Gene Page: ATF4
Summary ?
GeneID | 468 |
Symbol | ATF4 |
Synonyms | CREB-2|CREB2|TAXREB67|TXREB |
Description | activating transcription factor 4 |
Reference | MIM:604064|HGNC:HGNC:786|Ensembl:ENSG00000128272|HPRD:06817|Vega:OTTHUMG00000151099 |
Gene type | protein-coding |
Map location | 22q13.1 |
Pascal p-value | 3.056E-7 |
Sherlock p-value | 0.068 |
Fetal beta | 1.693 |
eGene | Myers' cis & trans Meta |
Gene in Data Sources
Gene set name | Method of gene set | Description | Info |
---|---|---|---|
CV:PGCnp | Genome-wide Association Study | GWAS | |
PMID:cooccur | High-throughput literature-search | Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias | Click to show details |
Section I. Genetics and epigenetics annotation
eQTL annotation
SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
---|---|---|---|---|---|---|---|---|
rs6001609 | chr22 | 39892858 | ATF4 | 468 | 0.06 | cis | ||
rs11891594 | chr2 | 195857382 | ATF4 | 468 | 0.08 | trans | ||
rs6954503 | chr7 | 45155967 | ATF4 | 468 | 0.19 | trans |
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 |
SND1 | 0.87 | 0.84 |
RPN1 | 0.87 | 0.86 |
PSMD2 | 0.87 | 0.84 |
C22orf28 | 0.87 | 0.86 |
DAP3 | 0.87 | 0.85 |
CCT7 | 0.86 | 0.84 |
PRMT5 | 0.86 | 0.82 |
MTCH2 | 0.86 | 0.86 |
ZNF207 | 0.86 | 0.84 |
FAF1 | 0.86 | 0.85 |
Top 10 negatively co-expressed genes | ||
Gene | Pearson's Correlation | Spearman's Correlation |
MT-CO2 | -0.74 | -0.71 |
AF347015.8 | -0.73 | -0.72 |
AF347015.21 | -0.73 | -0.72 |
AF347015.31 | -0.72 | -0.71 |
AF347015.2 | -0.71 | -0.73 |
AF347015.33 | -0.70 | -0.71 |
AF347015.27 | -0.69 | -0.70 |
MT-CYB | -0.69 | -0.69 |
AF347015.15 | -0.68 | -0.70 |
AF347015.26 | -0.68 | -0.69 |
Section III. Gene Ontology annotation
Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
---|---|---|---|---|
GO:0003700 | transcription factor activity | TAS | 12689582 | |
GO:0003704 | specific RNA polymerase II transcription factor activity | ISS | - | |
GO:0016563 | transcription activator activity | IMP | 11960987 | |
GO:0016563 | transcription activator activity | ISS | - | |
GO:0016563 | transcription activator activity | NAS | 9190894 | |
GO:0043565 | sequence-specific DNA binding | IEA | - | |
GO:0046983 | protein dimerization activity | IEA | - | |
Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0006355 | regulation of transcription, DNA-dependent | ISS | - | |
GO:0006350 | transcription | IEA | - | |
GO:0006520 | amino acid metabolic process | TAS | 12689582 | |
GO:0006094 | gluconeogenesis | ISS | - | |
GO:0006950 | response to stress | IEP | 15314157 | |
GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | IMP | 15788408 | |
GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | ISS | - | |
Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0005634 | nucleus | ISS | - | |
GO:0005737 | cytoplasm | ISS | - | |
GO:0005886 | plasma membrane | IEA | - |
Section IV. Protein-protein interaction annotation
Interactors | Aliases B | Official full name B | Experimental | Source | PubMed ID |
