Mechanism of Crosstalk between m6A Modification and Epigenetic Regulation
Crosstalk ID
M6ACROT02202
[1], [2]
DNA methylation DNMT3A PTPN13 Indirect Inhibition m6A modification EPHA3 EPHA3 IGF2BP1 : m6A sites
m6A Modification:
m6A Regulator Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) READER
m6A Target Ephrin type-A receptor 3 (EPHA3)
Epigenetic Regulation that have Cross-talk with This m6A Modification:
Epigenetic Regulation Type DNA methylation (DNAMeth)
Epigenetic Regulator Cysteine methyltransferase DNMT3A (DNMT3A) WRITER View Details
Regulated Target Protein tyrosine phosphatase non-receptor type 13 (PTPN13) View Details
Crosstalk Relationship DNA methylation  →  m6A Inhibition
Crosstalk Mechanism DNA methylation indirectly regulates m6A modification through downstream signaling pathways
Crosstalk Summary We identified Protein tyrosine phosphatase non-receptor type 13 (PTPN13) expression by upregulating the expression of DNMT3A and IGF2BP1 as a novel PTPN13-interacting gene and demonstrated that PTPN13 influences c-Myc expression by directly and competitively binding to IGF2BP1 to decrease the intracellular concentration of functional IGF2BP1. Overexpressing PTPN13 promoted c-Myc mRNA degradation independent of the protein tyrosine phosphatase (PTP) activity of PTPN13. Importantly, we discovered that the PTPN13-IGF2BP1-c-Myc axis was important for cancer cell growth through promoting metabolic reprogramming. Mechanistically, reduced VIM-AS1 expression stabilized Ephrin type-A receptor 3 (EPHA3) mRNA by enhancing the binding of IGF2BP1 to EPHA3 mRNA, leading to increased expression of EPHA3 mRNA and the promotion of HCC progression.These findings suggest that the downregulation of VIM-AS1 due to hypermethylation at cg02746869 increased EPHA3 mRNA expression via a m6A-dependent mechanism to increase HCC aggressiveness.
Responsed Disease Liver cancer ICD-11: 2C12
In-vitro Model
Hep-G2/2.2.15 Hepatoblastoma Homo sapiens CVCL_L855
Huh-7 Adult hepatocellular carcinoma Homo sapiens CVCL_0336
L-02 Endocervical adenocarcinoma Homo sapiens CVCL_6926
Hep-G2 Hepatoblastoma Homo sapiens CVCL_0027
SK-HEP-1 Liver and intrahepatic bile duct epithelial neoplasm Homo sapiens CVCL_0525
MHCC97-L Adult hepatocellular carcinoma Homo sapiens CVCL_4973
LM3 Malignant neoplasms Mus musculus CVCL_D269
MHCC97-H Adult hepatocellular carcinoma Homo sapiens CVCL_4972
L-02 Endocervical adenocarcinoma Homo sapiens CVCL_6926
SMMC-7721 Endocervical adenocarcinoma Homo sapiens CVCL_0534
PLC/PRF/5 Adult hepatocellular carcinoma Homo sapiens CVCL_0485
Hep 3B2.1-7 Childhood hepatocellular carcinoma Homo sapiens CVCL_0326
In-vivo Model A total of 3 x 106 cells were suspended and mixed with Matrigel (BD Biosciences, Bedford, MA, USA) at a 1:3 volume ratio in 100 μ L of serum-free DMEM and injected subcutaneously into mice. Tumor volumes were measured every 3 days using a caliper and calculated using the standard formula V = shortest diameter2× longest diameter/2. The mice were euthanized when animals exhibited either 30 days after subcutaneous injection or large tumors (volume > 1500 mm3) or obvious signs of discomfort. The tumor was removed, photographed and weighed before being fixed in 10% buffered formalin and analyzed by hematoxylin and eosin (H&E) staining and IHC.
