Gene Expression Literature Summary
| Age | E10 |
| Immunohistochemistry (section) | 4 |
| In situ RNA (section) | 20 |
| Immunohistochemistry (whole mount) | 1 |
| In situ RNA (whole mount) | 53 |
| In situ reporter (knock in) | 1 |
| Western blot | 1 |
| RT-PCR | 6 |
| Shh sonic hedgehog (Synonyms: Hhg1) | |
| Results | Reference |
| 1* | J:170250 Ando T, Semba K, Suda H, Sei A, Mizuta H, Araki M, Abe K, Imai K, Nakagata N, Araki K, Yamamura K, The floor plate is sufficient for development of the sclerotome and spine without the notochord. Mech Dev. 2011 Jan-Feb;128(1-2):129-40 |
| 2* | J:51099 Asakura A, Tapscott SJ, Apoptosis of epaxial myotome in Danforth's short-tail (Sd) mice in somites that form following notochord degeneration. Dev Biol. 1998 Nov 15;203(2):276-89 |
| 1* | J:83881 Bell SM, Schreiner CM, Hess KA, Anderson KP, Scott WJ, Asymmetric limb malformations in a new transgene insertional mutant, footless. Mech Dev. 2003 May;120(5):597-605 |
| 1* | J:49210 Bell SM, Schreiner CM, Scott WJ, The loss of ventral ectoderm identity correlates with the inability to form an AER in the legless hindlimb bud. Mech Dev. 1998 Jun;74(1-2):41-50 |
| 1 | J:188038 Bowers M, Eng L, Lao Z, Turnbull RK, Bao X, Riedel E, Mackem S, Joyner AL, Limb anterior-posterior polarity integrates activator and repressor functions of GLI2 as well as GLI3. Dev Biol. 2012 Oct 1;370(1):110-24 |
| 1 | J:370028 Brooks EC, Han SJY, Bonatto Paese CL, Lewis AA, Aarnio-Peterson M, Brugmann SA, The ciliary protein C2cd3 is required for mandibular musculoskeletal tissue patterning. Differentiation. 2024 Jul-Aug;138:100782 |
| 1* | J:111066 Brown D, Yu BD, Joza N, Benit P, Meneses J, Firpo M, Rustin P, Penninger JM, Martin GR, Loss of Aif function causes cell death in the mouse embryo, but the temporal progression of patterning is normal. Proc Natl Acad Sci U S A. 2006 Jun 27;103(26):9918-23 |
| 1* | J:39658 Buscher D, Bosse B, Heymer J, Ruther U, Evidence for genetic control of Sonic hedgehog by Gli3 in mouse limb development. Mech Dev. 1997 Mar;62(2):175-82 |
| 1 | J:109528 Capellini TD, Di Giacomo G, Salsi V, Brendolan A, Ferretti E, Srivastava D, Zappavigna V, Selleri L, Pbx1/Pbx2 requirement for distal limb patterning is mediated by the hierarchical control of Hox gene spatial distribution and Shh expression. Development. 2006 Jun;133(11):2263-73 |
| 1* | J:245758 Carreno G, Apps JR, Lodge EJ, Panousopoulos L, Haston S, Gonzalez-Meljem JM, Hahn H, Andoniadou CL, Martinez-Barbera JP, Hypothalamic sonic hedgehog is required for cell specification and proliferation of LHX3/LHX4 pituitary embryonic precursors. Development. 2017 Sep 15;144(18):3289-3302 |
| 1* | J:62028 Charite J, McFadden DG, Olson EN, The bHLH transcription factor dHAND controls Sonic hedgehog expression and establishment of the zone of polarizing activity during limb development. Development. 2000 Jun;127(11):2461-70 |
| 2* | J:16386 Echelard Y, Epstein DJ, St-Jacques B, Shen L, Mohler J, McMahon JA, McMahon AP, Sonic hedgehog, a member of a family of putative signaling molecules, is implicated in the regulation of CNS polarity. Cell. 1993 Dec 31;75(7):1417-30 |
| 1 | J:64678 Epstein DJ, Martinu L, Michaud JL, Losos KM, Fan C, Joyner AL, Members of the bHLH-PAS family regulate shh transcription in forebrain regions of the mouse CNS. Development. 2000 Nov;127(21):4701-9 |