---|---|---|---|---|---|
CCDC106 | HSU79303 | ZNF581 | coiled-coil domain containing 106 | Two-hybrid | BioGRID | 16169070 |
CEBPB | C/EBP-beta | CRP2 | IL6DBP | LAP | MGC32080 | NF-IL6 | TCF5 | CCAAT/enhancer binding protein (C/EBP), beta | - | HPRD | 11018027 |
CEBPG | GPE1BP | IG/EBP-1 | CCAAT/enhancer binding protein (C/EBP), gamma | - | HPRD,BioGRID | 1371974 |
CREBBP | CBP | KAT3A | RSTS | CREB binding protein | Reconstituted Complex | BioGRID | 9295363 |
DAPK3 | FLJ36473 | ZIP | ZIPK | death-associated protein kinase 3 | - | HPRD | 9488481 |
DISC1 | C1orf136 | FLJ13381 | FLJ21640 | FLJ25311 | FLJ41105 | KIAA0457 | SCZD9 | disrupted in schizophrenia 1 | - | HPRD,BioGRID | 12812986 |
DISC1 | C1orf136 | FLJ13381 | FLJ21640 | FLJ25311 | FLJ41105 | KIAA0457 | SCZD9 | disrupted in schizophrenia 1 | An unspecified isoform of DISC1 interacts with ATF4. | BIND | 14623284 |
DISC1 | C1orf136 | FLJ13381 | FLJ21640 | FLJ25311 | FLJ41105 | KIAA0457 | SCZD9 | disrupted in schizophrenia 1 | DISC-1 interacts with ATF4. | BIND | 12812986 |
EIF2A | CDA02 | EIF-2A | MST089 | MSTP004 | MSTP089 | eukaryotic translation initiation factor 2A, 65kDa | Affinity Capture-Western | BioGRID | 15475356 |
GABBR2 | FLJ36928 | GABABR2 | GPR51 | GPRC3B | HG20 | HRIHFB2099 | gamma-aminobutyric acid (GABA) B receptor, 2 | - | HPRD,BioGRID | 11087824 |
GPS2 | AMF-1 | MGC104294 | MGC119287 | MGC119288 | MGC119289 | G protein pathway suppressor 2 | Two-hybrid | BioGRID | 16189514 |
GTF2B | TF2B | TFIIB | general transcription factor IIB | Reconstituted Complex | BioGRID | 9295363 |
GTF2F2 | BTF4 | RAP30 | TF2F2 | TFIIF | general transcription factor IIF, polypeptide 2, 30kDa | - | HPRD,BioGRID | 9295363 |
JUN | AP-1 | AP1 | c-Jun | jun oncogene | - | HPRD,BioGRID | 1827203 |
LDOC1 | BCUR1 | Mar7 | Mart7 | leucine zipper, down-regulated in cancer 1 | Two-hybrid | BioGRID | 16189514 |
NFE2L1 | FLJ00380 | LCR-F1 | NRF1 | TCF11 | nuclear factor (erythroid-derived 2)-like 1 | - | HPRD | 11025215 |
NFE2L2 | NRF2 | nuclear factor (erythroid-derived 2)-like 2 | - | HPRD | 11274184 |
POLR2C | RPB3 | RPB31 | hRPB33 | hsRPB3 | polymerase (RNA) II (DNA directed) polypeptide C, 33kDa | - | HPRD,BioGRID | 12860379 |
PTCD3 | DKFZp666K071 | FLJ20758 | Pentatricopeptide repeat domain 3 | Two-hybrid | BioGRID | 16189514 |
TBP | GTF2D | GTF2D1 | MGC117320 | MGC126054 | MGC126055 | SCA17 | TFIID | TATA box binding protein | Reconstituted Complex | BioGRID | 9295363 |
TREX2 | - | three prime repair exonuclease 2 | Two-hybrid | BioGRID | 16189514 |
TRIB3 | C20orf97 | NIPK | SINK | SKIP3 | TRB3 | tribbles homolog 3 (Drosophila) | - | HPRD,BioGRID | 12743605 |
TRIB3 | C20orf97 | NIPK | SINK | SKIP3 | TRB3 | tribbles homolog 3 (Drosophila) | SKIP3 interacts with ATF4. | BIND | 12743605 |
TTR | HsT2651 | PALB | TBPA | transthyretin | Two-hybrid | BioGRID | 16189514 |
Section V. Pathway annotation
Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
---|---|---|---|
