Endoderm differentiation (Homo sapiens)

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NucleusSTAT1NANOGCDYLSFMBT1UBR5SOX21C1QBPBTAF1ZIC3PTHLHEPB41L5LAMC1PRDM14SMAD3NME1RTF1RFX7TGFB1NODALRARGBPTFTRIM71SOX17FOXN3GATA4MBTD1HNF1BNAA15PAX9LRPPRCLEO1MBTD1OTX2CTBP2CEBPZDAB2WWC1DNMT3BSFRP1GDF3WDHD1PBX1KDM4ANOTCH1SP4HOXA1EXT1PAF1JARID2PABPC1EOMESPOU5F1ONECUT1TCF7L1FOXA1NKX2-1CTNNB1TCF7MIXL1CTBP2ZNF462CTR9TAF4BDUSP5SMAD4ZFHX4TAF5WNT8AELAVL1MAD2L2CER1FOXA2FOXO1MTF2DKK1ZIC5PAX3APPAEBP2FOXN3TNRC6CBMPR1ATBX21SMAD2NCAPG2CAND1AEBP2BMP7WWC1SOX2ASCC3AEBP2NOGZBTB17DUSP4CDC73ZNF281LEF1HOXC11GRHL2TCEAL2HHEXSP4GATA6RARGJARID2TET1GLI2LHX1MIR653ELK4DIP2APIAS1CRTC1AHDC1PBX3NLKBCORL1ZFHX4PLCH1WDFY2RARGPARP8WDFY2GRHL2SESN1RGS10CUL4BDDAH1SESN1ASCC3ZNF462NABP2PBX1ELP4SCHIP1PLCH1PARP8TRIM5CEP250PHF6ZNF462HPRT1MBTD1PBX1TCF4TOX3SLC2A12ACACAC11orf30C11orf30TOXTRERF1ATP8B2HPRT1TRERF1VAV3TCF4MIR653 Targets(Induced in Ectoderm)MIR653 Targets(Induced in Stem Cells)MIR373 Targets(Induced in Stem Cells)MIR373 Targets(Induced in Ectoderm)MIR375 Targets(Induced in Ectoderm)MIR375 Targets(Induced in Stem Cells)MIR373MIR375MIR141 Targets(Induced in Stem Cells)MIR141MIR132 Targets(Induced in Stem Cells)MIR132MIR132 Targets(Induced in Ectoderm)NR3C1DUSP2EZH21FOXH1SIAH24RAB389APC7SOX75MAP2K336WNT3


Description

Model depicting endoderm specification based on the literature and highly enriched gene expression profiles via comparison across dozens of independent induced and embryonic pluripotent stem cell lines, following differentiation to multiple lineages (ectoderm, mesoderm, endoderm, embryoid body). The underlying genomic data can be obtained from: https://www.synapse.org/#!Synapse:syn1773109

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Quality Tags

Ontology Terms

 

Bibliography

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  1. Chappell, Sun, Singh, Dalton; ''MYC/MAX control ERK signaling and pluripotency by regulation of dual-specificity phosphatases 2 and 7''; Genes Dev, 2013 PubMed Europe PMC Scholia
  2. Tsuneyoshi, Tan, Poobalan, Sumi, Nakatsuji, Suemori, Dunn; ''The SMAD2/3 corepressor SNON maintains pluripotency through selective repression of mesendodermal genes in human ES cells.''; Genes Dev., 2012 PubMed Europe PMC Scholia
  3. Sui, Mfopou, Geens, Sermon, Bouwens; ''FGF signaling via MAPK is required early and improves Activin A-induced definitive endoderm formation from human embryonic stem cells.''; Biochem Biophys Res Commun., 2012 PubMed Europe PMC Scholia
  4. Kim, Yoon, Chuong, Oyolu, Wills, Gupta, Baker; ''Chromatin and transcriptional signatures for Nodal signaling during endoderm formation in hESCs''; Developmental Biology, 2011 PubMed Europe PMC Scholia
  5. Futaki, Hayashi, Emoto, Weber, Sekiguchi; ''Sox7 plays crucial roles in parietal endoderm differentiation in F9 embryonal carcinoma cells through regulating Gata-4 and Gata-6 expression.''; Mol Cell Biol., 2004 PubMed Europe PMC Scholia
  6. Lewis SL, Khoo PL, De Young RA, Steiner K, Wilcock C, Mukhopadhyay M, Westphal H, Jamieson RV, Robb L, Tam PP; ''Dkk1 and Wnt3 interact to control head morphogenesis in the mouse.''; Development, 2008 PubMed Europe PMC Scholia
  7. Putzke, Rothman; ''Repression of Wnt signaling by a Fer-type nonreceptor tyrosine kinase.''; Proc Natl Acad Sci USA, 2010 PubMed Europe PMC Scholia
  8. Bourillot, Aksoy, Schreiber, Wianny, Schulz, Hummel, Hubner, Savatier; ''Novel STAT3 target genes exert distinct roles in the inhibition of mesoderm and endoderm differentiation in cooperation with Nanog.''; Stem Cells, 2009 PubMed Europe PMC Scholia
  9. Kang, Won, Rhee, Ro; ''Siah ubiquitin ligases modulate nodal signaling during zebrafish embryonic development.''; Molecules and Cells, 2014 PubMed Europe PMC Scholia

