Gene Page:KDM3A

概括?
基因 55818
象征 KDM3A
Synonyms JHDM2A|JHMD2A|JMJD1|JMJD1A|TSGA
Description lysine demethylase 3A
Reference MIM:611512|HGNC:HGNC:20815|Ensembl：ENSG00000115548|HPRD:11054|Vega:OTTHUMG00000130204
Gene type protein-coding
Map location 2p11.2
Pascal p-value 0.584
Sherlock p-value 0.077
度p-value 度:Maycox_2009:CC_BA10_fold_change=1.14:CC_BA10_disease_P=0.0008:HBB_BA9_fold_change=1.20:HBB_BA9_disease_P=0.0062
Fetal beta 0.383
DMG 1 (# studies)
eGene Myers' cis & trans
Support Chromatin Remodeling Genes

数据源中的基因
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
度:Maycox_2009 Microarray to determine the expression of over 30000 mRNA transcripts in post-mortem tissue We included 51 genes whose expression changes are common between two schizophrenia cohorts.
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

第一节遗传学和表观遗传学注释

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg02386983 2 86669112 KDM3A 3.47E-8 -0.007 1.03E-5 DMG:Jaffe_2016

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance EQTL类型
rs997135 chr20 12330295 KDM3A 55818 0.17 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

脚注：
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)

脚注：
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 III. Gene Ontology annotation

分子功能 GO term Evidence Neuro keywords PubMed ID
GO:0005506 铁离子结合 小鬼 16603237
GO:0008270 zinc ion binding IEA -
GO：0016702 氧化还原酶活性,on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen IEA -
GO:0016491 oxidoreductase activity IEA -
GO:0046872 metal ion binding IEA -
GO:0050681 androgen receptor binding IDA 16603237
生物过程 GO term Evidence Neuro keywords PubMed ID
去：0006355 regulation of transcription, DNA-dependent IEA -
去：0009755 hormone-mediated signaling IDA 16603237
GO:0016568 chromatin modification IEA -
GO：0033169 histone H3-K9 demethylation IDA 16603237
GO:0030521 雄激素受体信号通路 IDA 16603237
GO:0045941 positive regulation of transcription 小鬼 16603237
GO:0046293 formaldehyde biosynthetic process IDA 16603237
GO:0055114 oxidation reduction IEA -
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005634 nucleus IDA 16603237