| 1* | J:259785 Evangelista M, Lim TY, Lee J, Parker L, Ashique A, Peterson AS, Ye W, Davis DP, de Sauvage FJ, Kinome siRNA screen identifies regulators of ciliogenesis and hedgehog signal transduction. Sci Signal. 2008 Sep 30;1(39):ra7 |
| 1 | J:106158 Furimsky M, Wallace VA, Complementary Gli activity mediates early patterning of the mouse visual system. Dev Dyn. 2006 Mar;235(3):594-605 |
| 1* | J:316178 Gamart J, Barozzi I, Laurent F, Reinhardt R, Martins LR, Oberholzer T, Visel A, Zeller R, Zuniga A, SMAD4 target genes are part of a transcriptional network that integrates the response to BMP and SHH signaling during early limb bud patterning. Development. 2021 Dec 1;148(23):dev200182 |
| 2 | J:51455 Gofflot F, Hall M, Morriss-Kay GM, Genetic patterning of the posterior neuropore region of curly tail mouse embryos: deficiency of Wnt5a expression. Int J Dev Biol. 1998 Jul;42(5):637-44 |
| 2 | J:110708 Guimera J, Vogt Weisenhorn D, Echevarria D, Martinez S, Wurst W, Molecular characterization, structure and developmental expression of Megane bHLH factor. Gene. 2006 Aug 1;377:65-76 |
| 1* | J:92504 Harfe BD, Scherz PJ, Nissim S, Tian H, McMahon AP, Tabin CJ, Evidence for an expansion-based temporal Shh gradient in specifying vertebrate digit identities. Cell. 2004 Aug 20;118(4):517-28 |
| 1* | J:66532 Hecksher-Sorensen J, Sharpe J, 3D confocal reconstruction of gene expression in mouse. Mech Dev. 2001 Jan;100(1):59-63 |
| 1* | J:144057 Hockman D, Cretekos CJ, Mason MK, Behringer RR, Jacobs DS, Illing N, A second wave of Sonic hedgehog expression during the development of the bat limb. Proc Natl Acad Sci U S A. 2008 Nov 4;105(44):16982-7 |
| 1 | J:193728 Hong M, Krauss RS, Cdon mutation and fetal ethanol exposure synergize to produce midline signaling defects and holoprosencephaly spectrum disorders in mice. PLoS Genet. 2012;8(10):e1002999 |
| 1 | J:143538 Hu D, Marcucio RS, Unique organization of the frontonasal ectodermal zone in birds and mammals. Dev Biol. 2009 Jan 1;325(1):200-10 |
| 1* | J:227069 Huang J, Liu Y, Filas B, Gunhaga L, Beebe DC, Negative and positive auto-regulation of BMP expression in early eye development. Dev Biol. 2015 Nov 15;407(2):256-64 |
| 1* | J:126356 Ikeda K, Ookawara S, Sato S, Ando Z, Kageyama R, Kawakami K, Six1 is essential for early neurogenesis in the development of olfactory epithelium. Dev Biol. 2007 Nov 1;311(1):53-68 |
| 1* | J:171052 Itou J, Taniguchi N, Oishi I, Kawakami H, Lotz M, Kawakami Y, HMGB factors are required for posterior digit development through integrating signaling pathway activities. Dev Dyn. 2011 May;240(5):1151-62 |
| 1 | J:232412 Jeon S, Seong RH, Anteroposterior Limb Skeletal Patterning Requires the Bifunctional Action of SWI/SNF Chromatin Remodeling Complex in Hedgehog Pathway. PLoS Genet. 2016 Mar;12(3):e1005915 |
| 1 | J:146200 Joksimovic M, Yun BA, Kittappa R, Anderegg AM, Chang WW, Taketo MM, McKay RD, Awatramani RB, Wnt antagonism of Shh facilitates midbrain floor plate neurogenesis. Nat Neurosci. 2009 Feb;12(2):125-31 |
| 2 | J:326952 Koyano-Nakagawa N, Gong W, Das S, Theisen JWM, Swanholm TB, Van Ly D, Dsouza N, Singh BN, Kawakami H, Young S, Chen KQ, Kawakami Y, Garry DJ, Etv2 regulates enhancer chromatin status to initiate Shh expression in the limb bud. Nat Commun. 2022 Jul 21;13(1):4221 |