Full List of Potential Compound(s) Related to This m6A-centered Crosstalk
Cysteine methyltransferase DNMT3A (DNMT3A) 8 Compound(s) Regulating the Target Click to Show/Hide the Full List
 Compound Name PMID27376512-Compound-Figure3CN Patented [3]
MOA Inhibitor
Activity EC50 = 1100 nM
External Link
 Compound Name PMID27376512-Compound-Figure3CG Patented [3]
MOA Inhibitor
Activity EC50 = 2400 nM
External Link
 Compound Name PMID27376512-Compound-Figure3CM Patented [3]
MOA Inhibitor
Activity EC50 = 1100 nM
External Link
 Compound Name PMID27376512-Compound-Figure2aExample1 Patented [3]
MOA Inhibitor
Activity IC50 = 3000 nM
External Link
 Compound Name PMID27376512-Compound-MTC-424 Patented [3]
MOA Inhibitor
Activity IC50 = 1940 nM
External Link
 Compound Name PMID27376512-Compound-MTC-427 Patented [3]
MOA Inhibitor
Activity IC50 = 295 nM
External Link
 Compound Name PMID27376512-Compound-MTC-422 Patented [3]
MOA Inhibitor
Activity IC50 = 1430 nM
External Link
 Compound Name PMID27376512-Compound-MTC-423 Patented [3]
MOA Inhibitor
Activity IC50 = 363 nM
External Link
Ephrin type-A receptor 3 (EPHA3) 5 Compound(s) Regulating the Target Click to Show/Hide the Full List
 Compound Name Ifabotuzumab Phase 2 [4]
MOA Antagonist
External Link
 Compound Name KB-004 Phase 1/2 [5]
Synonyms
Anti-EphA3 tyrosine kinase receptor monoclonal antibody (Humaneered, iv, cancer), KaloBios
    Click to Show/Hide
External Link
 Compound Name PMID21561767C8h Investigative [6]
Synonyms
GTPL8170; BDBM50345579
    Click to Show/Hide
MOA Inhibitor
Activity IC50 = 1.2 nM
External Link
 Compound Name PMID19788238C66 Investigative [7]
Synonyms
1192216-03-7; GTPL8141; ZINC45245466; NSC752203; BDBM50299218; NSC-752203; KB-65160
    Click to Show/Hide
MOA Inhibitor
Activity IC50 = 40 nM
External Link
 Compound Name PMID23489211C20 Investigative [8]
Synonyms
PCM126; GTPL8124; BDBM50428059
    Click to Show/Hide
MOA Inhibitor
Activity IC50 = 2500 nM
External Link
Protein tyrosine phosphatase non-receptor type 13 (PTPN13) 2 Compound(s) Regulating the Target Click to Show/Hide the Full List
 Compound Name US9217012, 10 Patented [9]
Synonyms
SCHEMBL19222783; CHEMBL3969776; BDBM199180
    Click to Show/Hide
MOA Inhibitor
External Link
 Compound Name ISIS 18473 Investigative [10]
External Link
2C12: Liver cancer 49 Compound(s) Regulating the Disease Click to Show/Hide the Full List
 Compound Name 90Y-loaded resin microspheres Approved [11]
External Link
 Compound Name Thymalfasin Phase 2 [12]
Synonyms
Zadaxin; 62304-98-7; Thymosin alpha1; Thymosin alpha 1; Thymosin alpha1 (ox); Thymosin alpha1 (human); Thymalfasin [USAN:INN]; UNII-W0B22ISQ1C; Thymosin-alpha-1; 69440-99-9; Thymosin alpha1 (cattle); C129H215N33O55; W0B22ISQ1C; Zadaxin (TN); Thymalfasin alfa 1
    Click to Show/Hide
External Link
 Compound Name Ferumoxides Approved [13]
Synonyms
AMI-25; 119683-68-0; Feridex; Feridex IV; Superparamagnetic iron oxide; UNII-G6N3J05W84; Ferumoxides [USAN:USP:BAN]; CCRIS 6722; HSDB 8072; AC1O5DID; G6N3J05W84; iron(2+); iron(3+); Iron oxide crystal is inverse spinel (X-ray data); Fe(II) and Fe(III) are present (Mossbauer Spectroscopy; Physical form is a colloidal particle of nonstoichiometric
    Click to Show/Hide
External Link
 Compound Name DTI-015 Approved [14]
Synonyms