KEGG MAPK SIGNALING PATHWAY | 267 | 205 | All SZGR 2.0 genes in this pathway |
KEGG LONG TERM POTENTIATION | 70 | 57 | All SZGR 2.0 genes in this pathway |
KEGG NEUROTROPHIN SIGNALING PATHWAY | 126 | 103 | All SZGR 2.0 genes in this pathway |
KEGG GNRH SIGNALING PATHWAY | 101 | 77 | All SZGR 2.0 genes in this pathway |
KEGG PROSTATE CANCER | 89 | 75 | All SZGR 2.0 genes in this pathway |
PID FRA PATHWAY | 37 | 28 | All SZGR 2.0 genes in this pathway |
REACTOME DIABETES PATHWAYS | 133 | 91 | All SZGR 2.0 genes in this pathway |
REACTOME PERK REGULATED GENE EXPRESSION | 29 | 14 | All SZGR 2.0 genes in this pathway |
REACTOME ACTIVATION OF CHAPERONES BY ATF6 ALPHA | 13 | 9 | All SZGR 2.0 genes in this pathway |
REACTOME ACTIVATION OF GENES BY ATF4 | 26 | 12 | All SZGR 2.0 genes in this pathway |
REACTOME UNFOLDED PROTEIN RESPONSE | 80 | 51 | All SZGR 2.0 genes in this pathway |
REACTOME ACTIVATION OF CHAPERONE GENES BY ATF6 ALPHA | 11 | 8 | All SZGR 2.0 genes in this pathway |
IGARASHI ATF4 TARGETS DN | 90 | 65 | All SZGR 2.0 genes in this pathway |
GARY CD5 TARGETS UP | 473 | 314 | All SZGR 2.0 genes in this pathway |
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS RED UP | 17 | 13 | All SZGR 2.0 genes in this pathway |
DODD NASOPHARYNGEAL CARCINOMA DN | 1375 | 806 | All SZGR 2.0 genes in this pathway |
ENK UV RESPONSE KERATINOCYTE UP | 530 | 342 | All SZGR 2.0 genes in this pathway |
LINDGREN BLADDER CANCER CLUSTER 3 DN | 229 | 142 | All SZGR 2.0 genes in this pathway |
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP | 552 | 347 | 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 |
BARIS THYROID CANCER UP | 23 | 9 | All SZGR 2.0 genes in this pathway |
MARTIN INTERACT WITH HDAC | 44 | 31 | All SZGR 2.0 genes in this pathway |
SCHLOSSER SERUM RESPONSE DN | 712 | 443 | All SZGR 2.0 genes in this pathway |
HEIDENBLAD AMPLICON 8Q24 DN | 46 | 28 | All SZGR 2.0 genes in this pathway |
SHETH LIVER CANCER VS TXNIP LOSS PAM1 | 229 | 137 | All SZGR 2.0 genes in this pathway |
PUJANA BRCA1 PCC NETWORK | 1652 | 1023 | All SZGR 2.0 genes in this pathway |
GROSS HYPOXIA VIA ELK3 DN | 156 | 106 | All SZGR 2.0 genes in this pathway |
GROSS HYPOXIA VIA ELK3 ONLY UP | 33 | 18 | All SZGR 2.0 genes in this pathway |
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP | 811 | 508 | All SZGR 2.0 genes in this pathway |
LOPEZ MBD TARGETS | 957 | 597 | All SZGR 2.0 genes in this pathway |
BENPORATH NANOG TARGETS | 988 | 594 | All SZGR 2.0 genes in this pathway |
BENPORATH SOX2 TARGETS | 734 | 436 | All SZGR 2.0 genes in this pathway |
BENPORATH MYC TARGETS WITH EBOX | 230 | 156 | All SZGR 2.0 genes in this pathway |
BENPORATH MYC MAX TARGETS | 775 | 494 | All SZGR 2.0 genes in this pathway |
BENPORATH ES CORE NINE CORRELATED | 100 | 68 | All SZGR 2.0 genes in this pathway |
PENG LEUCINE DEPRIVATION UP | 142 | 93 | All SZGR 2.0 genes in this pathway |
FERNANDEZ BOUND BY MYC | 182 | 116 | All SZGR 2.0 genes in this pathway |
LEE AGING NEOCORTEX DN | 80 | 49 | All SZGR 2.0 genes in this pathway |