History

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CompareRevisionActionTimeUserComment
116557view12:54, 7 May 2021EweitzModified title
106401view21:32, 28 August 2019KhanspersModified description
105583view04:42, 10 August 2019KhanspersModified description
88152view11:40, 27 July 2016Mkutmonfix invalid uniprot identifiers
88151view11:37, 27 July 2016Mkutmonfix invalid uniprot identifiers
87981view13:20, 25 July 2016SusanOntology Term : 'regulatory pathway' added !
83014view12:38, 17 November 2015FehrhartUpdate of outdated identifiers
80410view23:41, 17 June 2015AlexanderPicoAdded Type information to deficient datanodes
80092view19:38, 6 May 2015Khanspersupdated color for miRNA nodes
79852view03:39, 20 April 2015NsalomonisModified description
79785view15:48, 16 April 2015Mkutmonfixed unconnected line
78496view10:28, 7 January 2015MaintBotadded missing graphIds
77746view20:53, 16 October 2014EgonwFixed two PubMed identifiers.
77718view21:56, 15 October 2014NsalomonisSpecify description
77699view18:17, 10 October 2014NsalomonisSpecify description
77689view18:26, 8 October 2014NsalomonisSpecify description
77683view19:41, 7 October 2014NsalomonisSpecify description
77680view18:26, 7 October 2014NsalomonisNew pathway

