Gene regulatory network model for specification of the skeletogenic mesoderm lineage

Gene regulatory network model for specification of the skeletogenic mesoderm lineage. A graphic model representing the GRN involved in skeletogenic micromere specification (see for further details). At the top of the model, known maternal transcription factor inputs initiate specification in the micromeres at the 16-cell stage (shown as red cells in the embryo on the right). These cells activate Pmar1 [a transcription factor, (TF) and an obligate repressor], which then represses another repressor (HesC, TF), thereby activating Alx1 (TF), Ets1 (TF), Tbr (TF) and Delta [a ligand (L) for the Notch signal transduction pathway]. Over time, additional genes are activated as the embryo forms the mesenchyme blastula stage (depicted by the lower embryo on the right), at which point the skeletogenic cells (red) are fully specified and ingress into the blastocoel. Light gray indicates endoderm; dark gray indicates nonskeletogenic mesoderm. Modified, with permission, from E. Davidson (http://sugp.caltech.edu/endomes/). γ(2)α, cis regulatory sites of the Tbr transcription factor (TF); Blimp, TF; cβ, cytoplasmic β-catenin; CyP, a differentiation gene (DG); Dri, TF; ECNS, early cytoplasmic nuclearization system; Erg, TF; ES, early signal; Ets, TF; Fox, TF; GSK-3, enzyme in canonical Wnt signal transduction pathway; Hex, TF; Hnf6, TF; L1, transmembrane co-receptor of VEGFR; Msp, DG; nβ, TF; Nr1, neuralized, a ubiquitin ligase; Nucl., nucleus; Otx, TF; r11pm, cis-regulatory module of Delta signal; Sm, skeletal matrix; SoxC, TF; TCF, TF; Tel, TF; Tgif, TF; Ubiq, ubiquitous TF; VEGFR, VEGF signal transduction receptor; Wnt8, a signal in the Wnt signal transduction pathway.
Gene regulatory network model for specification of the skeletogenic mesoderm lineage

Publication

Evolutionary crossroads in developmental biology: sea urchins. (2011) David R. McClay. Development. 2011 Jul 1;138(13):2639-2648. Figure: F5.