SESTO RESPONSE TO UV C6 | 39 | 27 | All SZGR 2.0 genes in this pathway |
HU GENOTOXIC DAMAGE 24HR | 35 | 22 | All SZGR 2.0 genes in this pathway |
DAZARD RESPONSE TO UV NHEK UP | 244 | 151 | All SZGR 2.0 genes in this pathway |
ZHOU TNF SIGNALING 30MIN | 54 | 36 | All SZGR 2.0 genes in this pathway |
MARIADASON RESPONSE TO CURCUMIN SULINDAC 5 | 23 | 17 | All SZGR 2.0 genes in this pathway |
VARELA ZMPSTE24 TARGETS UP | 40 | 30 | All SZGR 2.0 genes in this pathway |
DAZARD UV RESPONSE CLUSTER G2 | 30 | 18 | All SZGR 2.0 genes in this pathway |
PELLICCIOTTA HDAC IN ANTIGEN PRESENTATION DN | 49 | 38 | All SZGR 2.0 genes in this pathway |
HELLER SILENCED BY METHYLATION DN | 105 | 67 | All SZGR 2.0 genes in this pathway |
HELLER HDAC TARGETS DN | 292 | 189 | All SZGR 2.0 genes in this pathway |
HELLER HDAC TARGETS SILENCED BY METHYLATION DN | 281 | 179 | All SZGR 2.0 genes in this pathway |
DAIRKEE CANCER PRONE RESPONSE BPA E2 | 118 | 65 | All SZGR 2.0 genes in this pathway |
BOCHKIS FOXA2 TARGETS | 425 | 261 | All SZGR 2.0 genes in this pathway |
GRADE COLON CANCER UP | 871 | 505 | All SZGR 2.0 genes in this pathway |
LABBE TARGETS OF TGFB1 AND WNT3A DN | 108 | 68 | All SZGR 2.0 genes in this pathway |
CHO NR4A1 TARGETS | 33 | 22 | All SZGR 2.0 genes in this pathway |
BHATI G2M ARREST BY 2METHOXYESTRADIOL DN | 127 | 75 | All SZGR 2.0 genes in this pathway |
PODAR RESPONSE TO ADAPHOSTIN UP | 147 | 98 | All SZGR 2.0 genes in this pathway |
BLUM RESPONSE TO SALIRASIB UP | 245 | 159 | All SZGR 2.0 genes in this pathway |
WANG TUMOR INVASIVENESS DN | 210 | 128 | All SZGR 2.0 genes in this pathway |
BOHN PRIMARY IMMUNODEFICIENCY SYNDROM UP | 47 | 30 | All SZGR 2.0 genes in this pathway |
ZAIDI OSTEOBLAST TRANSCRIPTION FACTORS | 14 | 12 | All SZGR 2.0 genes in this pathway |
CHAUHAN RESPONSE TO METHOXYESTRADIOL UP | 51 | 32 | All SZGR 2.0 genes in this pathway |
AGUIRRE PANCREATIC CANCER COPY NUMBER DN | 238 | 145 | All SZGR 2.0 genes in this pathway |
SHAFFER IRF4 TARGETS IN MYELOMA VS MATURE B LYMPHOCYTE | 101 | 76 | All SZGR 2.0 genes in this pathway |
SHAFFER IRF4 TARGETS IN PLASMA CELL VS MATURE B LYMPHOCYTE | 67 | 51 | All SZGR 2.0 genes in this pathway |
HSIAO HOUSEKEEPING GENES | 389 | 245 | All SZGR 2.0 genes in this pathway |
DANG BOUND BY MYC | 1103 | 714 | All SZGR 2.0 genes in this pathway |
DORN ADENOVIRUS INFECTION 12HR UP | 29 | 18 | All SZGR 2.0 genes in this pathway |
DORN ADENOVIRUS INFECTION 24HR UP | 12 | 6 | All SZGR 2.0 genes in this pathway |
DORN ADENOVIRUS INFECTION 32HR UP | 11 | 7 | All SZGR 2.0 genes in this pathway |
DORN ADENOVIRUS INFECTION 48HR UP | 14 | 9 | All SZGR 2.0 genes in this pathway |
BAE BRCA1 TARGETS UP | 75 | 47 | All SZGR 2.0 genes in this pathway |
MARTENS TRETINOIN RESPONSE DN | 841 | 431 | All SZGR 2.0 genes in this pathway |
PLASARI TGFB1 SIGNALING VIA NFIC 1HR UP | 33 | 25 | All SZGR 2.0 genes in this pathway |
FORTSCHEGGER PHF8 TARGETS UP | 279 | 155 | All SZGR 2.0 genes in this pathway |