SZGR2

Summary ?

GeneID	780
Symbol	DDR1
Synonyms	CAK\|CD167\|DDR\|EDDR1\|HGK2\|MCK10\|NEP\|NTRK4\|PTK3\|PTK3A\|RTK6\|TRKE
Description	discoidin domain receptor tyrosine kinase 1
Reference	MIM:600408\|HGNC:HGNC:2730\|Ensembl:ENSG00000204580\|HPRD:02678\|Vega:OTTHUMG00000031236
Gene type	protein-coding
Map location	6p21.3
Pascal p-value	1.847E-13
Sherlock p-value	0.166
Fetal beta	0.826
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:Montano_2016	Genome-wide DNA methylation analysis	This dataset includes 172 replicated associations between CpGs with schizophrenia.	4
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Association	A combined odds ratio method (Sun et al. 2008), association studies	1	Link to SZGene
GSMA_I	Genome scan meta-analysis	Psr: 0.033
Expression	Meta-analysis of gene expression	P value: 2.35
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 1
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0973

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg16111190	6	30860887	DDR1	3.78E-5	0.011	0.084	DMG:Montano_2016
cg19148201	6	30860237	DDR1	5.09E-5	0.011	0.098	DMG:Montano_2016
cg17879299	6	30860300	DDR1	9.97E-5	0.015	0.12	DMG:Montano_2016
cg07979747	6	30860136	DDR1	2.31E-4	0.007	0.164	DMG:Montano_2016

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs6879593	chr5	75253310	DDR1	780	0.19	trans
rs10126993	chrX	35885796	DDR1	780	0.08	trans
rs4501739	chrX	35960848	DDR1	780	0	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
AGAP3	0.90	0.89
GSK3A	0.89	0.89
TBC1D25	0.89	0.89
STK25	0.88	0.86
NUMBL	0.88	0.89
FAM160A2	0.88	0.88
DTX3	0.87	0.87
EPN1	0.87	0.86
ZMIZ2	0.87	0.90
BRSK2	0.86	0.86

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MT-CO2	-0.78	-0.72
AF347015.8	-0.76	-0.72
AF347015.31	-0.76	-0.71
AF347015.21	-0.76	-0.76
MT-CYB	-0.75	-0.70
AF347015.33	-0.75	-0.70
AF347015.26	-0.75	-0.69
AF347015.27	-0.74	-0.73
AF347015.15	-0.72	-0.69
AL139819.3	-0.72	-0.73

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0004714	transmembrane receptor protein tyrosine kinase activity	TAS	neurite (GO term level: 8)	9659899
GO:0000166	nucleotide binding	IEA		-
GO:0004872	receptor activity	IEA		-
GO:0005515	protein binding	IPI		17721511
GO:0005524	ATP binding	IEA		-
GO:0004713	protein tyrosine kinase activity	IEA		-
GO:0016740	transferase activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	IEA		-
GO:0007155	cell adhesion	TAS		8302582
GO:0006468	protein amino acid phosphorylation	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0016020	membrane	IEA		-
GO:0005887	integral to plasma membrane	TAS		8390675

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
COL11A1	CO11A1 \| COLL6 \| STL2	collagen, type XI, alpha 1	-	HPRD	9659900
COL2A1	ANFH \| AOM \| COL11A3 \| MGC131516 \| SEDC	collagen, type II, alpha 1	-	HPRD	9659900
COL3A1	EDS4A \| FLJ34534	collagen, type III, alpha 1	-	HPRD	9659900
COL5A2	MGC105115	collagen, type V, alpha 2	-	HPRD	9659900
DDR1	CAK \| CD167 \| DDR \| EDDR1 \| MCK10 \| NEP \| NTRK4 \| PTK3 \| PTK3A \| RTK6 \| TRKE	discoidin domain receptor tyrosine kinase 1	The DDR1 receptor tyrosine kinase autophosphorylates	BIND	9659899
FRS2	FRS2A \| FRS2alpha \| SNT \| SNT-1 \| SNT1	fibroblast growth factor receptor substrate 2	-	HPRD	10783152
PLCG1	PLC-II \| PLC1 \| PLC148 \| PLCgamma1	phospholipase C, gamma 1	-	HPRD	10783152
RGS2	G0S8	regulator of G-protein signaling 2, 24kDa	Two-hybrid	BioGRID	16169070
SHC1	FLJ26504 \| SHC \| SHCA	SHC (Src homology 2 domain containing) transforming protein 1	-	HPRD	10783152
SHC1	FLJ26504 \| SHC \| SHCA	SHC (Src homology 2 domain containing) transforming protein 1	DDR1 interacts with Shc.	BIND	9659899 \|10681566
SNAPIN	SNAPAP	SNAP-associated protein	Two-hybrid	BioGRID	16169070
SNRNP40	40K \| FLJ41108 \| HPRP8BP \| MGC1910 \| PRP8BP \| PRPF8BP \| RP11-490K7.3 \| SPF38 \| WDR57	small nuclear ribonucleoprotein 40kDa (U5)	Two-hybrid	BioGRID	16169070
TM4SF1	H-L6 \| L6 \| M3S1 \| TAAL6	transmembrane 4 L six family member 1	Two-hybrid	BioGRID	16169070
TTR	HsT2651 \| PALB \| TBPA	transthyretin	Two-hybrid	BioGRID	16169070