| 1 | J:165721 Krawchuk D, Weiner SJ, Chen YT, Lu BC, Costantini F, Behringer RR, Laufer E, Twist1 activity thresholds define multiple functions in limb development. Dev Biol. 2010 Nov 1;347(1):133-46 |
| 1 | J:81797 Lagutin OV, Zhu CC, Kobayashi D, Topczewski J, Shimamura K, Puelles L, Russell HR, McKinnon PJ, Solnica-Krezel L, Oliver G, Six3 repression of Wnt signaling in the anterior neuroectoderm is essential for vertebrate forebrain development. Genes Dev. 2003 Feb 1;17(3):368-79 |
| 1 | J:130851 Lavado A, Lagutin OV, Oliver G, Six3 inactivation causes progressive caudalization and aberrant patterning of the mammalian diencephalon. Development. 2008 Feb;135(3):441-50 |
| 1* | J:71832 Lee CS, Buttitta L, Fan CM, Evidence that the WNT-inducible growth arrest-specific gene 1 encodes an antagonist of sonic hedgehog signaling in the somite. Proc Natl Acad Sci U S A. 2001 Sep 25;98(20):11347-52 |
| 1* | J:66266 Lewandoski M, Sun X, Martin GR, Fgf8 signalling from the AER is essential for normal limb development. Nat Genet. 2000 Dec;26(4):460-3 |
| 2 | J:69771 Lewis PM, Dunn MP, McMahon JA, Logan M, Martin JF, St-Jacques B, McMahon AP, Cholesterol modification of sonic hedgehog is required for long-range signaling activity and effective modulation of signaling by Ptc1. Cell. 2001 Jun 1;105(5):599-612 |
| 1* | J:213418 Li D, Sakuma R, Vakili NA, Mo R, Puviindran V, Deimling S, Zhang X, Hopyan S, Hui CC, Formation of proximal and anterior limb skeleton requires early function of Irx3 and Irx5 and is negatively regulated by Shh signaling. Dev Cell. 2014 Apr 28;29(2):233-40 |
| 1 | J:207959 Li Q, Lewandowski JP, Powell MB, Norrie JL, Cho SH, Vokes SA, A Gli silencer is required for robust repression of gremlin in the vertebrate limb bud. Development. 2014 May;141(9):1906-14 |
| 1* | J:138715 Li WY, Dudas M, Kaartinen V, Signaling through Tgf-beta type I receptor Alk5 is required for upper lip fusion. Mech Dev. 2008 Sep-Oct;125(9-10):874-82 |
| 1 | J:152413 Lin W, Metzakopian E, Mavromatakis YE, Gao N, Balaskas N, Sasaki H, Briscoe J, Whitsett JA, Goulding M, Kaestner KH, Ang SL, Foxa1 and Foxa2 function both upstream of and cooperatively with Lmx1a and Lmx1b in a feedforward loop promoting mesodiencephalic dopaminergic neuron development. Dev Biol. 2009 Sep 15;333(2):386-96 |
| 1 | J:81581 Liu C, Nakamura E, Knezevic V, Hunter S, Thompson K, Mackem S, A role for the mesenchymal T-box gene Brachyury in AER formation during limb development. Development. 2003 Apr;130(7):1327-37 |
| 1 | J:79482 Liu Y, Liu C, Yamada Y, Fan CM, growth arrest specific gene 1 acts as a region-specific mediator of the Fgf10/Fgf8 regulatory loop in the limb. Development. 2002 Nov;129(22):5289-300 |
| 1 | J:213641 Lopez-Rios J, Duchesne A, Speziale D, Andrey G, Peterson KA, Germann P, Unal E, Liu J, Floriot S, Barbey S, Gallard Y, Muller-Gerbl M, Courtney AD, Klopp C, Rodriguez S, Ivanek R, Beisel C, Wicking C, Iber D, Robert B, McMahon AP, Duboule D, Zeller R, Attenuated sensing of SHH by Ptch1 underlies evolution of bovine limbs. Nature. 2014 Jul 3;511(7507):46-51 |
| 1 | J:62027 Martinez Barbera JP, Clements M, Thomas P, Rodriguez T, Meloy D, Kioussis D, Beddington RS, The homeobox gene Hex is required in definitive endodermal tissues for normal forebrain, liver and thyroid formation. Development. 2000 Jun;127(11):2433-45 |