External references

DataNodes

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NameTypeDatabase referenceComment
ACACAGeneProductACACA (Uniprot-TrEMBL)
AEBP2GeneProductAEBP2 (Uniprot-TrEMBL)
AHDC1GeneProductAHDC1 (Uniprot-TrEMBL)
APCGeneProductENSG00000134982 (Ensembl)
APPGeneProductENSG00000142192 (Ensembl)
ASCC3GeneProductASCC3 (Uniprot-TrEMBL)
ATP8B2GeneProductATP8B2 (Uniprot-TrEMBL)
BCORL1GeneProductBCORL1 (Uniprot-TrEMBL)
BMP7GeneProductENSG00000101144 (Ensembl)
BMPR1AGeneProductENSG00000107779 (Ensembl)
BPTFGeneProductENSG00000171634 (Ensembl)
BTAF1GeneProductBTAF1 (Uniprot-TrEMBL)
C11orf30GeneProductC11orf30 (Uniprot-TrEMBL)
C1QBPGeneProductC1QBP (Uniprot-TrEMBL)
CAND1GeneProductENSG00000111530 (Ensembl)
CDC73GeneProductENSG00000134371 (Ensembl)
CDYLGeneProductCDYL (Uniprot-TrEMBL)
CEBPZGeneProductCEBPZ (Uniprot-TrEMBL)
CEP250GeneProductCEP250 (Uniprot-TrEMBL)
CER1GeneProductENSG00000147869 (Ensembl)
CRTC1GeneProductCRTC1 (Uniprot-TrEMBL)
CTBP2GeneProductCTBP2 (Uniprot-TrEMBL)
CTNNB1GeneProductENSG00000168036 (Ensembl)
CTR9GeneProductENSG00000198730 (Ensembl)
CUL4BGeneProductCUL4B (Uniprot-TrEMBL)
DAB2GeneProductENSG00000153071 (Ensembl)
DDAH1GeneProductDDAH1 (Uniprot-TrEMBL)
DIP2AGeneProductDIP2A (Uniprot-TrEMBL)
DKK1GeneProductENSG00000107984 (Ensembl)
DNMT3BGeneProductDNMT3B (Uniprot-TrEMBL)
DUSP2GeneProductENSG00000158050 (Ensembl)
DUSP4GeneProductENSG00000120875 (Ensembl)
DUSP5GeneProductENSG00000138166 (Ensembl)
ELAVL1GeneProductENSG00000066044 (Ensembl)
ELK4GeneProductELK4 (Uniprot-TrEMBL)
ELP4GeneProductELP4 (Uniprot-TrEMBL)
EOMESGeneProductENSG00000163508 (Ensembl)
EPB41L5GeneProductENSG00000115109 (Ensembl)
EXT1GeneProductENSG00000182197 (Ensembl)
EZH2GeneProductENSG00000106462 (Ensembl)
FOXA1GeneProductENSG00000129514 (Ensembl)
FOXA2GeneProductENSG00000125798 (Ensembl)
FOXH1GeneProductENSG00000160973 (Ensembl)
FOXN3GeneProductFOXN3 (Uniprot-TrEMBL)
FOXO1GeneProductFOXO1 (Uniprot-TrEMBL)
GATA4GeneProductENSG00000136574 (Ensembl)
GATA6GeneProductENSG00000141448 (Ensembl)
GDF3GeneProductENSG00000184344 (Ensembl)
GLI2GeneProductGLI2 (Uniprot-TrEMBL)
GRHL2GeneProductGRHL2 (Uniprot-TrEMBL)
HHEXGeneProductENSG00000152804 (Ensembl)
HNF1BGeneProductENSG00000275410 (Ensembl)
HOXA1GeneProductENSG00000105991 (Ensembl)
HOXC11GeneProductENSG00000123388 (Ensembl)
HPRT1GeneProductHPRT1 (Uniprot-TrEMBL)
JARID2GeneProductENSG00000008083 (Ensembl)
JARID2GeneProductJARID2 (Uniprot-TrEMBL)
KDM4AGeneProductKDM4A (Uniprot-TrEMBL)
LAMC1GeneProductENSG00000135862 (Ensembl)
LEF1GeneProductENSG00000138795 (Ensembl)
LEO1GeneProductENSG00000166477 (Ensembl)
LHX1GeneProductENSG00000273706 (Ensembl)
LRPPRCGeneProductLRPPRC (Uniprot-TrEMBL)
MAD2L2GeneProductMAD2L2 (Uniprot-TrEMBL)
MAP2K3GeneProductENSG00000034152 (Ensembl)
MBTD1GeneProductMBTD1 (Uniprot-TrEMBL)
MIR132RnaMIMAT0000426 (miRBase mature sequence)
MIR141GeneProductENSG00000207708 (Ensembl)
MIR373GeneProductENSG00000199143 (Ensembl)
MIR375GeneProductENSG00000198973 (Ensembl)
MIR653GeneProductENSG00000199143 (Ensembl)
MIXL1GeneProductENSG00000185155 (Ensembl)
