SZGR2

Summary ?

GeneID	828
Symbol	CAPS
Synonyms	CAPS1
Description	calcyphosine
Reference	MIM:114212\|HGNC:HGNC:1487\|Ensembl:ENSG00000105519\|HPRD:00250\|Vega:OTTHUMG00000180619
Gene type	protein-coding
Map location	19p13.3
Pascal p-value	0.579
Sherlock p-value	0.921
Fetal beta	-0.273
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: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).	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.
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,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
cg07535740	19	5915494	CAPS	1.98E-4	-0.257	0.035	DMG:Wockner_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs17360973	chr1	25197276	CAPS	828	0.14	trans
rs12122035	chr1	50726051	CAPS	828	6.21E-5	trans
rs17109968	chr1	54633542	CAPS	828	0	trans
rs3754260	chr1	57552238	CAPS	828	0.05	trans
rs7541477	chr1	68764659	CAPS	828	3.617E-4	trans
rs10159115	chr1	68789890	CAPS	828	0.02	trans
rs7511937		0	CAPS	828	0.03	trans
rs2782784	chr1	71195282	CAPS	828	0.12	trans
rs17541646	chr1	71373644	CAPS	828	0.07	trans
rs6703905	chr1	89656748	CAPS	828	0.08	trans
rs6659821	chr1	110339827	CAPS	828	0.03	trans
snp_a-1965574		0	CAPS	828	0.16	trans
rs10797912	chr1	183785173	CAPS	828	0.01	trans
rs2491444	chr1	183785595	CAPS	828	0.01	trans
rs17049050	chr1	219294926	CAPS	828	0.01	trans
rs12617409	chr2	1649924	CAPS	828	0.18	trans
snp_a-1953711		0	CAPS	828	0.17	trans
rs6713473	chr2	11284414	CAPS	828	0.12	trans
rs908276	chr2	11285692	CAPS	828	0.19	trans
rs11903207	chr2	11286089	CAPS	828	0.19	trans
rs2543668	chr2	24447490	CAPS	828	0.2	trans
rs2551132	chr2	24566587	CAPS	828	0.17	trans
rs11692361	chr2	66723698	CAPS	828	0.11	trans
rs7561516	chr2	101059209	CAPS	828	0.01	trans
rs17024415	chr2	101108828	CAPS	828	0.01	trans
rs17024434	chr2	101112463	CAPS	828	0.01	trans
rs12614705	chr2	101122720	CAPS	828	0.01	trans
rs17024473	chr2	101139101	CAPS	828	0.01	trans
rs13412567	chr2	110457213	CAPS	828	0.05	trans
rs10186260	chr2	129538777	CAPS	828	0.01	trans
rs2683815	chr2	142078002	CAPS	828	6.015E-4	trans
rs6413977		0	CAPS	828	3.629E-5	trans
rs4346320	chr2	142150284	CAPS	828	3.629E-5	trans
rs7565413	chr2	142151284	CAPS	828	3.629E-5	trans
rs10497012	chr2	148319726	CAPS	828	0.04	trans
rs16827839	chr2	150987417	CAPS	828	1.157E-6	trans
rs11679772	chr2	158292302	CAPS	828	0.02	trans
rs16843564	chr2	159877285	CAPS	828	0.01	trans
rs264663	chr2	159910205	CAPS	828	0.01	trans
rs12476502	chr2	172086674	CAPS	828	0	trans
rs2674600	chr2	182917339	CAPS	828	0.17	trans
rs3731885	chr2	220084468	CAPS	828	0.09	trans
rs6723299	chr2	220125203	CAPS	828	0.09	trans
rs10203144	chr2	238024758	CAPS	828	0.05	trans
rs1814902	chr3	43251753	CAPS	828	0.04	trans
rs9681394	chr3	43256230	CAPS	828	5.042E-4	trans
rs4683367	chr3	43257826	CAPS	828	0.04	trans
rs7621511	chr3	43279877	CAPS	828	0.04	trans
rs4682682	chr3	43387222	CAPS	828	0.05	trans
rs17075597	chr3	43396220	CAPS	828	0.05	trans
rs17053128	chr3	53553459	CAPS	828	2.203E-4	trans
rs6795912	chr3	66700815	CAPS	828	3.516E-4	trans
rs4327353	chr3	71403693	CAPS	828	0.13	trans
rs16861358	chr3	113542315	CAPS	828	0.06	trans
rs6766110	chr3	156043032	CAPS	828	0.01	trans
rs9824778	chr3	156071119	CAPS	828	0.01	trans
rs16826030	chr3	156082850	CAPS	828	0.01	trans
rs7619608	chr3	172541129	CAPS	828	0.12	trans
