Gene Page: GNLY
Summary ?
| GeneID | 10578 |
| Symbol | GNLY |
| Synonyms | D2S69E|LAG-2|LAG2|NKG5|TLA519 |
| Description | granulysin |
| Reference | MIM:188855|HGNC:HGNC:4414|Ensembl:ENSG00000115523|HPRD:01788|Vega:OTTHUMG00000130179 |
| Gene type | protein-coding |
| Map location | 2p11.2 |
| Pascal p-value | 0.091 |
| Fetal beta | -0.272 |
| DMG | 1 (# studies) |
| eGene | Caudate basal ganglia Cerebellar Hemisphere Cerebellum Hippocampus Hypothalamus Nucleus accumbens basal ganglia Meta |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:vanEijk_2014 | Genome-wide DNA methylation analysis | This dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250). | 2 |
| GSMA_I | Genome scan meta-analysis | Psr: 0.0004 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg25066857 | 2 | 85921438 | GNLY | 8.61E-5 | -14.238 | DMG:vanEijk_2014 | |
| cg25066857 | 2 | 85921438 | GNLY | 1.75E-5 | -14.679 | DMG:vanEijk_2014 |
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 |
| FOXC2 | 0.83 | 0.47 |
| SCARA5 | 0.82 | 0.40 |
| GJB2 | 0.81 | 0.43 |
| DSP | 0.81 | 0.46 |
| OGN | 0.80 | 0.48 |
| ITGBL1 | 0.79 | 0.36 |
| CFH | 0.78 | 0.51 |
| FOXD2 | 0.78 | 0.42 |
| SIX1 | 0.78 | 0.40 |
| OSR1 | 0.76 | 0.38 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| SATL1 | -0.22 | -0.24 |
| NBR2 | -0.21 | -0.23 |
| UPP1 | -0.19 | -0.07 |
| ZCWPW1 | -0.18 | -0.13 |
| RND2 | -0.18 | -0.09 |
| ACP6 | -0.18 | -0.05 |
| AC007216.4 | -0.17 | -0.09 |
| ITGAE | -0.17 | -0.22 |
| C14orf149 | -0.17 | -0.13 |
| DFNB59 | -0.17 | -0.22 |
Section III. Gene Ontology annotation
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0006968 | cellular defense response | TAS | 9756476 | |
| GO:0006805 | xenobiotic metabolic process | IEA | - | |
| GO:0042742 | defense response to bacterium | IEA | - | |
| GO:0050832 | defense response to fungus | IEA | - | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005576 | extracellular region | IEA | - | |
| GO:0005615 | extracellular space | TAS | 2212946 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| SENGUPTA NASOPHARYNGEAL CARCINOMA UP | 294 | 178 | All SZGR 2.0 genes in this pathway |
| THUM SYSTOLIC HEART FAILURE UP | 423 | 283 | All SZGR 2.0 genes in this pathway |
| CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA UP | 177 | 110 | All SZGR 2.0 genes in this pathway |
| DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA DN | 320 | 184 | All SZGR 2.0 genes in this pathway |
| AKL HTLV1 INFECTION DN | 68 | 41 | All SZGR 2.0 genes in this pathway |
| JAATINEN HEMATOPOIETIC STEM CELL DN | 226 | 132 | All SZGR 2.0 genes in this pathway |
| DODD NASOPHARYNGEAL CARCINOMA DN | 1375 | 806 | All SZGR 2.0 genes in this pathway |
| HAHTOLA SEZARY SYNDROM DN | 42 | 26 | All SZGR 2.0 genes in this pathway |
| WONG ENDMETRIUM CANCER DN | 82 | 53 | All SZGR 2.0 genes in this pathway |
| ROPERO HDAC2 TARGETS | 114 | 71 | All SZGR 2.0 genes in this pathway |
| RICKMAN METASTASIS DN | 261 | 155 | All SZGR 2.0 genes in this pathway |
| KAAB HEART ATRIUM VS VENTRICLE DN | 261 | 183 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER LUMINAL B DN | 564 | 326 | All SZGR 2.0 genes in this pathway |
| CHUNG BLISTER CYTOTOXICITY UP | 134 | 84 | All SZGR 2.0 genes in this pathway |
| MOOTHA MITOCHONDRIA | 447 | 277 | All SZGR 2.0 genes in this pathway |
| POOLA INVASIVE BREAST CANCER UP | 288 | 168 | All SZGR 2.0 genes in this pathway |
| VISALA AGING LYMPHOCYTE UP | 10 | 7 | All SZGR 2.0 genes in this pathway |
| SASSON RESPONSE TO GONADOTROPHINS UP | 91 | 59 | All SZGR 2.0 genes in this pathway |
| SASSON RESPONSE TO FORSKOLIN UP | 90 | 58 | All SZGR 2.0 genes in this pathway |
| BOSCO TH1 CYTOTOXIC MODULE | 114 | 62 | All SZGR 2.0 genes in this pathway |