Gene Page: D2HGDH
Summary ?
| GeneID | 728294 |
| Symbol | D2HGDH |
| Synonyms | D2HGD |
| Description | D-2-hydroxyglutarate dehydrogenase |
| Reference | MIM:609186|HGNC:HGNC:28358|Ensembl:ENSG00000180902|HPRD:14502|Vega:OTTHUMG00000151474 |
| Gene type | protein-coding |
| Map location | 2q37.3 |
| Pascal p-value | 0.101 |
| Sherlock p-value | 0.52 |
| Fetal beta | -0.11 |
| DMG | 1 (# studies) |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cerebellar Hemisphere Cerebellum Cortex Frontal Cortex BA9 Hypothalamus Nucleus accumbens basal ganglia Putamen basal ganglia Myers' cis & trans 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 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg00795812 | 2 | 242802009 | D2HGDH | 9.87E-5 | -3.522 | DMG:vanEijk_2014 | |
| cg16173109 | 2 | 242945447 | D2HGDH | 0.001 | -4.167 | DMG:vanEijk_2014 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs10497672 | 0 | D2HGDH | 728294 | 0.07 | trans | |||
| rs6733823 | 2 | 242695900 | D2HGDH | ENSG00000180902.12 | 2.239E-6 | 0 | 21906 | gtex_brain_ba24 |
| rs35350837 | 2 | 242696329 | D2HGDH | ENSG00000180902.12 | 1.76E-6 | 0 | 22335 | gtex_brain_ba24 |
| rs4425108 | 2 | 242697998 | D2HGDH | ENSG00000180902.12 | 9.154E-9 | 0 | 24004 | gtex_brain_ba24 |
| rs71430384 | 2 | 242700052 | D2HGDH | ENSG00000180902.12 | 1.75E-6 | 0 | 26058 | gtex_brain_ba24 |
| rs71430385 | 2 | 242700960 | D2HGDH | ENSG00000180902.12 | 1.234E-6 | 0 | 26966 | gtex_brain_ba24 |
| rs34762429 | 2 | 242701415 | D2HGDH | ENSG00000180902.12 | 1.236E-6 | 0 | 27421 | gtex_brain_ba24 |
| rs6740752 | 2 | 242703183 | D2HGDH | ENSG00000180902.12 | 2.078E-6 | 0 | 29189 | gtex_brain_ba24 |
| rs6747623 | 2 | 242704061 | D2HGDH | ENSG00000180902.12 | 2.063E-6 | 0 | 30067 | gtex_brain_ba24 |
| rs6756901 | 2 | 242707101 | D2HGDH | ENSG00000180902.12 | 2.011E-6 | 0 | 33107 | gtex_brain_ba24 |
| rs60611916 | 2 | 242680019 | D2HGDH | ENSG00000180902.12 | 1.647E-9 | 0 | 6025 | gtex_brain_putamen_basal |
| rs62191982 | 2 | 242680030 | D2HGDH | ENSG00000180902.12 | 3.736E-9 | 0 | 6036 | gtex_brain_putamen_basal |
| rs4073890 | 2 | 242680366 | D2HGDH | ENSG00000180902.12 | 2.179E-9 | 0 | 6372 | gtex_brain_putamen_basal |
| rs4073889 | 2 | 242680430 | D2HGDH | ENSG00000180902.12 | 8.288E-9 | 0 | 6436 | gtex_brain_putamen_basal |
| rs62192001 | 2 | 242681588 | D2HGDH | ENSG00000180902.12 | 7.21E-10 | 0 | 7594 | gtex_brain_putamen_basal |
| rs6756399 | 2 | 242682533 | D2HGDH | ENSG00000180902.12 | 1.062E-9 | 0 | 8539 | gtex_brain_putamen_basal |
| rs113611133 | 2 | 242682555 | D2HGDH | ENSG00000180902.12 | 2.534E-7 | 0 | 8561 | gtex_brain_putamen_basal |
| rs62192002 | 2 | 242682844 | D2HGDH | ENSG00000180902.12 | 4.288E-10 | 0 | 8850 | gtex_brain_putamen_basal |
| rs62192003 | 2 | 242683374 | D2HGDH | ENSG00000180902.12 | 7.367E-10 | 0 | 9380 | gtex_brain_putamen_basal |