rs16898145	chr4	19243840	CAPS	828	0.05	trans
rs2215848	chr4	25065220	CAPS	828	0	trans
rs1865660	chr4	30309146	CAPS	828	0.12	trans
rs1981925	chr4	34348578	CAPS	828	3.853E-9	trans
rs1542988	chr4	41009491	CAPS	828	0.07	trans
rs1542990	chr4	41009745	CAPS	828	0.01	trans
rs6832671	chr4	41010022	CAPS	828	0.07	trans
rs16851670	chr4	41017226	CAPS	828	0.07	trans
rs7683150	chr4	41028441	CAPS	828	0.07	trans
rs16852734	chr4	41030109	CAPS	828	0.07	trans
rs10006892	chr4	66308480	CAPS	828	0.18	trans
rs2291715	chr4	75485871	CAPS	828	0.01	trans
rs17017726	chr4	91768656	CAPS	828	0.03	trans
rs6836195	chr4	120756689	CAPS	828	0.01	trans
rs2647125	chr4	125949981	CAPS	828	0.01	trans
rs17252095	chr5	35466080	CAPS	828	0.01	trans
rs764912	chr5	35476733	CAPS	828	0.05	trans
rs2102438	chr5	35507735	CAPS	828	0.02	trans
rs435331	chr5	35541773	CAPS	828	0.17	trans
rs2468527	chr5	36515582	CAPS	828	0.05	trans
rs6862696	chr5	66724676	CAPS	828	0.02	trans
rs2950032	chr5	89438994	CAPS	828	0.04	trans
rs6898716	chr5	89439104	CAPS	828	0.14	trans
rs16868422	chr5	89573849	CAPS	828	1.381E-4	trans
rs10515239	chr5	95852768	CAPS	828	0.17	trans
rs10054076	chr5	96701778	CAPS	828	0.03	trans
rs1350578	chr5	116310282	CAPS	828	0.01	trans
rs9327725	chr5	134887432	CAPS	828	0.02	trans
rs1432789	chr5	160172598	CAPS	828	0.04	trans
snp_a-2275210		0	CAPS	828	0.2	trans
rs7740689	chr6	7888065	CAPS	828	0.14	trans
rs16874593	chr6	14040008	CAPS	828	5.548E-5	trans
rs647531	chr6	16776745	CAPS	828	0.02	trans
rs16881502	chr6	18933418	CAPS	828	0.06	trans
rs16889143	chr6	36757182	CAPS	828	0.1	trans
rs12663450	chr6	38135729	CAPS	828	0.01	trans
rs2268637	chr6	39050917	CAPS	828	2.973E-17	trans
rs16896683	chr6	43687846	CAPS	828	1.44E-4	trans
rs2815732	chr6	73151761	CAPS	828	1.199E-5	trans
rs1891395	chr6	73660343	CAPS	828	0.06	trans
rs4839895	chr6	97478137	CAPS	828	0.05	trans
rs9399023	chr6	132731357	CAPS	828	0.15	trans
rs6914861	chr6	138719751	CAPS	828	0.17	trans
rs10253642	chr7	19250373	CAPS	828	0.08	trans
rs12667955	chr7	30878707	CAPS	828	0	trans
rs17160028	chr7	31292738	CAPS	828	0.18	trans
rs10486710	chr7	41315585	CAPS	828	1.198E-4	trans
rs17564776	chr7	54888058	CAPS	828	0.01	trans
rs2287179	chr7	92080394	CAPS	828	0.05	trans
rs17138714	chr7	116114273	CAPS	828	0.03	trans
rs1049334	chr7	116200379	CAPS	828	0.03	trans
rs38847	chr7	116325325	CAPS	828	3.092E-6	trans
rs41796	chr7	116510238	CAPS	828	1.965E-7	trans
rs7791922	chr7	125130234	CAPS	828	0.02	trans
rs2524879	chr7	125222439	CAPS	828	0.06	trans
rs2524880	chr7	125222519	CAPS	828	0.06	trans
rs834063	chr7	137227543	CAPS	828	0.14	trans
rs3823550	chr7	137346101	CAPS	828	0	trans
rs17161272	chr7	139636617	CAPS	828	0.1	trans
snp_a-1911731		0	CAPS	828	0.09	trans
rs10235838	chr7	147798728	CAPS	828	0.15	trans
rs17152930	chr8	11010825	CAPS	828	0	trans
rs17056484	chr8	26848327	CAPS	828	5.298E-4	trans
rs7013952	chr8	26848444	CAPS	828	1.217E-5	trans
rs17056530	chr8	26850758	CAPS	828	4.068E-5	trans
rs17056895	chr8	27064032	CAPS	828	0.11	trans
rs7465259		0	CAPS	828	0.16	trans
rs10104622	chr8	63333773	CAPS	828	0.16	trans
rs2218911	chr8	63371015	CAPS	828	0.16	trans
rs1551199	chr8	63388117	CAPS	828	0.16	trans
rs12544529	chr8	74106553	CAPS	828	0.19	trans
rs3102477	chr8	96746099	CAPS	828	0.01	trans
rs16899930	chr8	125666587	CAPS	828	0.2	trans