Carmustine; 154-93-8; 1,3-Bis(2-chloroethyl)-1-nitrosourea; BCNU; Carmustin; Nitrumon; Carmubris; Gliadel; BiCNU; Bi CNU; Carmustinum; Bischlorethylnitrosurea; Bischlorethylnitrosourea; Carmustina; Becenun; Becenum; Bischloroethyl nitrosourea; N,N'-BIS(2-CHLOROETHYL)-N-NITROSOUREA; Bis(2-chloroethyl)nitrosourea; Urea, N,N'-bis(2-chloroethyl)-N-nitroso-; Gliadel Wafer; FDA 0345; Bischloroethylnitrosourea; SRI 1720; 1,3-Bis(2-chloroethyl)nitrosourea; BiCNU (TN); Carmustinum [INN-Latin]; Carmustina [INN-Spanish]; DTI 015; NCI-C04773; SK; Injectable carmustine, Direct Therapeutics
    Click to Show/Hide
External Link
 Compound Name Nofazinlimab Phase 3 [15]
Synonyms
CS1003; EQ176
    Click to Show/Hide
External Link
 Compound Name PV-10 Phase 3 [16]
Synonyms
632-69-9; Rose bengal sodium; Rose bengal disodium salt; R105 sodium; Rose-bengal (131 I) natrium; Food Red No 105, sodium salt; EINECS 211-183-3; Food Red Color No 105, sodium salt; Sel disodique de rose bengale iodee (131 I); Rose bengale (131 I) sodique [INN-French]; Rosa bengala sodica (131 I) [INN-Spanish]; Roseum bengalense (131 I) natricum [INN-Latin]; 2,4,5,7-Tetraido(m,p,o',m')tetrachlorofluorescein, disodium salt; Fluorescein, 4,5,6,7-tetrachloro-2',4',5',7'-tetraiodo-, disodium salt; Disodium
    Click to Show/Hide
External Link
 Compound Name Brivanib Phase 3 [17]
Synonyms
649735-46-6; BMS-540215; Brivanib (BMS-540215); BMS 540215; UNII-DDU33B674I; Brivanib [USAN]; BMS540215; DDU33B674I; CHEMBL377300; (2R)-1-[4-(4-Fluoro-2-methyl-1H-indol-5-yloxy)-5-methylpyrrolo[2,1-f][1,2,4]triazin-6-yloxy]propanol; Brivanib (USAN); (2R)-1-[4-[(4-FLUORO-2-METHYL-1H-INDOL-5-YL)OXY]-5-METHYL-PYRROLO[2,1-F][1,2,4]TRIAZIN-6-YL]OXYPROPAN-2-OL; (2R)-1-({4-[(4-fluoro-2-methyl-1H-indol-5-yl)oxy]-5-methylpyrrolo[2,1-f][1,2,4]triazin-6-yl}oxy)propan-2-ol
    Click to Show/Hide
External Link
 Compound Name JX-594 Phase 3 [18]
Synonyms
Pexastimogene devacirepvec
    Click to Show/Hide
External Link
 Compound Name ABH001 Phase 3 [19]
External Link
 Compound Name MTC-DOX Phase 2/3 [20]
Synonyms
MTC-doxorubicin
    Click to Show/Hide
External Link
 Compound Name KD018 Phase 2 [21]
External Link
 Compound Name Doxorubicin-eluting beads Phase 2 [22]
Synonyms
DC Bead (TN)
    Click to Show/Hide
External Link
 Compound Name 32-P BioSilicon Phase 2 [23]
Synonyms
BrachySil
    Click to Show/Hide
External Link
 Compound Name Cixutumumab Phase 2 [24]
Synonyms
LY3012217
    Click to Show/Hide
External Link
 Compound Name [131I]-Metuximab Phase 2 [25]
External Link
 Compound Name Darinaparsin Phase 2 [26]
Synonyms
ZIO-101
    Click to Show/Hide
External Link
 Compound Name Tigatuzumab Phase 2 [27]
External Link
 Compound Name CMC-001 Phase 2 [28]
Synonyms
Manganese-based MRI contrast agent (liver tumor imaging), CMC Contrast
    Click to Show/Hide
External Link
 Compound Name OBP-301 Phase 1/2 [29]
External Link
 Compound Name MBO7133 Phase 1/2 [30]
External Link
 Compound Name INCB62079 Phase 1/2 [16]
External Link
 Compound Name NV-1020 Phase 1/2 [31]
External Link
 Compound Name DCVax-Liver Phase 1/2 [32]
Synonyms
Dendritic cell-based immunotherapy (liver cancer), Northwest Biotherapeutics
    Click to Show/Hide
External Link
 Compound Name SRF388 Phase 1 [33]
External Link
 Compound Name ET140202 Phase 1 [34]
External Link
 Compound Name ADP-A2AFP Phase 1 [35]
External Link
 Compound Name SM04755 Phase 1 [36]
External Link
 Compound Name Anti-CEA CAR-T therapy Phase 1 [16]
External Link
 Compound Name PI-166 Phase 1 [37]
External Link
 Compound Name CRS-100 Phase 1 [38]
External Link
 Compound Name Autologous ET1402L1-CART cells Phase 1 [39]
External Link
 Compound Name Anti-CD133-CAR vector-transduced T cells Phase 1 [40]
External Link
 Compound Name MRX34 Phase 1 [41]
External Link
 Compound Name ALN-VSP Phase 1 [42]
