SZGR2

Summary ?

GeneID	55646
Symbol	LYAR
Synonyms	ZC2HC2\|ZLYAR
Description	Ly1 antibody reactive
Reference	HGNC:HGNC:26021\|Ensembl:ENSG00000145220\|HPRD:10064\|Vega:OTTHUMG00000125477
Gene type	protein-coding
Map location	4p16.3
Pascal p-value	0.745
Sherlock p-value	8.849E-6
Fetal beta	0.64
eGene	Myers' cis & trans Meta

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs4689885	chr4	4560775	LYAR	55646		0.19		cis

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
KDR	0.73	0.64
FLVCR2	0.68	0.56
ETS1	0.66	0.62
LAMA4	0.66	0.56
CD93	0.66	0.59
PROCR	0.64	0.47
EDNRA	0.64	0.50
FN1	0.64	0.56
HTRA3	0.63	0.54
ELN	0.63	0.57

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
C5orf53	-0.37	-0.40
NPIPL2	-0.33	-0.45
C11orf51	-0.33	-0.38
CRYBB2	-0.33	-0.30
UQCRB	-0.32	-0.43
ACOT13	-0.32	-0.37
SCRG1	-0.31	-0.30
SH3BGR	-0.31	-0.30
ZBTB8OS	-0.31	-0.38
FAM162A	-0.31	-0.33

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
BXDC2	BRIX \| FLJ11100	brix domain containing 2	Affinity Capture-MS	BioGRID	17353931
DDX21	DKFZp686F21172 \| GUA \| GURDB \| RH-II/GU \| RH-II/GuA	DEAD (Asp-Glu-Ala-Asp) box polypeptide 21	Affinity Capture-MS	BioGRID	17353931
DDX27	DKFZp667N057 \| FLJ12917 \| FLJ20596 \| FLJ22238 \| HSPC259 \| MGC1018 \| MGC163147 \| PP3241 \| RHLP \| Rrp3p \| dJ686N3.1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	Affinity Capture-MS	BioGRID	17353931
DHX57	DDX57 \| FLJ32861	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	Affinity Capture-MS	BioGRID	17353931
DHX9	DDX9 \| LKP \| NDHII \| RHA	DEAH (Asp-Glu-Ala-His) box polypeptide 9	Affinity Capture-MS	BioGRID	17353931
EBNA1BP2	EBP2 \| NOBP \| P40	EBNA1 binding protein 2	Affinity Capture-MS	BioGRID	17353931
EIF3I	EIF3S2 \| PRO2242 \| TRIP-1 \| TRIP1 \| eIF3-beta \| eIF3-p36	eukaryotic translation initiation factor 3, subunit I	Affinity Capture-MS	BioGRID	17353931
GNL2	FLJ40906 \| HUMAUANTIG \| NGP1 \| Ngp-1 \| dJ423B22.6	guanine nucleotide binding protein-like 2 (nucleolar)	Affinity Capture-MS	BioGRID	17353931
GTPBP4	CRFG \| FLJ10686 \| FLJ10690 \| FLJ39774 \| NGB \| NOG1	GTP binding protein 4	Affinity Capture-MS	BioGRID	17353931
KPNA1	IPOA5 \| NPI-1 \| RCH2 \| SRP1	karyopherin alpha 1 (importin alpha 5)	Affinity Capture-MS	BioGRID	17353931
KRT31	HA1 \| Ha-1 \| KRTHA1 \| MGC138630 \| hHa1	keratin 31	Affinity Capture-MS	BioGRID	17353931
KRT82	HB2 \| Hb-2 \| KRTHB2	keratin 82	Affinity Capture-MS	BioGRID	17353931
KRT85	HB5 \| Hb-5 \| KRTHB5 \| hHb5	keratin 85	Affinity Capture-MS	BioGRID	17353931
MYBBP1A	FLJ37886 \| P160 \| PAP2	MYB binding protein (P160) 1a	Affinity Capture-MS	BioGRID	17353931
NAT10	ALP \| DKFZp434C116 \| FLJ10774 \| FLJ12179 \| FLJ23850 \| KIAA1709 \| hALP	N-acetyltransferase 10 (GCN5-related)	Affinity Capture-MS	BioGRID	17353931
NPM1	B23 \| MGC104254 \| NPM	nucleophosmin (nucleolar phosphoprotein B23, numatrin)	Affinity Capture-MS	BioGRID	17353931
RPL18A	-	ribosomal protein L18a	Affinity Capture-MS	BioGRID	17353931
RPL21	DKFZp686C06101 \| FLJ27458 \| L21 \| MGC104274 \| MGC104275 \| MGC71252	ribosomal protein L21	Affinity Capture-MS	BioGRID	17353931
RPL23A	FLJ27455 \| MDA20	ribosomal protein L23a	Affinity Capture-MS	BioGRID	17353931
RPL3	MGC104284 \| TARBP-B	ribosomal protein L3	Affinity Capture-MS	BioGRID	17353931
RPL31	MGC88191	ribosomal protein L31	Affinity Capture-MS	BioGRID	17353931
RPS3A	FTE1 \| MFTL \| MGC23240	ribosomal protein S3A	Affinity Capture-MS	BioGRID	17353931
RPS9	-	ribosomal protein S9	Affinity Capture-MS	BioGRID	17353931
SRP14	ALURBP \| MGC14326	signal recognition particle 14kDa (homologous Alu RNA binding protein)	Affinity Capture-MS	BioGRID	17353931
TSR1	FLJ10534 \| KIAA1401 \| MGC131829	TSR1, 20S rRNA accumulation, homolog (S. cerevisiae)	Affinity Capture-MS	BioGRID	17353931
TWF2	A6RP \| A6r \| MSTP011 \| PTK9L	twinfilin, actin-binding protein, homolog 2 (Drosophila)	Affinity Capture-MS	BioGRID	17353931
ZBTB16	PLZF \| ZNF145	zinc finger and BTB domain containing 16	Two-hybrid	BioGRID	16169070
ZHX1	-	zinc fingers and homeoboxes 1	Two-hybrid	BioGRID	16169070

