112	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 DN	800	473	All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS	1174	695	All SZGR 2.0 genes in this pathway
NAISHIRO CTNNB1 TARGETS WITH LEF1 MOTIF	8	7	All SZGR 2.0 genes in this pathway
WEINMANN ADAPTATION TO HYPOXIA UP	29	24	All SZGR 2.0 genes in this pathway
WEINMANN ADAPTATION TO HYPOXIA DN	41	33	All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS DN	193	112	All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS DN	637	377	All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS UP	344	180	All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES	648	385	All SZGR 2.0 genes in this pathway
SHIN B CELL LYMPHOMA CLUSTER 3	28	23	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN	464	276	All SZGR 2.0 genes in this pathway
IIZUKA LIVER CANCER PROGRESSION L1 G1 DN	12	6	All SZGR 2.0 genes in this pathway
LE EGR2 TARGETS UP	108	75	All SZGR 2.0 genes in this pathway
SWEET KRAS TARGETS UP	84	51	All SZGR 2.0 genes in this pathway
SASAKI ADULT T CELL LEUKEMIA	176	122	All SZGR 2.0 genes in this pathway
PENG RAPAMYCIN RESPONSE UP	203	130	All SZGR 2.0 genes in this pathway
MATSUDA NATURAL KILLER DIFFERENTIATION	475	313	All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 1 DN	163	115	All SZGR 2.0 genes in this pathway
NGUYEN NOTCH1 TARGETS DN	86	67	All SZGR 2.0 genes in this pathway
NOUZOVA METHYLATED IN APL	68	39	All SZGR 2.0 genes in this pathway
IGLESIAS E2F TARGETS UP	151	103	All SZGR 2.0 genes in this pathway
MCCLUNG CREB1 TARGETS DN	57	39	All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS UP	37	27	All SZGR 2.0 genes in this pathway
ULE SPLICING VIA NOVA2	43	38	All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 UP	428	266	All SZGR 2.0 genes in this pathway
WANG SMARCE1 TARGETS UP	280	183	All SZGR 2.0 genes in this pathway
DURCHDEWALD SKIN CARCINOGENESIS DN	264	168	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1	528	324	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 4	307	185	All SZGR 2.0 genes in this pathway
KONDO PROSTATE CANCER HCP WITH H3K27ME3	97	72	All SZGR 2.0 genes in this pathway
STEARMAN LUNG CANCER EARLY VS LATE UP	125	89	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS DN	292	189	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION DN	281	179	All SZGR 2.0 genes in this pathway
COATES MACROPHAGE M1 VS M2 UP	81	52	All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE DN	258	160	All SZGR 2.0 genes in this pathway
ACEVEDO NORMAL TISSUE ADJACENT TO LIVER TUMOR DN	354	216	All SZGR 2.0 genes in this pathway
HOQUE METHYLATED IN CANCER	56	45	All SZGR 2.0 genes in this pathway
MATZUK SPERMATID DIFFERENTIATION	37	26	All SZGR 2.0 genes in this pathway
MATZUK SPERMATOZOA	114	77	All SZGR 2.0 genes in this pathway
HELLEBREKERS SILENCED DURING TUMOR ANGIOGENESIS	80	56	All SZGR 2.0 genes in this pathway
HUNSBERGER EXERCISE REGULATED GENES	31	26	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
SCHRAETS MLL TARGETS UP	35	21	All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN	435	289	All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK	1210	725	All SZGR 2.0 genes in this pathway
MCMURRAY TP53 HRAS COOPERATION RESPONSE UP	26	19	All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 16	26	17	All SZGR 2.0 genes in this pathway
VALK AML WITH 11Q23 REARRANGED	22	13	All SZGR 2.0 genes in this pathway
YAGI AML WITH 11Q23 REARRANGED	351	238	All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE	721	492	All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE G2 M	216	124	All SZGR 2.0 genes in this pathway
STAMBOLSKY RESPONSE TO VITAMIN D3 UP	84	48	All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT	567	365	All SZGR 2.0 genes in this pathway
ISSAEVA MLL2 TARGETS	62	35	All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN	1080	713	All SZGR 2.0 genes in this pathway
KRIEG HYPOXIA NOT VIA KDM3A	770	480	All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS UP	221	120	All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE NOT VIA P38	337	236	All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP	489	314	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-10	720	726	m8	hsa-miR-10a	UACCCUGUAGAUCCGAAUUUGUG
miR-10	720	726	m8	hsa-miR-10b	UACCCUGUAGAACCGAAUUUGU
miR-101	714	720	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-101	714	720	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-124.1	1415	1421	1A	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	293	299	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	293	299	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-128	673	679	1A	hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
miR-128	673	679	1A	hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
miR-138	521	527	1A	hsa-miR-138^brain	AGCUGGUGUUGUGAAUC
miR-144	714	720	1A	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-144	714	720	1A	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-15/16/195/424/497	622	628	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-190	1498	1504	m8	hsa-miR-190	UGAUAUGUUUGAUAUAUUAGGU
miR-194	1790	1796	1A	hsa-miR-194	UGUAACAGCAACUCCAUGUGGA
miR-214	409	415	m8	hsa-miR-214^brain	ACAGCAGGCACAGACAGGCAG
miR-216	752	758	m8	hsa-miR-216	UAAUCUCAGCUGGCAACUGUG
miR-23	1358	1364	m8	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
miR-23	1358	1364	m8	hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-27	673	679	m8	hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
miR-27	673	679	m8	hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
miR-323	1358	1364	1A	hsa-miR-323^brain	GCACAUUACACGGUCGACCUCU
miR-329	740	746	m8	hsa-miR-329^brain	AACACACCUGGUUAACCUCUUU
miR-486	718	724	m8	hsa-miR-486	UCCUGUACUGAGCUGCCCCGAG
miR-495	307	313	m8	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-495	307	313	m8	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-544	280	287	1A,m8	hsa-miR-544	AUUCUGCAUUUUUAGCAAGU
miR-93.hd/291-3p/294/295/302/372/373/520	1998	2004	1A	hsa-miR-93^brain	AAAGUGCUGUUCGUGCAGGUAG
				hsa-miR-302a	UAAGUGCUUCCAUGUUUUGGUGA
				hsa-miR-302b	UAAGUGCUUCCAUGUUUUAGUAG
				hsa-miR-302c	UAAGUGCUUCCAUGUUUCAGUGG
				hsa-miR-302d	UAAGUGCUUCCAUGUUUGAGUGU
				hsa-miR-372	AAAGUGCUGCGACAUUUGAGCGU
				hsa-miR-373	GAAGUGCUUCGAUUUUGGGGUGU
				hsa-miR-520e	AAAGUGCUUCCUUUUUGAGGG
				hsa-miR-520a	AAAGUGCUUCCCUUUGGACUGU
				hsa-miR-520b	AAAGUGCUUCCUUUUAGAGGG
				hsa-miR-520c	AAAGUGCUUCCUUUUAGAGGGUU
				hsa-miR-520d	AAAGUGCUUCUCUUUGGUGGGUU

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: CADM1