Gene Report

Basic information

Related studies

Functional annotation

Related other genetic factors

Overlap with SZ and MDD

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Basic Info

Approved Symbol	CDH13
Symbol Alias	CDHH
Approved Name	cadherin 13
Name Alias	T-cadherin, "H-cadherin (heart)"
Location	16q23.3
Position	chr16:82626803-83800640, 1
External Links	HGNC: 1753 Entrez Gene: 1012 Ensembl: ENSG00000140945 UCSC: uc010vns.2
No. of Studies	3 (Positive: 2; Negative: 1; trend: 0)
Overlap with SZ?	NO
Overlap with MDD?	NO

Gene related studies (count: 3)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Xu, W., 2014	SNP: rs11640984, rs11644289, rs11649622, rs12448273, rs4782731, rs6565063, rs7186123, rs7201194	The SNP within or near this gene did not achieve genome-wide significance.	Negative	Comment on Study
Johnson, C.,2009		Monte-Carlo Simulation P-value = 0.0017. One of Genes That Harbor Overlapping Clusters of 4 Nominally Positive SNPs Whose Allele Frequencies Distinguish Individuals With Bipolar Disorder From Controls With P<0.05 Nominal Significance From at Least Three of the Four Samples in This Analysis	Positive	Comment on Study
Cho, C. H., 2015		CDH13 is located in 16q24.2 and encodes a member of the cadherin superfamily. The encoded protein acts as a negative regulator of axon growth during neural differentiation.	Positive	Comment on Study

Gene functional annotation

Gene related GO terms (count: 39)

GO terms by PBA (count: 3)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0005509	calcium ion binding	molecular function	IEA	50
GO:0045296	cadherin binding	molecular function	IDA[10601632]	7
GO:0005886	plasma membrane	cellular component	IDA[10737605]; TAS	360

GO terms by database search (count: 36)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0002040	sprouting angiogenesis	biological process	IDA[16873731]	3
GO:0030100	regulation of endocytosis	biological process	IMP[17573778]	1
GO:0034332	adherens junction organization	biological process	TAS	6
GO:0001938	positive regulation of endothelial cell proliferation	biological process	IMP[15364621]	11
GO:0030032	lamellipodium assembly	biological process	IDA[15703273]	6
GO:0043542	endothelial cell migration	biological process	IDA[14729458]	3
GO:0001954	positive regulation of cell-matrix adhesion	biological process	IMP[17573778]	4
GO:0031225	anchored component of membrane	cellular component	IEA	11
GO:0016339	calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	biological process	IDA[10601632]	2
GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules	biological process	IDA[10601632]	7
GO:0043005	neuron projection	cellular component	IDA[10737605]	38
GO:0005925	focal adhesion	cellular component	IDA[21423176]	32
GO:0042058	regulation of epidermal growth factor receptor signaling pathway	biological process	IMP[17573778]	1
GO:0034329	cell junction assembly	biological process	TAS	8
GO:0055096	low-density lipoprotein particle mediated signaling	biological process	IDA[16013438]	2
GO:0005615	extracellular space	cellular component	IDA[16873731]	85
GO:0030335	positive regulation of cell migration	biological process	IDA[14729458]	16
GO:0048661	positive regulation of smooth muscle cell proliferation	biological process	IMP[15364621]	11
GO:0030169	low-density lipoprotein particle binding	molecular function	IDA[16013438]	2
GO:0050927	positive regulation of positive chemotaxis	biological process	IDA[16013438]	2
GO:0016601	Rac protein signal transduction	biological process	IMP[15703273]	1
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	biological process	IMP[16099944]	91
GO:0005901	caveola	cellular component	IDA[9650591]	11
GO:0042803	protein homodimerization activity	molecular function	IEA	71
GO:0051668	localization within membrane	biological process	IMP[17573778]	2
GO:0043616	keratinocyte proliferation	biological process	IDA[15816843]	4
GO:0005737	cytoplasm	cellular component	IDA[10737605]	322
GO:0071813	lipoprotein particle binding	molecular function	IDA[11027617]	3
GO:0007162	negative regulation of cell adhesion	biological process	IDA[14729458]	5
GO:0055100	adiponectin binding	molecular function	ISS	1
GO:0009897	external side of plasma membrane	cellular component	IEA	21
GO:0045216	cell-cell junction organization	biological process	TAS	8
GO:0008285	negative regulation of cell proliferation	biological process	IDA[10737605]	41
GO:0070062	extracellular vesicular exosome	cellular component	IDA[23376485]	176
GO:0007266	Rho protein signal transduction	biological process	IMP[15703273]	4
GO:0050850	positive regulation of calcium-mediated signaling	biological process	IDA[16013438]	2