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
SENGUPTA NASOPHARYNGEAL CARCINOMA WITH LMP1 UP	408	247	All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY UP	430	232	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN	1375	806	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED UP	633	376	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC UP	722	443	All SZGR 2.0 genes in this pathway
DARWICHE SKIN TUMOR PROMOTER DN	185	115	All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK LOW DN	165	107	All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK HIGH DN	180	110	All SZGR 2.0 genes in this pathway
DARWICHE SQUAMOUS CELL CARCINOMA DN	181	107	All SZGR 2.0 genes in this pathway
LASTOWSKA NEUROBLASTOMA COPY NUMBER DN	800	473	All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS UP	201	127	All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX	795	478	All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES	648	385	All SZGR 2.0 genes in this pathway
SUNG METASTASIS STROMA DN	54	34	All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN	911	527	All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN	1011	592	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 4	307	185	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 DN	593	372	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS DN	591	366	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP	973	570	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP	863	514	All SZGR 2.0 genes in this pathway
GRADE COLON AND RECTAL CANCER UP	285	167	All SZGR 2.0 genes in this pathway
LEE LIVER CANCER SURVIVAL DN	175	103	All SZGR 2.0 genes in this pathway
CHANG CORE SERUM RESPONSE UP	212	128	All SZGR 2.0 genes in this pathway
CHANG CYCLING GENES	148	83	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 36HR DN	185	116	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR DN	277	166	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS DN	89	50	All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE M G1	148	95	All SZGR 2.0 genes in this pathway
KARLSSON TGFB1 TARGETS UP	127	78	All SZGR 2.0 genes in this pathway
WANG RESPONSE TO GSK3 INHIBITOR SB216763 DN	374	217	All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 6HR UP	229	149	All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN	882	538	All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION UP	570	339	All SZGR 2.0 genes in this pathway

Gene Page: LYAR