Gene Page:PRG4

Summary?
GeneID 10216
Symbol PRG4
Synonyms CACP|HAPO|JCAP|MSF|SZP
Description proteoglycan 4
Reference MIM:604283|HGNC:HGNC:9364|Ensembl:ENSG00000116690|HPRD:05047|Vega:OTTHUMG00000035574
Gene type protein-coding
Map location 1q25-q31
Fetal beta -0.026
eGene Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
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,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs631503 chr1 72327801 PRG4 10216 0.08 trans
rs2800921 chr1 209368740 PRG4 10216 0.03 trans
rs7529880 chr1 232598502 PRG4 10216 0.03 trans
rs12619086 chr2 15180757 PRG4 10216 0.1 trans
rs17535450 chr2 39900012 PRG4 10216 0.05 trans
rs17558168 chr2 72151944 PRG4 10216 0.05 trans
rs16829215 chr2 151871444 PRG4 10216 0.1 trans
rs6726013 chr2 189064570 PRG4 10216 0.1 trans
rs4684042 chr3 10559201 PRG4 10216 0.19 trans
rs1050604 chr3 16357707 PRG4 10216 0 trans
rs11706314 chr3 45309716 PRG4 10216 0.19 trans
rs9288980 chr3 112964991 PRG4 10216 0.14 trans
rs3995908 chr3 112998529 PRG4 10216 0.14 trans
rs7652801 chr3 113008605 PRG4 10216 0.14 trans
rs6825572 chr4 36215470 PRG4 10216 0.13 trans
rs17088743 chr4 58668728 PRG4 10216 0.1 trans
rs17046025 chr4 166066605 PRG4 10216 0.11 trans
rs1833564 chr4 181732225 PRG4 10216 0.05 trans
rs416393 chr5 9998327 PRG4 10216 0.14 trans
rs10041298 chr5 52214802 PRG4 10216 0.01 trans
rs1462113 chr5 152693290 PRG4 10216 0.19 trans
rs177521 chr5 152767641 PRG4 10216 0.04 trans
rs545290 chr5 152858437 PRG4 10216 0.01 trans
rs4236095 chr6 47368686 PRG4 10216 0.04 trans
rs9451867 chr6 92659609 PRG4 10216 0 trans
rs2301464 chr6 112029983 PRG4 10216 0.17 trans
rs17704432 chr6 112048867 PRG4 10216 0.05 trans
rs9374283 chr6 112053416 PRG4 10216 0.05 trans
rs17072888 chr6 112099533 PRG4 10216 0.11 trans
rs9321275 chr6 131493217 PRG4 10216 0.03 trans
rs2398707 chr7 2113428 PRG4 10216 0 trans
rs3778948 chr7 2123290 PRG4 10216 0.06 trans
rs3778951 chr7 2125319 PRG4 10216 0 trans
rs17157992 chr7 83349706 PRG4 10216 0.11 trans
rs17215901 chr8 106549085 PRG4 10216 0.15 trans
snp_a-2171708 0 PRG4 10216 0.1 trans
rs13279114 chr8 106582168 PRG4 10216 0.1 trans
rs16908578 chr8 139226337 PRG4 10216 0.01 trans
rs16908622 chr8 139231604 PRG4 10216 2.41E-4 trans
rs1999431 chr9 107564675 PRG4 10216 0.13 trans
rs998410 chr9 117622673 PRG4 10216 0 trans
rs7929546 chr11 8502946 PRG4 10216 0.15 trans
rs7102605 chr11 8551676 PRG4 10216 0.15 trans
rs10437594 chr11 8629423 PRG4 10216 0.15 trans
rs11042027 chr11 8685450 PRG4 10216 0.15 trans
rs638035 chr11 35509120 PRG4 10216 0.17 trans
rs11820030 chr11 76133564 PRG4 10216 0.01 trans
rs17134872 chr11 76139845 PRG4 10216 0 trans
rs10751255 0 PRG4 10216 0.03 trans
rs11236774 chr11 76234952 PRG4 10216 0 trans
rs4759814 chr12 131455220 PRG4 10216 0.14 trans
rs17055644 chr13 38020671 PRG4 10216 0.02 trans
rs4349050 chr13 41958722 PRG4 10216 0.09 trans
rs7982172 chr13 41969697 PRG4 10216 0.08 trans
rs4942043 chr13 41978218 PRG4 10216 0.05 trans
rs4402447 chr13 41984741 PRG4 10216 0.18 trans
rs17057812 chr13 60753449 PRG4 10216 0 trans
rs17251939 chr14 49430822 PRG4 10216 0.2 trans
rs8061703 chr16 81000281 PRG4 10216 0.05 trans
rs16941390 chr17 45050984 PRG4 10216 0.01 trans
rs7236104 chr18 14032818 PRG4 10216 0.04 trans
rs11873703 chr18 61448702 PRG4 10216 0.05 trans
rs16967535 chr19 33373697 PRG4 10216 0.18 trans
rs16967540 chr19 33375874 PRG4 10216 0.02 trans
snp_a-1784374 0 PRG4 10216 0.02 trans
rs6510303 chr19 33380831 PRG4 10216 0.02 trans
rs16993349 chr20 7266857 PRG4 10216 0.1 trans
rs16993414 chr20 7308537 PRG4 10216 0.1 trans
rs6095741 chr20 48666589 PRG4 10216 0.01 trans
rs4822938 chr22 28164049 PRG4 10216 0.08 trans
rs6000401 chr22 37149335 PRG4 10216 3.829E-4 trans
rs2982104 chrX 94740630 PRG4 10216 0.14 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
WDR82 0.97 0.98
CSDE1 0.97 0.97
PHF20 0.96 0.97
EPM2AIP1 0.96 0.97
WDR48 0.96 0.97
VEZT 0.96 0.96
EPC2 0.96 0.97
POLR3A 0.96 0.97
ZMYM4 0.96 0.96
EXOC2 0.96 0.97
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
MT-CO2 -0.79 -0.89
AF347015.31 -0.79 -0.88
FXYD1 -0.79 -0.89
IFI27 -0.77 -0.88
AF347015.33 -0.77 -0.85
HIGD1B -0.76 -0.88
AF347015.27 -0.76 -0.85
MT-CYB -0.76 -0.85
AF347015.8 -0.76 -0.87
TSC22D4 -0.74 -0.81

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
MOROSETTI FACIOSCAPULOHUMERAL MUSCULAR DISTROPHY UP 20 11 All SZGR 2.0 genes in this pathway
KONG E2F1 TARGETS 10 6 All SZGR 2.0 genes in this pathway
WANG SMARCE1 TARGETS UP 280 183 All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P7 90 52 All SZGR 2.0 genes in this pathway
KRAS基因PTEN IWANAGA致癌作用UP 181 112 All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR DN 191 123 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
ACEVEDO LIVER CANCER DN 540 340 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER WITH H3K27ME3 DN 228 114 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL CULTURED VS FRESH UP 425 298 All SZGR 2.0 genes in this pathway
CHEN LIVER METABOLISM QTL CIS 93 40 All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS CTNNB1 DN 170 105 All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE DN 138 99 All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA DN 267 160 All SZGR 2.0 genes in this pathway
KATSANOU ELAVL1 TARGETS DN 148 88 All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR UP 199 143 All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP 279 155 All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM A 182 108 All SZGR 2.0 genes in this pathway
NABA PROTEOGLYCANS 35 23 All SZGR 2.0 genes in this pathway
NABA CORE MATRISOME 275 148 All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028 559 All SZGR 2.0 genes in this pathway