Gene related KEGG pathways (count: 0)

Gene related BioCarta pathways (count: 0)

Gene related interactors from protein-protein interactions data in HPRD (count: 1)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
CDH13	ADIPOQ	NO	in vivo	15210937

Related other genetic factors

Gene related SNPs (count: 29)

Literature-origin SNPs (count: 8)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs6565063	chr16:82734963 - 82734963(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1(0/1/0)
rs12448273	chr16:83548460 - 83548460(1)	intron_variant; NMD_transcript_variant	1(0/1/0)
rs11644289	chr16:83548986 - 83548986(1)	intron_variant; NMD_transcript_variant	1(0/1/0)
rs4782731	chr16:82795916 - 82795916(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1(0/1/0)
rs7201194	chr16:83566792 - 83566792(1)	intron_variant; NMD_transcript_variant	1(0/1/0)
rs11640984	chr16:83538287 - 83538287(1)	intron_variant; NMD_transcript_variant	1(0/1/0)
rs7186123	chr16:82788147 - 82788147(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1(0/1/0)
rs11649622	chr16:83571660 - 83571660(1)	intron_variant; NMD_transcript_variant	1(0/1/0)

LD-proxies (count: 21)

rs_ID	Location	Functional Annotation
rs4280224	chr16:83576382 - 83576382(1)	intron_variant; NMD_transcript_variant
rs16958414	chr16:82738566 - 82738566(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs12716952	chr16:82723914 - 82723914(1)	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant
rs4078496	chr16:83562804 - 83562804(1)	intron_variant; NMD_transcript_variant
rs11645264	chr16:83568679 - 83568679(1)	intron_variant; NMD_transcript_variant
rs1381509	chr16:82718430 - 82718430(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs1381510	chr16:82718259 - 82718259(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs6563935	chr16:83566560 - 83566560(1)	intron_variant; NMD_transcript_variant
rs11149578	chr16:83549139 - 83549139(1)	intron_variant; NMD_transcript_variant
rs11640052	chr16:83546163 - 83546163(1)	intron_variant; NMD_transcript_variant
rs4238692	chr16:83558828 - 83558828(1)	intron_variant; NMD_transcript_variant
rs12918411	chr16:83552577 - 83552577(1)	intron_variant; NMD_transcript_variant
rs4783280	chr16:82796183 - 82796183(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs11645931	chr16:83564221 - 83564221(1)	intron_variant; NMD_transcript_variant
rs9923361	chr16:82797216 - 82797216(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs4496127	chr16:83523711 - 83523711(1)	intron_variant; NMD_transcript_variant
rs4782544	chr16:83536825 - 83536825(1)	intron_variant; NMD_transcript_variant
rs4380043	chr16:83524024 - 83524024(1)	intron_variant; NMD_transcript_variant
rs7185386	chr16:82788067 - 82788067(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs9989405	chr16:82790609 - 82790609(1)	intron_variant; NMD_transcript_variant; non_coding_transcript_variant
rs8050595	chr16:83569172 - 83569172(1)	intron_variant; NMD_transcript_variant

Gene related CNVs (count: 1)

ID	Location	Size	Band	Type	Inheritance
CNV_Zhang[2009]_269	chr16:81109185-81240041 (Affymetrix SNP 6.0 array reference genome)	130856		Singleton deletions

Gene related other variants (count: 0)

Gene related regions (count: 2)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
Chr 16	chr16:0-90338345	5 (1/3/1)
16q23.3	chr16:81600000-84100000	1 (0/0/1)

Overlap with schizophrenia (SZ) and major depressive disorder (MDD)

Gene relationship with SZ

Gene relationship with MDD

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Region: chr16:82626803..83800640 View in gBrowse