Gene Page: LRRC3
Summary ?
| GeneID | 81543 |
| Symbol | LRRC3 |
| Synonyms | C21orf102 |
| Description | leucine rich repeat containing 3 |
| Reference | HGNC:HGNC:14965|HPRD:11286| |
| Gene type | protein-coding |
| Map location | 21q22.3 |
| Pascal p-value | 0.445 |
| Fetal beta | 1.247 |
| DMG | 1 (# studies) |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| DMG:Jaffe_2016 | Genome-wide DNA methylation analysis | This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. | 1 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg11644596 | 21 | 45874879 | LRRC3 | 1.13E-8 | -0.022 | 4.75E-6 | DMG:Jaffe_2016 |
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 |
| VAMP1 | 0.77 | 0.46 |
| KCNC1 | 0.76 | 0.56 |
| HAPLN4 | 0.75 | 0.52 |
| SCN1B | 0.73 | 0.43 |
| ECM1 | 0.73 | 0.58 |
| STAC2 | 0.72 | 0.44 |
| SCRT1 | 0.72 | 0.51 |
| NCKIPSD | 0.72 | 0.65 |
| KCNS1 | 0.71 | 0.49 |
| SYT2 | 0.71 | 0.49 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| FAM36A | -0.36 | -0.43 |
| AC090186.1 | -0.32 | -0.43 |
| GTF3C6 | -0.32 | -0.37 |
| AC005921.3 | -0.32 | -0.50 |
| AC011475.1 | -0.30 | -0.41 |
| SNHG12 | -0.28 | -0.38 |
| AC010300.1 | -0.28 | -0.52 |
| PTMS | -0.28 | -0.26 |
| RP9P | -0.27 | -0.43 |
| CBWD1 | -0.27 | -0.27 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| SAFFORD T LYMPHOCYTE ANERGY | 87 | 54 | All SZGR 2.0 genes in this pathway |
| LIN NPAS4 TARGETS UP | 163 | 100 | All SZGR 2.0 genes in this pathway |
| MEISSNER NPC HCP WITH H3K4ME2 | 491 | 319 | All SZGR 2.0 genes in this pathway |
| BRUINS UVC RESPONSE VIA TP53 GROUP C | 92 | 60 | All SZGR 2.0 genes in this pathway |