| rs62192004 | 2 | 242683471 | D2HGDH | ENSG00000180902.12 | 7.336E-10 | 0 | 9477 | gtex_brain_putamen_basal |
| rs62192005 | 2 | 242683522 | D2HGDH | ENSG00000180902.12 | 1.343E-9 | 0 | 9528 | gtex_brain_putamen_basal |
| rs4366942 | 2 | 242683992 | D2HGDH | ENSG00000180902.12 | 4.981E-10 | 0 | 9998 | gtex_brain_putamen_basal |
| rs4234097 | 2 | 242684115 | D2HGDH | ENSG00000180902.12 | 7.21E-10 | 0 | 10121 | gtex_brain_putamen_basal |
| rs62192009 | 2 | 242684574 | D2HGDH | ENSG00000180902.12 | 7.21E-10 | 0 | 10580 | gtex_brain_putamen_basal |
| rs35532480 | 2 | 242684945 | D2HGDH | ENSG00000180902.12 | 7.21E-10 | 0 | 10951 | gtex_brain_putamen_basal |
| rs34293993 | 2 | 242685109 | D2HGDH | ENSG00000180902.12 | 5.801E-10 | 0 | 11115 | gtex_brain_putamen_basal |
| rs62192013 | 2 | 242686171 | D2HGDH | ENSG00000180902.12 | 1.087E-9 | 0 | 12177 | gtex_brain_putamen_basal |
| rs35070043 | 2 | 242686529 | D2HGDH | ENSG00000180902.12 | 8.588E-10 | 0 | 12535 | gtex_brain_putamen_basal |
| rs6715894 | 2 | 242687015 | D2HGDH | ENSG00000180902.12 | 8.824E-10 | 0 | 13021 | gtex_brain_putamen_basal |
| rs6721985 | 2 | 242687154 | D2HGDH | ENSG00000180902.12 | 9.279E-10 | 0 | 13160 | gtex_brain_putamen_basal |
| rs34647532 | 2 | 242687579 | D2HGDH | ENSG00000180902.12 | 1.958E-11 | 0 | 13585 | gtex_brain_putamen_basal |
| rs34519321 | 2 | 242688203 | D2HGDH | ENSG00000180902.12 | 1.097E-9 | 0 | 14209 | gtex_brain_putamen_basal |
| rs34767042 | 2 | 242688292 | D2HGDH | ENSG00000180902.12 | 1.115E-9 | 0 | 14298 | gtex_brain_putamen_basal |
| rs35386923 | 2 | 242688366 | D2HGDH | ENSG00000180902.12 | 1.967E-9 | 0 | 14372 | gtex_brain_putamen_basal |
| rs34077392 | 2 | 242688434 | D2HGDH | ENSG00000180902.12 | 2.176E-6 | 0 | 14440 | gtex_brain_putamen_basal |
| rs35249772 | 2 | 242688442 | D2HGDH | ENSG00000180902.12 | 2.43E-6 | 0 | 14448 | gtex_brain_putamen_basal |
| rs78280775 | 2 | 242688672 | D2HGDH | ENSG00000180902.12 | 1.196E-9 | 0 | 14678 | gtex_brain_putamen_basal |
| rs113047262 | 2 | 242688870 | D2HGDH | ENSG00000180902.12 | 1.24E-9 | 0 | 14876 | gtex_brain_putamen_basal |
| rs4675883 | 2 | 242689185 | D2HGDH | ENSG00000180902.12 | 1.192E-9 | 0 | 15191 | gtex_brain_putamen_basal |
| rs4075957 | 2 | 242689263 | D2HGDH | ENSG00000180902.12 | 1.591E-9 | 0 | 15269 | gtex_brain_putamen_basal |
| rs4675882 | 2 | 242689957 | D2HGDH | ENSG00000180902.12 | 7.21E-10 | 0 | 15963 | gtex_brain_putamen_basal |
| rs4073694 | 2 | 242691021 | D2HGDH | ENSG00000180902.12 | 1.806E-6 | 0 | 17027 | gtex_brain_putamen_basal |
| rs35061832 | 2 | 242692490 | D2HGDH | ENSG00000180902.12 | 4.235E-7 | 0 | 18496 | gtex_brain_putamen_basal |
| rs34337830 | 2 | 242693824 | D2HGDH | ENSG00000180902.12 | 1.043E-9 | 0 | 19830 | gtex_brain_putamen_basal |
| rs62192024 | 2 | 242695497 | D2HGDH | ENSG00000180902.12 | 1.923E-6 | 0 | 21503 | gtex_brain_putamen_basal |