rs4909503	chr8	136671520	CAPS	828	0.04	trans
rs16925320	chr9	890523	CAPS	828	0.03	trans
rs16925404	chr9	892999	CAPS	828	0.09	trans
rs1033833	chr9	894408	CAPS	828	0.09	trans
rs16925457	chr9	894713	CAPS	828	0.09	trans
rs10970372	chr9	31470279	CAPS	828	0.14	trans
rs7041035	chr9	31472314	CAPS	828	0.16	trans
rs16917077	chr9	31532211	CAPS	828	0.07	trans
rs817830	chr9	110154420	CAPS	828	0.16	trans
rs16913986	chr9	111968294	CAPS	828	0.12	trans
rs7846857	chr9	118043488	CAPS	828	0.02	trans
rs16909312	chr9	122771462	CAPS	828	0.05	trans
rs2002822	chr9	122776531	CAPS	828	0.01	trans
rs12349092	chr9	124018184	CAPS	828	0.2	trans
rs6478513	chr9	124238226	CAPS	828	0.04	trans
rs17294054	chr10	1719371	CAPS	828	0.05	trans
rs17294061	chr10	1720739	CAPS	828	0.05	trans
rs12570407	chr10	1854772	CAPS	828	0.16	trans
rs636819	chr10	6499605	CAPS	828	0.18	trans
rs10458641	chr10	77406953	CAPS	828	0.11	trans
rs10824325	chr10	77410900	CAPS	828	0.11	trans
rs1864486	chr10	77411623	CAPS	828	0.05	trans
rs17746747	chr10	84571921	CAPS	828	0.01	trans
rs1421049	chr10	113754346	CAPS	828	0.13	trans
rs7920992	chr10	130402940	CAPS	828	0	trans
rs4838740	chr10	135206353	CAPS	828	0.17	trans
rs12421276	chr11	4870498	CAPS	828	0.02	trans
rs1486220	chr11	94650449	CAPS	828	0.06	trans
rs16922394	chr11	95419045	CAPS	828	0.17	trans
rs17836464	chr12	4066927	CAPS	828	0.05	trans
rs11044062	chr12	8371319	CAPS	828	2.694E-4	trans
rs16933408	chr12	29001173	CAPS	828	0.08	trans
rs16933414	chr12	29001961	CAPS	828	0.05	trans
rs16933429	chr12	29003503	CAPS	828	0.18	trans
rs10506043	chr12	29003596	CAPS	828	0.18	trans
rs16933478	chr12	29026033	CAPS	828	0	trans
rs11838106	chr12	29026122	CAPS	828	0.15	trans
rs17174558	chr12	32994828	CAPS	828	0.12	trans
rs10877174	chr12	59236728	CAPS	828	0.01	trans
rs11172758	chr12	59238385	CAPS	828	0.05	trans
rs10877185	chr12	59297985	CAPS	828	6.037E-4	trans
rs11172818	chr12	59298289	CAPS	828	0.01	trans
rs10784924	chr12	71927246	CAPS	828	0.19	trans
rs11106191	chr12	78060911	CAPS	828	0.01	trans
rs10746188	chr12	81718315	CAPS	828	0.08	trans
rs11065588	chr12	121914241	CAPS	828	0.15	trans
rs12815249	chr12	130677246	CAPS	828	0.13	trans
rs1538922	chr13	29185821	CAPS	828	0.17	trans
rs4943304	chr13	36058065	CAPS	828	0.19	trans
rs7320986	chr13	61267175	CAPS	828	0.18	trans
rs7316938	chr13	73991407	CAPS	828	0.02	trans
rs9582434	chr13	101581060	CAPS	828	0.2	trans
rs8003636	chr14	59381327	CAPS	828	0.19	trans
rs85425	chr14	59384952	CAPS	828	0.11	trans
rs1209157	chr14	102082909	CAPS	828	0.15	trans
rs2091236	chr15	31180458	CAPS	828	0.12	trans
rs2701519	chr15	37408650	CAPS	828	0.01	trans
rs2701517	chr15	37411019	CAPS	828	0.16	trans
rs3973348	chr15	39694651	CAPS	828	0.06	trans
rs640875	chr15	40376395	CAPS	828	0.11	trans
rs8026050	chr15	45142418	CAPS	828	0.06	trans
rs16975906	chr15	45144803	CAPS	828	0.06	trans
rs16960698	chr15	48523283	CAPS	828	0.05	trans
rs16976035	chr15	96604839	CAPS	828	0.06	trans
rs1553612	chr16	7605345	CAPS	828	0.01	trans
snp_a-4226262		0	CAPS	828	0.05	trans
rs1406181	chr16	8442603	CAPS	828	0.11	trans
rs12599418	chr16	8443101	CAPS	828	0.11	trans
rs12599961	chr16	8443409	CAPS	828	0.03	trans
rs13338548	chr16	31472602	CAPS	828	0.12	trans
snp_a-2238348		0	CAPS	828	0.02	trans
rs4782606	chr16	84351788	CAPS	828	0.19	trans
rs11648858	chr16	85832291	CAPS	828	0.01	trans