V.途径注释

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
PID AR途径 61 46 该途径中的所有SZGR 2.0基因
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN 634 384 该途径中的所有SZGR 2.0基因
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA DN 136 86 该途径中的所有SZGR 2.0基因
ZHOU INFLAMMATORY RESPONSE LIVE DN 384 220 该途径中的所有SZGR 2.0基因
PRAMOONJAGO SOX4 TARGETS UP 52 38 该途径中的所有SZGR 2.0基因
HOEBEKE LYMPHOID STEM CELL UP 95 64 该途径中的所有SZGR 2.0基因
UDAYAKUMAR MED1 TARGETS DN 240 171 该途径中的所有SZGR 2.0基因
KIM WT1 TARGETS DN 459 276 该途径中的所有SZGR 2.0基因
埃尔维奇缺氧 171 112 该途径中的所有SZGR 2.0基因
DMOG的Elvidge缺氧 130 85 该途径中的所有SZGR 2.0基因
DACOSTA UV RESPONSE VIA ERCC3 DN 855 609 该途径中的所有SZGR 2.0基因
PUJANA ATM PCC NETWORK 1442 892 该途径中的所有SZGR 2.0基因
NUYTTEN NIPP1 TARGETS UP 769 437 该途径中的所有SZGR 2.0基因
NUYTTEN EZH2 TARGETS UP 1037 673 该途径中的所有SZGR 2.0基因
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP 811 508 该途径中的所有SZGR 2.0基因
Benporath Nanog目标 988 594 该途径中的所有SZGR 2.0基因
BENPORATH OCT4 TARGETS 290 172 该途径中的所有SZGR 2.0基因
BENPORATH SOX2 TARGETS 734 436 该途径中的所有SZGR 2.0基因
BENPORATH NOS TARGETS 179 105 该途径中的所有SZGR 2.0基因
SHEPARD CRUSH AND BURN MUTANT DN 185 111 该途径中的所有SZGR 2.0基因
MANALO HYPOXIA UP 207 145 该途径中的所有SZGR 2.0基因
MENSE缺氧了 98 71 该途径中的所有SZGR 2.0基因
NOUZOVA TRETINOIN AND H4 ACETYLATION 143 85 该途径中的所有SZGR 2.0基因
BLALOCK ALZHEIMERS DISEASE UP 1691年 1088 该途径中的所有SZGR 2.0基因
LEONARD HYPOXIA 47 35 该途径中的所有SZGR 2.0基因
ZHENG BOUND BY FOXP3 491 310 该途径中的所有SZGR 2.0基因
MITSIADES RESPONSE TO APLIDIN UP 439 257 该途径中的所有SZGR 2.0基因
CHEN HOXA5 TARGETS 9HR UP 223 132 该途径中的所有SZGR 2.0基因
BOYAULT LIVER CANCER SUBCLASS G3 UP 188 121 该途径中的所有SZGR 2.0基因
QI HYPOXIA 140 96 该途径中的所有SZGR 2.0基因
QI HYPOXIA TARGETS OF HIF1A AND FOXA2 37 27 该途径中的所有SZGR 2.0基因
Dutertre雌二醇反应24小时DN 505 328 该途径中的所有SZGR 2.0基因
FARDIN HYPOXIA 11 32 29 该途径中的所有SZGR 2.0基因
Smad2或Smad3的Koinuma目标 824 528 该途径中的所有SZGR 2.0基因
IKEDA MIR30 TARGETS UP 116 87 该途径中的所有SZGR 2.0基因
KRIEG HYPOXIA VIA KDM3A 53 34 该途径中的所有SZGR 2.0基因
SMIRNOV RESPONSE TO IR 2HR DN 55 35 该途径中的所有SZGR 2.0基因
SMIRNOV RESPONSE TO IR 6HR DN 114 69 该途径中的所有SZGR 2.0基因
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839 928 该途径中的所有SZGR 2.0基因

Section VI. microRNA annotation

mirna家族 Target position mirna id miRNA seq
UTR start UTR end Match method
let-7/98 82 88 1A HSA-LET-7Abrain UGAGGUAGUAGGUUGUAUAGUU
HSA-LET-7Bbrain UGAGGUAGUAGGUUGUGUGGUU
HSA-LET-7Cbrain UGAGGUAGUAGGUUGUAUGGUU
HSA-LET-7Dbrain agagguaguagguugcauagu
HSA-LET-7Ebrain ugagguaggagguuauauagu
HSA-LET-7Fbrain UGAGGUAGUAGAUUGUAUAGUU
hsa-miR-98brain ugagguaaguuguauuguu
HSA-LET-7GSZ UGAGGUAGUAGUUUGUACAGU
HSA-LET-7Ibrain UGAGGUAGUAGUUUGUGCUGU
miR-101 486 492 1A HSA-MIR-101 UACAGUACUGUGAUAACUGAAG
mir-128 206 212 1A HSA-MIR-128A UCACAGUGAACCGGUCUCUUUU
HSA-MIR-128B UCACAGUGAACCGGUCUCUUUC
mir-136 411 417 m8 hsa-miR-136 Acuccauuuuuuugaugaugaugga
mir-144 486 492 1A hsa-miR-144 UACAGUAUAGAUGAUGUACUAG
mir-155 576 582 1A hsa-miR-155 UUAAUGCUAAUCGUGAUAGGGG
miR-216 70 76 m8 HSA-MIR-216 UAAUCUCAGCUGGCAACUGUG
miR-22 29 35 m8 hsa-miR-22brain AAGCUGCCAGUUGAAGAACUGU
miR-224 209 215 m8 HSA-MIR-224 CAAGUCACUAGUGGUUCCGUUUA
miR-27 206 212 m8 hsa-miR-27abrain UUCACAGUGGCUAAGUUCCGC
hsa-miR-27bbrain UUCACAGUGGCUAAGUUCUGC
miR-30-5p 148 155 1A,m8 HSA-MIR-30A-5P UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain uguaaacauccuacucucucucucagc
hsa-miR-30dSZ uguaaacauccccgacuggaag
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
miR-544 474 480 1A hsa-miR-544 AUUCUGCAUUUUUAGCAAGU