| rs6733823 | 2 | 242695900 | D2HGDH | ENSG00000180902.12 | 6.834E-12 | 0 | 21906 | gtex_brain_putamen_basal |
| rs35350837 | 2 | 242696329 | D2HGDH | ENSG00000180902.12 | 7.758E-12 | 0 | 22335 | gtex_brain_putamen_basal |
| rs62192027 | 2 | 242697106 | D2HGDH | ENSG00000180902.12 | 2.077E-6 | 0 | 23112 | gtex_brain_putamen_basal |
| rs4425108 | 2 | 242697998 | D2HGDH | ENSG00000180902.12 | 4.704E-10 | 0 | 24004 | gtex_brain_putamen_basal |
| rs34290285 | 2 | 242698640 | D2HGDH | ENSG00000180902.12 | 3.074E-6 | 0 | 24646 | gtex_brain_putamen_basal |
| rs71430382 | 2 | 242699290 | D2HGDH | ENSG00000180902.12 | 5.093E-7 | 0 | 25296 | gtex_brain_putamen_basal |
| rs71430384 | 2 | 242700052 | D2HGDH | ENSG00000180902.12 | 3.227E-12 | 0 | 26058 | gtex_brain_putamen_basal |
| rs35305862 | 2 | 242700770 | D2HGDH | ENSG00000180902.12 | 2.69E-6 | 0 | 26776 | gtex_brain_putamen_basal |
| rs71430385 | 2 | 242700960 | D2HGDH | ENSG00000180902.12 | 1.938E-12 | 0 | 26966 | gtex_brain_putamen_basal |
| rs34762429 | 2 | 242701415 | D2HGDH | ENSG00000180902.12 | 1.749E-12 | 0 | 27421 | gtex_brain_putamen_basal |
| rs2002092 | 2 | 242701647 | D2HGDH | ENSG00000180902.12 | 2.706E-6 | 0 | 27653 | gtex_brain_putamen_basal |
| rs4538241 | 2 | 242702013 | D2HGDH | ENSG00000180902.12 | 3.486E-7 | 0 | 28019 | gtex_brain_putamen_basal |
| rs4449174 | 2 | 242702538 | D2HGDH | ENSG00000180902.12 | 2.716E-6 | 0 | 28544 | gtex_brain_putamen_basal |
| rs62192037 | 2 | 242702812 | D2HGDH | ENSG00000180902.12 | 2.714E-6 | 0 | 28818 | gtex_brain_putamen_basal |
| rs6740752 | 2 | 242703183 | D2HGDH | ENSG00000180902.12 | 7.148E-12 | 0 | 29189 | gtex_brain_putamen_basal |
| rs6754066 | 2 | 242703363 | D2HGDH | ENSG00000180902.12 | 2.694E-6 | 0 | 29369 | gtex_brain_putamen_basal |
| rs5839764 | 2 | 242703618 | D2HGDH | ENSG00000180902.12 | 4.497E-7 | 0 | 29624 | gtex_brain_putamen_basal |
| rs6747623 | 2 | 242704061 | D2HGDH | ENSG00000180902.12 | 2.613E-12 | 0 | 30067 | gtex_brain_putamen_basal |
| rs6756901 | 2 | 242707101 | D2HGDH | ENSG00000180902.12 | 2.629E-12 | 0 | 33107 | gtex_brain_putamen_basal |
| rs6707874 | 2 | 242709363 | D2HGDH | ENSG00000180902.12 | 2.527E-8 | 0 | 35369 | gtex_brain_putamen_basal |
| rs7599470 | 2 | 242709807 | D2HGDH | ENSG00000180902.12 | 1.361E-6 | 0 | 35813 | gtex_brain_putamen_basal |
| rs7582582 | 2 | 242710079 | D2HGDH | ENSG00000180902.12 | 1.295E-9 | 0 | 36085 | gtex_brain_putamen_basal |
| rs7582691 | 2 | 242710197 | D2HGDH | ENSG00000180902.12 | 1.163E-9 | 0 | 36203 | gtex_brain_putamen_basal |
| rs7608524 | 2 | 242710236 | D2HGDH | ENSG00000180902.12 | 1.581E-7 | 0 | 36242 | gtex_brain_putamen_basal |
| rs10755057 | 2 | 242710662 | D2HGDH | ENSG00000180902.12 | 1.971E-9 | 0 | 36668 | gtex_brain_putamen_basal |