rs2228133	chr17	7412402	CAPS	828	0.01	trans
rs11656351	chr17	9489574	CAPS	828	3.665E-5	trans
rs11078060	chr17	12119478	CAPS	828	0.09	trans
rs9893703	chr17	35175331	CAPS	828	0.08	trans
rs7219986	chr17	53263206	CAPS	828	0.01	trans
rs9909402	chr17	71721265	CAPS	828	0	trans
rs312907	chr17	75431977	CAPS	828	0.08	trans
rs500876	chr18	4388536	CAPS	828	0	trans
rs16953782	chr18	8564832	CAPS	828	1.942E-4	trans
rs2034023	chr18	8589186	CAPS	828	0.17	trans
rs9949772	chr18	31042632	CAPS	828	0	trans
rs16951170	chr18	47402487	CAPS	828	0.02	trans
rs1942461	chr18	70509159	CAPS	828	0.02	trans
rs1942462	chr18	70509823	CAPS	828	0.02	trans
rs1942463	chr18	70509841	CAPS	828	0.02	trans
rs1942464	chr18	70509877	CAPS	828	0	trans
rs1942466	chr18	70517154	CAPS	828	0.02	trans
rs2156494	chr18	70518084	CAPS	828	0.02	trans
rs884230	chr18	74331309	CAPS	828	0.15	trans
rs10425739	chr19	29582202	CAPS	828	0.11	trans
rs16962554	chr19	29590544	CAPS	828	2.337E-8	trans
rs7256478	chr19	52373987	CAPS	828	0.17	trans
rs7268977	chr20	221536	CAPS	828	0.03	trans
rs3790267	chr20	19565692	CAPS	828	0.01	trans
rs6515028	chr20	19576068	CAPS	828	0.01	trans
rs6035760	chr20	20993286	CAPS	828	0.18	trans
rs7268640	chr20	47150267	CAPS	828	1.167E-4	trans
rs259991	chr20	57728347	CAPS	828	0.03	trans
rs6015452	chr20	57782312	CAPS	828	0.05	trans
rs4270401	chr20	61343887	CAPS	828	0.12	trans
rs2826760	chr21	22645100	CAPS	828	0.04	trans
rs1893573	chr21	27965705	CAPS	828	2.014E-4	trans
rs16994521	chr21	38208009	CAPS	828	0.04	trans
rs14115	chr22	30163525	CAPS	828	0.12	trans
rs17711508	chr22	30220833	CAPS	828	0.12	trans
rs16988381	chr22	30592807	CAPS	828	0.07	trans
rs2267312	chr22	34288043	CAPS	828	1.551E-8	trans
rs7052166	chrX	17716493	CAPS	828	0.01	trans
rs7062071	chrX	17724830	CAPS	828	9.117E-4	trans
rs16983508	chrX	99747940	CAPS	828	0.08	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
NDUFA10	0.90	0.84
ARFIP2	0.90	0.82
RAB7A	0.88	0.83
SNAP47	0.88	0.77
TFG	0.86	0.76
ACAD9	0.86	0.77
C11orf49	0.86	0.79
C20orf3	0.86	0.77
MED8	0.86	0.77
ATP5B	0.85	0.79

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.21	-0.77	-0.53
AF347015.2	-0.73	-0.51
AF347015.8	-0.73	-0.52
MT-CO2	-0.73	-0.51
AF347015.18	-0.72	-0.56
MT-CYB	-0.71	-0.51
AF347015.31	-0.70	-0.50
AF347015.26	-0.69	-0.50
AF347015.27	-0.68	-0.53
AF347015.15	-0.68	-0.49

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
SENGUPTA NASOPHARYNGEAL CARCINOMA DN	349	157	All SZGR 2.0 genes in this pathway
ODONNELL TFRC TARGETS UP	456	228	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP	1821	933	All SZGR 2.0 genes in this pathway
COLDREN GEFITINIB RESISTANCE DN	230	115	All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY UP	236	139	All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS MODERATELY UP	109	69	All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES	648	385	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
CREIGHTON ENDOCRINE THERAPY RESISTANCE 2	473	224	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3	720	440	All SZGR 2.0 genes in this pathway
ENGELMANN CANCER PROGENITORS DN	70	44	All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS DN	306	191	All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE S	162	86	All SZGR 2.0 genes in this pathway

Gene Page: CAPS