MTF2GeneProductMTF2 (Uniprot-TrEMBL)
NAA15GeneProductNAA15 (Uniprot-TrEMBL)
NABP2GeneProductNABP2 (Uniprot-TrEMBL)
NANOGGeneProductENSG00000111704 (Ensembl)
NCAPG2GeneProductNCAPG2 (Uniprot-TrEMBL)
NKX2-1GeneProductENSG00000136352 (Ensembl)
NLKGeneProductNLK (Uniprot-TrEMBL)
NME1GeneProductNME1 (Uniprot-TrEMBL)
NODALGeneProductENSG00000156574 (Ensembl)
NOGGeneProductENSG00000183691 (Ensembl)
NOTCH1GeneProductENSG00000148400 (Ensembl)
NR3C1GeneProductENSG00000113580 (Ensembl)
ONECUT1GeneProductENSG00000169856 (Ensembl)
OTX2GeneProductENSG00000165588 (Ensembl)
PABPC1GeneProductENSG00000070756 (Ensembl)
PAF1GeneProductENSG00000006712 (Ensembl)
PARP8GeneProductPARP8 (Uniprot-TrEMBL)
PAX3GeneProductPAX3 (Uniprot-TrEMBL)
PAX9GeneProductENSG00000198807 (Ensembl)
PBX1GeneProductPBX1 (Uniprot-TrEMBL)
PBX3GeneProductPBX3 (Uniprot-TrEMBL)
PHF6GeneProductPHF6 (Uniprot-TrEMBL)
PIAS1GeneProductPIAS1 (Uniprot-TrEMBL)
PLCH1GeneProductPLCH1 (Uniprot-TrEMBL)
POU5F1GeneProductENSG00000204531 (Ensembl)
PRDM14GeneProductENSG00000147596 (Ensembl)
PTHLHGeneProductENSG00000087494 (Ensembl)
RAB38GeneProductENSG00000123892 (Ensembl)
RARGGeneProductRARG (Uniprot-TrEMBL)
RFX7GeneProductRFX7 (Uniprot-TrEMBL)
RGS10GeneProductRGS10 (Uniprot-TrEMBL)
RTF1GeneProductENSG00000137815 (Ensembl)
SCHIP1GeneProductSCHIP1 (Uniprot-TrEMBL)
SESN1GeneProductSESN1 (Uniprot-TrEMBL)
SFMBT1GeneProductSFMBT1 (Uniprot-TrEMBL)
SFRP1GeneProductENSG00000104332 (Ensembl)
SIAH2GeneProductENSG00000181788 (Ensembl)
SLC2A12GeneProductSLC2A12 (Uniprot-TrEMBL)
SMAD2GeneProductENSG00000175387 (Ensembl)
SMAD3GeneProductENSG00000166949 (Ensembl)
SMAD4GeneProductENSG00000141646 (Ensembl)
SOX17GeneProductENSG00000164736 (Ensembl)
SOX21GeneProductSOX21 (Uniprot-TrEMBL)
SOX2GeneProductENSG00000181449 (Ensembl)
SOX7GeneProductENSG00000171056 (Ensembl)
SP4GeneProductSP4 (Uniprot-TrEMBL)
STAT1GeneProductENSG00000115415 (Ensembl)
TAF4BGeneProductTAF4B (Uniprot-TrEMBL)
TAF5GeneProductTAF5 (Uniprot-TrEMBL)
TBX21GeneProductENSG00000073861 (Ensembl)
TCEAL2GeneProductTCEAL2 (Uniprot-TrEMBL)
TCF4GeneProductTCF4 (Uniprot-TrEMBL)
TCF7GeneProductENSG00000081059 (Ensembl)
TCF7L1GeneProductTCF7L1 (Uniprot-TrEMBL)
TET1GeneProductTET1 (Uniprot-TrEMBL)
TGFB1GeneProductENSG00000105329 (Ensembl)
TNRC6CGeneProductENSG00000078687 (Ensembl)
TOX3GeneProductTOX3 (Uniprot-TrEMBL)
TOXGeneProductTOX (Uniprot-TrEMBL)
TRERF1GeneProductTRERF1 (Uniprot-TrEMBL)
TRIM5GeneProductTRIM5 (Uniprot-TrEMBL)
TRIM71GeneProductTRIM71 (Uniprot-TrEMBL)
UBR5GeneProductUBR5 (Uniprot-TrEMBL)
VAV3GeneProductVAV3 (Uniprot-TrEMBL)
WDFY2GeneProductWDFY2 (Uniprot-TrEMBL)
WDHD1GeneProductWDHD1 (Uniprot-TrEMBL)
WNT3GeneProductENSG00000108379 (Ensembl)
WNT8AGeneProductENSG00000061492 (Ensembl)
WWC1GeneProductWWC1 (Uniprot-TrEMBL)
ZBTB17GeneProductZBTB17 (Uniprot-TrEMBL)
ZFHX4GeneProductZFHX4 (Uniprot-TrEMBL)
ZIC3GeneProductZIC3 (Uniprot-TrEMBL)
ZIC5GeneProductZIC5 (Uniprot-TrEMBL)
ZNF281GeneProductZNF281 (Uniprot-TrEMBL)
ZNF462GeneProductZNF462 (Uniprot-TrEMBL)

Annotated Interactions

No annotated interactions

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