| rs10933568 | 2 | 242710935 | D2HGDH | ENSG00000180902.12 | 6.561E-11 | 0 | 36941 | gtex_brain_putamen_basal |
| rs10933569 | 2 | 242710954 | D2HGDH | ENSG00000180902.12 | 6.617E-11 | 0 | 36960 | gtex_brain_putamen_basal |
| rs12998967 | 2 | 242711227 | D2HGDH | ENSG00000180902.12 | 7.089E-11 | 0 | 37233 | gtex_brain_putamen_basal |
| rs62192043 | 2 | 242711282 | D2HGDH | ENSG00000180902.12 | 2.241E-7 | 0 | 37288 | gtex_brain_putamen_basal |
| rs28631456 | 2 | 242711353 | D2HGDH | ENSG00000180902.12 | 4.133E-8 | 0 | 37359 | gtex_brain_putamen_basal |
| rs28605921 | 2 | 242711364 | D2HGDH | ENSG00000180902.12 | 5.031E-9 | 0 | 37370 | gtex_brain_putamen_basal |
| rs71820871 | 2 | 242711550 | D2HGDH | ENSG00000180902.12 | 3.663E-12 | 0 | 37556 | gtex_brain_putamen_basal |
| rs13408030 | 2 | 242711574 | D2HGDH | ENSG00000180902.12 | 5.293E-12 | 0 | 37580 | gtex_brain_putamen_basal |
| rs7563672 | 2 | 242712870 | D2HGDH | ENSG00000180902.12 | 2.916E-7 | 0 | 38876 | gtex_brain_putamen_basal |
| rs62193062 | 2 | 242728009 | D2HGDH | ENSG00000180902.12 | 1.809E-7 | 0 | 54015 | gtex_brain_putamen_basal |
| rs62193063 | 2 | 242728098 | D2HGDH | ENSG00000180902.12 | 8.72E-7 | 0 | 54104 | gtex_brain_putamen_basal |
| rs62193065 | 2 | 242728617 | D2HGDH | ENSG00000180902.12 | 8.72E-7 | 0 | 54623 | gtex_brain_putamen_basal |
| rs62193068 | 2 | 242730333 | D2HGDH | ENSG00000180902.12 | 6.639E-7 | 0 | 56339 | gtex_brain_putamen_basal |
| rs28433874 | 2 | 242733486 | D2HGDH | ENSG00000180902.12 | 1.335E-6 | 0 | 59492 | gtex_brain_putamen_basal |
| rs62193075 | 2 | 242735841 | D2HGDH | ENSG00000180902.12 | 7.53E-7 | 0 | 61847 | gtex_brain_putamen_basal |
| rs62193076 | 2 | 242735848 | D2HGDH | ENSG00000180902.12 | 2.394E-6 | 0 | 61854 | gtex_brain_putamen_basal |
| rs62193077 | 2 | 242736221 | D2HGDH | ENSG00000180902.12 | 1.117E-6 | 0 | 62227 | gtex_brain_putamen_basal |
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.
No co-expressed genes in brain regions
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| REACTOME PYRUVATE METABOLISM AND CITRIC ACID TCA CYCLE | 48 | 32 | All SZGR 2.0 genes in this pathway |
| REACTOME TCA CYCLE AND RESPIRATORY ELECTRON TRANSPORT | 141 | 85 | All SZGR 2.0 genes in this pathway |
| NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN | 634 | 384 | All SZGR 2.0 genes in this pathway |
| GRAESSMANN APOPTOSIS BY DOXORUBICIN DN | 1781 | 1082 | All SZGR 2.0 genes in this pathway |
| GRAESSMANN RESPONSE TO MC AND DOXORUBICIN DN | 770 | 415 | All SZGR 2.0 genes in this pathway |
| DAIRKEE TERT TARGETS UP | 380 | 213 | All SZGR 2.0 genes in this pathway |
| SANSOM APC TARGETS REQUIRE MYC | 210 | 123 | All SZGR 2.0 genes in this pathway |
| CADWELL ATG16L1 TARGETS DN | 70 | 43 | All SZGR 2.0 genes in this pathway |
| BREDEMEYER RAG SIGNALING VIA ATM NOT VIA NFKB DN | 38 | 23 | All SZGR 2.0 genes in this pathway |