Gene mentions


Organism Group Word Match Source NCBI Symbol NCBI ID
Drosophila melanogaster Invertebrates Es ES ncbigene_symbol es 248552
Drosophila melanogaster Invertebrates cB CB ncbigene_symbol cb 247976
Drosophila melanogaster Invertebrates Mat MAT ncbigene_symbol mat 38107
Drosophila melanogaster Invertebrates Mat MAT ncbigene_synonym Mad 33529
Drosophila melanogaster Invertebrates Otx OTX ncbigene_synonym oc 31802
Drosophila melanogaster Invertebrates frizzled FRIZZLED ncbigene_synonym fz 45307
Drosophila melanogaster Invertebrates Ubiq UBIQ ncbigene_synonym RpL40 33629
Drosophila melanogaster Invertebrates Ubiq UBIQ ncbigene_synonym RpS27A 34420
Drosophila melanogaster Invertebrates Ubiq UBIQ ncbigene_synonym Ubi-p63E 38456
Drosophila melanogaster Invertebrates Ubiq UBIQ ncbigene_synonym Ubi-p5E 326237
Drosophila melanogaster Invertebrates Nucl. NUC1 ncbigene_symbol nuc1 249990
Drosophila melanogaster Invertebrates ActivinB ACTIVINB ncbigene_synonym Actbeta 43826
Drosophila melanogaster Invertebrates la LA ncbigene_symbol La 35305
Drosophila melanogaster Invertebrates Blimp1 BLIMP1 ncbigene_symbol Blimp-1 38638
Drosophila melanogaster Invertebrates SoxC SOXC ncbigene_synonym Sox14 37822
Drosophila melanogaster Invertebrates Gam GAM ncbigene_synonym pygo 43718
Drosophila melanogaster Invertebrates Delta DELTA ncbigene_synonym Dl 42313
Drosophila melanogaster Invertebrates Delta DELTA ncbigene_synonym NA 44819
Drosophila melanogaster Invertebrates Delta DELTA ncbigene_synonym Tapdelta 45680
Drosophila melanogaster Invertebrates Delta DELTA ncbigene_synonym deltaTry 48343
Drosophila melanogaster Invertebrates TBr TBR ncbigene_symbol tbr 252806
Drosophila melanogaster Invertebrates Nrl NR1 ncbigene_synonym Nmdar1 40665
Drosophila melanogaster Invertebrates Tel TEL ncbigene_symbol Tel 5658205
Drosophila melanogaster Invertebrates Tel TEI ncbigene_symbol tei 36521
Drosophila melanogaster Invertebrates Erg ERG ncbigene_synonym sei 37843
Drosophila melanogaster Invertebrates Dri DRI ncbigene_synonym Pka-R1 40305
Drosophila melanogaster Invertebrates Dri DRI ncbigene_synonym retn 45976
Drosophila melanogaster Invertebrates VEGFR VEGFR ncbigene_synonym Pvr 34127
Drosophila melanogaster Invertebrates Msp-L MSPL ncbigene_synonym LanB1 34068
Drosophila melanogaster Invertebrates CyP CYP ncbigene_synonym dib 45282
Homo sapiens Primates Mat MAT ncbigene_synonym ACAT1 38
Homo sapiens Primates Mat MAT ncbigene_synonym MAT1A 4143
Homo sapiens Primates frizzled FZD famplex_relations FZD1 8321
Homo sapiens Primates frizzled FZD famplex_relations FZD10 11211
Homo sapiens Primates frizzled FZD famplex_relations FZD2 2535
Homo sapiens Primates frizzled FZD famplex_relations FZD3 7976
Homo sapiens Primates frizzled FZD famplex_relations FZD4 8322
Homo sapiens Primates frizzled FZD famplex_relations FZD5 7855
Homo sapiens Primates frizzled FZD famplex_relations FZD6 8323
Homo sapiens Primates frizzled FZD famplex_relations FZD7 8324
Homo sapiens Primates frizzled FZD famplex_relations FZD8 8325
Homo sapiens Primates frizzled FZD famplex_relations FZD9 8326
Homo sapiens Primates Nucl. NUC1 ncbigene_synonym PPARD 5467
Homo sapiens Primates ActivinB ACTIVINB famplex_relations INHBB 3625
Homo sapiens Primates Activin ACTIVIN famplex_relations INHBA 3624
Homo sapiens Primates Blimp1 BLIMP1 ncbigene_synonym PRDM1 639
Homo sapiens Primates Gam GAM ncbigene_synonym GLS 2744
Homo sapiens Primates Delta DELTA ncbigene_synonym PSMB6 5694
Homo sapiens Primates Delta DELTA ncbigene_synonym YY1 7528
Homo sapiens Primates Delta DELTA ncbigene_synonym DLL1 28514
Homo sapiens Primates Alx1 ALX1 ncbigene_symbol ALX1 8092
Homo sapiens Primates Nrl NRL ncbigene_symbol NRL 4901
Homo sapiens Primates Nrl NR1 ncbigene_synonym GRIN1 2902
Homo sapiens Primates Nrl NR1 ncbigene_synonym NDOR1 27158
Homo sapiens Primates Tel TEL ncbigene_synonym ETV6 2120
Homo sapiens Primates Erg ERG ncbigene_symbol ERG 2078
Homo sapiens Primates FoxN2/3 FOXN2 ncbigene_symbol FOXN2 3344
Homo sapiens Primates FoxN2/3 FOXN3 ncbigene_symbol FOXN3 1112