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
WATANABE RECTAL CANCER RADIOTHERAPY RESPONSIVE UP	108	67	All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP	332	228	All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP	368	234	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL UP	450	256	All SZGR 2.0 genes in this pathway
BOGNI TREATMENT RELATED MYELOID LEUKEMIA DN	33	19	All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION HSC UP	185	126	All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION MONOCYTE UP	204	140	All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION ERYTHROCYTE UP	157	104	All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION SUSTAINDED IN ERYTHROCYTE UP	44	30	All SZGR 2.0 genes in this pathway
UDAYAKUMAR MED1 TARGETS DN	240	171	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 12HR UP	162	116	All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA UP	171	112	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN	805	505	All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE DN	230	115	All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS CDC25 DN	51	35	All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS DN	142	95	All SZGR 2.0 genes in this pathway
CREIGHTON AKT1 SIGNALING VIA MTOR UP	34	22	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP	1142	669	All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP	612	367	All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 4 5WK UP	271	175	All SZGR 2.0 genes in this pathway
LUI THYROID CANCER PAX8 PPARG UP	44	29	All SZGR 2.0 genes in this pathway
PATTERSON DOCETAXEL RESISTANCE	29	20	All SZGR 2.0 genes in this pathway
BORLAK LIVER CANCER EGF UP	57	41	All SZGR 2.0 genes in this pathway
SASAI RESISTANCE TO NEOPLASTIC TRANSFROMATION	50	31	All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM2	153	102	All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM3	70	37	All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS DN	848	527	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN	464	276	All SZGR 2.0 genes in this pathway
SANA TNF SIGNALING DN	90	57	All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST UP	398	262	All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS	882	572	All SZGR 2.0 genes in this pathway
MAGRANGEAS MULTIPLE MYELOMA IGLL VS IGLK UP	42	24	All SZGR 2.0 genes in this pathway
LEI MYB TARGETS	318	215	All SZGR 2.0 genes in this pathway
HADDAD B LYMPHOCYTE PROGENITOR	293	193	All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI UP	412	249	All SZGR 2.0 genes in this pathway
MOREAUX B LYMPHOCYTE MATURATION BY TACI UP	92	58	All SZGR 2.0 genes in this pathway
KUMAR TARGETS OF MLL AF9 FUSION	405	264	All SZGR 2.0 genes in this pathway
KAYO CALORIE RESTRICTION MUSCLE DN	87	59	All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE UP	249	170	All SZGR 2.0 genes in this pathway
HU GENOTOXIC DAMAGE 24HR	35	22	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
VERRECCHIA RESPONSE TO TGFB1 C5	21	11	All SZGR 2.0 genes in this pathway
LU AGING BRAIN UP	262	186	All SZGR 2.0 genes in this pathway
DELLA RESPONSE TO TSA AND BUTYRATE	21	17	All SZGR 2.0 genes in this pathway
VERRECCHIA DELAYED RESPONSE TO TGFB1	39	26	All SZGR 2.0 genes in this pathway
SAFFORD T LYMPHOCYTE ANERGY	87	54	All SZGR 2.0 genes in this pathway
LEE METASTASIS AND ALTERNATIVE SPLICING UP	74	51	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS UP	673	430	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN	543	317	All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP	602	364	All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN	593	372	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP	601	369	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS DN	591	366	All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE UP	578	341	All SZGR 2.0 genes in this pathway
OUILLETTE CLL 13Q14 DELETION DN	60	38	All SZGR 2.0 genes in this pathway
ZHANG BREAST CANCER PROGENITORS UP	425	253	All SZGR 2.0 genes in this pathway
VILIMAS NOTCH1 TARGETS UP	52	41	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN	457	302	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN	668	419	All SZGR 2.0 genes in this pathway
DING LUNG CANCER BY MUTATION RATE	20	18	All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G1 UP	113	70	All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS PROLIFERATION UP	178	108	All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE UP	109	68	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SURVIVAL UP	73	49	All SZGR 2.0 genes in this pathway
YAMASHITA LIVER CANCER STEM CELL UP	47	38	All SZGR 2.0 genes in this pathway
WOO LIVER CANCER RECURRENCE UP	105	75	All SZGR 2.0 genes in this pathway
YAMANAKA GLIOBLASTOMA SURVIVAL DN	9	7	All SZGR 2.0 genes in this pathway
YAGI AML WITH T 8 21 TRANSLOCATION	368	247	All SZGR 2.0 genes in this pathway
MIKKELSEN MEF LCP WITH H3K4ME3	128	68	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SUBCLASS S1	237	159	All SZGR 2.0 genes in this pathway
MIKKELSEN ES LCP WITH H3K4ME3	142	80	All SZGR 2.0 genes in this pathway
MIKKELSEN NPC LCP WITH H3K4ME3	58	34	All SZGR 2.0 genes in this pathway
OHGUCHI LIVER HNF4A TARGETS UP	44	30	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP A	898	516	All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP	745	475	All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN	1080	713	All SZGR 2.0 genes in this pathway
PECE MAMMARY STEM CELL UP	146	75	All SZGR 2.0 genes in this pathway
SMIRNOV RESPONSE TO IR 6HR UP	166	97	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-199	416	423	1A,m8	hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
				hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
				hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
				hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
				hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
				hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC

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: DDR1