Gene Page: IDH1

Summary ?
GeneID3417
SymbolIDH1
SynonymsHEL-216|HEL-S-26|IDCD|IDH|IDP|IDPC|PICD
Descriptionisocitrate dehydrogenase 1 (NADP+)
ReferenceMIM:147700|HGNC:HGNC:5382|Ensembl:ENSG00000138413|HPRD:00984|Vega:OTTHUMG00000132943
Gene typeprotein-coding
Map location2q33.3
Pascal p-value0.317
Sherlock p-value0.64
DEG p-valueDEG:Zhao_2015:p=6.17e-04:q=0.0938
Fetal beta2.335
SupportCELL METABOLISM
Chromatin Remodeling Genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DEG:Zhao_2015RNA Sequencing analysisTranscriptome sequencing and genome-wide association analyses reveal lysosomal function and actin cytoskeleton remodeling in schizophrenia and bipolar disorder.
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_IIAGenome scan meta-analysis (All samples)Psr: 0.00916 
GSMA_IIEGenome scan meta-analysis (European-ancestry samples)Psr: 0.01016 
ExpressionMeta-analysis of gene expressionP value: 1.488 
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation


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
GenePearson's Correlation Spearman's Correlation
IFIT10.930.82
IRF90.930.87
IFITM30.910.73
MX10.910.89
PLSCR10.900.81
IFI44L0.890.82
TAP10.870.83
SP1100.870.80
MT1M0.870.76
GJB60.860.79
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
RTF1-0.48-0.65
SAFB-0.48-0.69
TUBGCP2-0.48-0.67
SRRT-0.48-0.66
PDCD11-0.47-0.70
RNF40-0.47-0.67
LSM14B-0.47-0.68
PELP1-0.47-0.67
AC011498.3-0.47-0.69
TBCD-0.47-0.67

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0000287magnesium ion bindingIEA-
GO:0016616oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptorIEA-
GO:0004450isocitrate dehydrogenase (NADP+) activityIEA-
GO:0004450isocitrate dehydrogenase (NADP+) activityTAS9866202 
GO:0016491oxidoreductase activityIEA-
GO:0030145manganese ion bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006102isocitrate metabolic processIEA-
GO:0006102isocitrate metabolic processTAS9866202 
GO:0006099tricarboxylic acid cycleIEA-
GO:0006097glyoxylate cycleIEA-
GO:0005975carbohydrate metabolic processTAS9866202 
GO:0008152metabolic processIEA-
GO:0006749glutathione metabolic processIEA-
GO:0006979response to oxidative stressIEA-
GO:0055114oxidation reductionIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005829cytosolTAS9866202 
GO:0005737cytoplasmIEA-
GO:0005777peroxisomeIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG CITRATE CYCLE TCA CYCLE 3223All SZGR 2.0 genes in this pathway
KEGG GLUTATHIONE METABOLISM 5034All SZGR 2.0 genes in this pathway
KEGG PEROXISOME 7847All SZGR 2.0 genes in this pathway
REACTOME PYRUVATE METABOLISM AND CITRIC ACID TCA CYCLE 4832All SZGR 2.0 genes in this pathway
REACTOME TCA CYCLE AND RESPIRATORY ELECTRON TRANSPORT 14185All SZGR 2.0 genes in this pathway
REACTOME PEROXISOMAL LIPID METABOLISM 2111All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS 478302All SZGR 2.0 genes in this pathway
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA UP 205140All SZGR 2.0 genes in this pathway
SENGUPTA NASOPHARYNGEAL CARCINOMA UP 294178All SZGR 2.0 genes in this pathway
WILCOX RESPONSE TO PROGESTERONE UP 15290All SZGR 2.0 genes in this pathway
PAPASPYRIDONOS UNSTABLE ATEROSCLEROTIC PLAQUE UP 5236All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN 1375806All SZGR 2.0 genes in this pathway
LANDIS BREAST CANCER PROGRESSION DN 7043All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP 1142669All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP 612367All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 DN 14993All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA DN 394258All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 3 4WK DN 3927All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 5 6WK UP 11668All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL TGFB1 TARGETS DN 6244All SZGR 2.0 genes in this pathway
FARMER BREAST CANCER APOCRINE VS LUMINAL 326213All SZGR 2.0 genes in this pathway
FARMER BREAST CANCER APOCRINE VS BASAL 330217All SZGR 2.0 genes in this pathway
TERAMOTO OPN TARGETS CLUSTER 1 1310All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM4 261153All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS UP 344180All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517309All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT REJECTED VS OK DN 546351All SZGR 2.0 genes in this pathway
SASAKI ADULT T CELL LEUKEMIA 176122All SZGR 2.0 genes in this pathway
PENG GLUTAMINE DEPRIVATION DN 337230All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP 555346All SZGR 2.0 genes in this pathway
BHATTACHARYA EMBRYONIC STEM CELL 8960All SZGR 2.0 genes in this pathway
AFFAR YY1 TARGETS DN 234137All SZGR 2.0 genes in this pathway
KUMAR TARGETS OF MLL AF9 FUSION 405264All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN 408274All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR 544307All SZGR 2.0 genes in this pathway
RUAN RESPONSE TO TNF TROGLITAZONE DN 4224All SZGR 2.0 genes in this pathway
CHEN LVAD SUPPORT OF FAILING HEART DN 4232All SZGR 2.0 genes in this pathway
RUAN RESPONSE TO TNF DN 8450All SZGR 2.0 genes in this pathway
WELCSH BRCA1 TARGETS UP 198132All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION DN 287208All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS PEAK AT 0HR 6348All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP 953554All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR UP 783442All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE DN 373196All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3 720440All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3 491310All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED 1022619All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED 1229713All SZGR 2.0 genes in this pathway
HELLER SILENCED BY METHYLATION DN 10567All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE UP 578341All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP 863514All SZGR 2.0 genes in this pathway
BOCHKIS FOXA2 TARGETS 425261All SZGR 2.0 genes in this pathway
PARK TRETINOIN RESPONSE AND PML RARA FUSION 3021All SZGR 2.0 genes in this pathway
PARK TRETINOIN RESPONSE AND RARA PLZF FUSION 2214All SZGR 2.0 genes in this pathway
SHAFFER IRF4 TARGETS IN ACTIVATED B LYMPHOCYTE 8166All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE DN 13899All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 12 7954All SZGR 2.0 genes in this pathway
NOUSHMEHR GBM SOMATIC MUTATED 97All SZGR 2.0 genes in this pathway
MARTENS BOUND BY PML RARA FUSION 456287All SZGR 2.0 genes in this pathway
CHYLA CBFA2T3 TARGETS UP 387225All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 19721213All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 36HR 15288All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D 882506All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND WITH H4K20ME1 MARK 14582All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR DN 244157All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE VIA P38 COMPLETE 227151All SZGR 2.0 genes in this pathway
FOSTER KDM1A TARGETS UP 266142All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 227149All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-23764770m8hsa-miR-23abrainAUCACAUUGCCAGGGAUUUCC
hsa-miR-23bbrainAUCACAUUGCCAGGGAUUACC
miR-30-5p1401461Ahsa-miR-30a-5pUGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrainUGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZUGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZUGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5pUGUAAACAUCCUUGACUGGA
miR-3237647701Ahsa-miR-323brainGCACAUUACACGGUCGACCUCU