Homo sapiens Primates FoxB FOXB famplex_relations FOXB1 27023
Homo sapiens Primates FoxB FOXB famplex_relations FOXB2 442425
Homo sapiens Primates VEGFR VEGFR ncbigene_synonym KDR 3791
Homo sapiens Primates VEGFR VEGFR famplex_relations FLT1 2321
Homo sapiens Primates VEGFR VEGFR famplex_relations FLT4 2324
Homo sapiens Primates Msp-L MSPL ncbigene_synonym TMPRSS13 84000
Homo sapiens Primates CyP CYP ncbigene_synonym PPIG 9360
Homo sapiens Primates CyP CYP famplex_relations CYP17A1 1586
Homo sapiens Primates CyP CYP famplex_relations CYP19A1 1588
Homo sapiens Primates CyP CYP famplex_relations CYP20A1 57404
Homo sapiens Primates CyP CYP famplex_relations CYP21A2 1589
Homo sapiens Primates CyP CYP famplex_relations CYP24A1 1591
Homo sapiens Primates CyP CYP famplex_relations CYP39A1 51302
Homo sapiens Primates CyP CYP famplex_relations TBXAS1 6916
Homo sapiens Primates CyP CYP famplex_relations CYP46A1 10858
Homo sapiens Primates CyP CYP famplex_relations CYP51A1 1595
Homo sapiens Primates CyP CYP famplex_relations CYP1A1 1543
Homo sapiens Primates CyP CYP famplex_relations CYP1A2 1544
Homo sapiens Primates CyP CYP famplex_relations CYP1B1 1545
Homo sapiens Primates CyP CYP famplex_relations CYP11A1 1583
Homo sapiens Primates CyP CYP famplex_relations CYP11B1 1584
Homo sapiens Primates CyP CYP famplex_relations CYP11B2 1585
Homo sapiens Primates CyP CYP famplex_relations CYP2A13 1553
Homo sapiens Primates CyP CYP famplex_relations CYP2A6 1548
Homo sapiens Primates CyP CYP famplex_relations CYP2A7 1549
Homo sapiens Primates CyP CYP famplex_relations CYP2B6 1555
Homo sapiens Primates CyP CYP famplex_relations CYP2C18 1562
Homo sapiens Primates CyP CYP famplex_relations CYP2C19 1557
Homo sapiens Primates CyP CYP famplex_relations CYP2C8 1558
Homo sapiens Primates CyP CYP famplex_relations CYP2C9 1559
Homo sapiens Primates CyP CYP famplex_relations CYP2D6 1565
Homo sapiens Primates CyP CYP famplex_relations CYP2D7 1564
Homo sapiens Primates CyP CYP famplex_relations CYP2E1 1571
Homo sapiens Primates CyP CYP famplex_relations CYP2F1 1572
Homo sapiens Primates CyP CYP famplex_relations CYP2J2 1573
Homo sapiens Primates CyP CYP famplex_relations CYP2R1 120227
Homo sapiens Primates CyP CYP famplex_relations CYP2S1 29785
Homo sapiens Primates CyP CYP famplex_relations CYP2U1 113612
Homo sapiens Primates CyP CYP famplex_relations CYP2W1 54905
Homo sapiens Primates CyP CYP famplex_relations CYP26A1 1592
Homo sapiens Primates CyP CYP famplex_relations CYP26B1 56603
Homo sapiens Primates CyP CYP famplex_relations CYP26C1 340665
Homo sapiens Primates CyP CYP famplex_relations CYP27A1 1593
Homo sapiens Primates CyP CYP famplex_relations CYP27B1 1594
Homo sapiens Primates CyP CYP famplex_relations CYP27C1 339761
Homo sapiens Primates CyP CYP famplex_relations CYP3A4 1576
Homo sapiens Primates CyP CYP famplex_relations CYP3A43 64816
Homo sapiens Primates CyP CYP famplex_relations CYP3A5 1577
Homo sapiens Primates CyP CYP famplex_relations CYP3A7 1551
Homo sapiens Primates CyP CYP famplex_relations CYP4A11 1579
Homo sapiens Primates CyP CYP famplex_relations CYP4A22 284541
Homo sapiens Primates CyP CYP famplex_relations CYP4B1 1580
Homo sapiens Primates CyP CYP famplex_relations CYP4F11 57834
Homo sapiens Primates CyP CYP famplex_relations CYP4F12 66002
Homo sapiens Primates CyP CYP famplex_relations CYP4F2 8529
Homo sapiens Primates CyP CYP famplex_relations CYP4F22 126410
Homo sapiens Primates CyP CYP famplex_relations CYP4F3 4051
Homo sapiens Primates CyP CYP famplex_relations CYP4F8 11283
Homo sapiens Primates CyP CYP famplex_relations CYP4V2 285440
Homo sapiens Primates CyP CYP famplex_relations CYP4X1 260293
Homo sapiens Primates CyP CYP famplex_relations CYP4Z1 199974
Homo sapiens Primates CyP CYP famplex_relations CYP7A1 1581
Homo sapiens Primates CyP CYP famplex_relations CYP7B1 9420
Homo sapiens Primates CyP CYP famplex_relations CYP8B1 1582
Homo sapiens Primates CyP CYP famplex_relations PTGIS 5740

Chemical mentions

Word Match MeSH Name ChEBI

Disease mentions

Word Match MeSH Name DOID