External Link
 Compound Name EPCAM-targeted CAR-T cells Clinical trial [43]
External Link
 Compound Name ADI Discontinued in Phase 3 [44]
Synonyms
Arginine deiminase
    Click to Show/Hide
External Link
 Compound Name GN-1140 Discontinued in Phase 2 [45]
External Link
 Compound Name OGT-719 Discontinued in Phase 2 [46]
Synonyms
OGS-719
    Click to Show/Hide
External Link
 Compound Name AFP-Scan Discontinued in Phase 2 [47]
External Link
 Compound Name SR1078 Preclinical [48]
Synonyms
1246525-60-9; SR 1078; SR-1078; N-[4-(1,1,1,3,3,3-hexafluoro-2-hydroxypropan-2-yl)phenyl]-4-(trifluoromethyl)benzamide; CHEMBL3094387; N-(4-(1,1,1,3,3,3-hexafluoro-2-hydroxypropan-2-yl)phenyl)-4-(trifluoromethyl)benzamide; N-[4-[2,2,2-Trifluoro-1-hydroxy-1-(trifluoromethyl)ethyl]phenyl]-4-(trifluoromethyl)benzamide; SCHEMBL4880524; C17H10F9NO2; DTXSID30591895; BCP09203; EX-A2215; 4063AH; BDBM50444350; s5775; ZINC98052696; AKOS024458390; CS-1045; NCGC00379222-02; AK547149; AS-55921; HY-14422; W-5797; SR-03000001078; SR-03000001078-1; SR-03000001078-2
    Click to Show/Hide
External Link
 Compound Name Occlusin Preclinical [49]
Synonyms
Occlusin 50 Injection; Occlusin 500 injection
    Click to Show/Hide
External Link
 Compound Name HRC-201 Terminated [50]
Synonyms
Hemoglobin-imaging conjugate (HepSelect), Hemosol
    Click to Show/Hide
External Link
 Compound Name 1,2,3,4,5,6-hexabromocyclohexane Investigative [51]
Synonyms
1837-91-8; Benzene hexabromide; Cyclohexane, 1,2,3,4,5,6-hexabromo-; Hexabromocyclohexane; JAK2 Inhibitor II; ACMC-1BQJT; SCHEMBL459442; trans-alpha-Benzene hexabromide; CHEMBL444236; DTXSID4052687; CHEBI:93940; NSC7908; HMS3268H22; HMS3413C10; HMS3677C10; NSC-7908; ZINC1586309; ANW-23174; MFCD00059127; s5902; Cyclohexane,2,3,4,5,6-hexabromo-; AKOS015836040; 1,2,3,4,5,6-Hexabromo-cyclohexane; 1,2,3,4,5,6-Hexabromocyclohexane #; NCGC00092358-01; NCGC00092358-02; 1,2,3,4,5,6-hexakis(bromanyl)cyclohexane; A4510; FT-0633875; JAK2 Inhibitor II - CAS 1837-91-8; 1,2,3,4,5,6-Hexabromocyclohexane;NSC7908; A812818; 1,2,3,4,5,6-Hexabrom-cyclohexan (I(2)-Form); J-011778; 1,2,3,4,5,6-Hexabromocyclohexane, >=98% (HPLC); BRD-K06817181-001-01-5; Q27165694
    Click to Show/Hide
External Link
 Compound Name STP-322 Investigative [52]
Synonyms
Multi-targeted siRNA therapeutic cocktail (nanoparticle, liver tumor), Sirnaomics
    Click to Show/Hide
External Link
 Compound Name AMB-8LK Investigative [52]
Synonyms
Cancer therapy (monoclonal antibody), MAT Biopharma; Y90 anti-ferritin monoclonal antibody (cancer), MAT Biopharma; Yttrium-90 anti-ferritin mAb (cancer), MAT Biopharma; Yttrium-90 anti-ferritin mAb (Hodgkin's disease/pancreatic/liver cancer), MAT Biopharma; 90Y-AMB8LK mAb (cancer), MAT Biopharma; 90Y-AMB8LK monoclonal antibody (cancer), MAT Biopharma; 90Y-labelled anti-ferritin monoclonal antibody (cancer), MAT Biopharma
    Click to Show/Hide
External Link
 Compound Name MiR-34a mimics Investigative [52]
Synonyms
MiR-34a mimics (liver cancer)
    Click to Show/Hide
External Link
 Compound Name P53 fusion protein Investigative [52]
Synonyms
P53 fusion protein (pancreatic/liver cancer)
    Click to Show/Hide
External Link
 Compound Name OP-05 Investigative [52]
Synonyms
OP-05 program (prodrug, liver tumor); OP-05 program (prodrug, liver tumor), Onco-Pharmakon
    Click to Show/Hide
External Link
 Compound Name GR-DD1 Investigative [52]
Synonyms
Cytotoxin (hepatic metastasis), ERYtech
    Click to Show/Hide
External Link
References
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