| 1 | J:27442 Masuya H, Sagai T, Wakana S, Moriwaki K, Shiroishi T, A duplicated zone of polarizing activity in polydactylous mouse mutants. Genes Dev. 1995 Jul 1;9(13):1645-53 |
| 1 | J:91163 Mic FA, Sirbu IO, Duester G, Retinoic acid synthesis controlled by Raldh2 is required early for limb bud initiation and then later as a proximodistal signal during apical ectodermal ridge formation. J Biol Chem. 2004 Jun 18;279(25):26698-706 |
| 1 | J:90991 Michos O, Panman L, Vintersten K, Beier K, Zeller R, Zuniga A, Gremlin-mediated BMP antagonism induces the epithelial-mesenchymal feedback signaling controlling metanephric kidney and limb organogenesis. Development. 2004 Jul;131(14):3401-10 |
| 1 | J:90053 Ohazama A, Hu Y, Schmidt-Ullrich R, Cao Y, Scheidereit C, Karin M, Sharpe PT, A dual role for Ikk alpha in tooth development. Dev Cell. 2004 Feb;6(2):219-27 |
| 1 | J:124270 Ono Y, Nakatani T, Sakamoto Y, Mizuhara E, Minaki Y, Kumai M, Hamaguchi A, Nishimura M, Inoue Y, Hayashi H, Takahashi J, Imai T, Differences in neurogenic potential in floor plate cells along an anteroposterior location: midbrain dopaminergic neurons originate from mesencephalic floor plate cells. Development. 2007 Sep;134(17):3213-25 |
| 1 | J:263215 Osterwalder M, Speziale D, Shoukry M, Mohan R, Ivanek R, Kohler M, Beisel C, Wen X, Scales SJ, Christoffels VM, Visel A, Lopez-Rios J, Zeller R, HAND2 targets define a network of transcriptional regulators that compartmentalize the early limb bud mesenchyme. Dev Cell. 2014 Nov 10;31(3):345-357 |
| 1* | J:163300 Paiva KB, Silva-Valenzuela MG, Massironi SM, Ko GM, Siqueira FM, Nunes FD, Differential Shh, Bmp and Wnt gene expressions during craniofacial development in mice. Acta Histochem. 2010 Sep;112(5):508-17 |
| 1* | J:39659 Platt KA, Michaud J, Joyner AL, Expression of the mouse Gli and Ptc genes is adjacent to embryonic sources of hedgehog signals suggesting a conservation of pathways between flies and mice. Mech Dev. 1997 Mar;62(2):121-35 |
| 1* | J:98850 Prescott K, Ivins S, Hubank M, Lindsay E, Baldini A, Scambler P, Microarray analysis of the Df1 mouse model of the 22q11 deletion syndrome. Hum Genet. 2005 May;116(6):486-96 |
| 1 | J:171448 Probst S, Kraemer C, Demougin P, Sheth R, Martin GR, Shiratori H, Hamada H, Iber D, Zeller R, Zuniga A, SHH propagates distal limb bud development by enhancing CYP26B1-mediated retinoic acid clearance via AER-FGF signalling. Development. 2011 May;138(10):1913-23 |
| 1 | J:202606 Sato H, Hajduk P, Furuta S, Wakisaka M, Murphy P, Puri P, Kitagawa H, Effect of abnormal notochord delamination on hindgut development in the Adriamycin mouse model. Pediatr Surg Int. 2013 Nov;29(11):1209-16 |
| 2* | J:130321 Sato H, Murphy P, Giles S, Bannigan J, Takayasu H, Puri P, Visualizing expression patterns of Shh and Foxf1 genes in the foregut and lung buds by optical projection tomography. Pediatr Surg Int. 2008 Jan;24(1):3-11 |
| 1* | J:31212 Shimamura K, Hartigan DJ, Martinez S, Puelles L, Rubenstein JL, Longitudinal organization of the anterior neural plate and neural tube. Development. 1995 Dec;121(12):3923-33 |
| 1 | J:243907 Snouffer A, Brown D, Lee H, Walsh J, Lupu F, Norman R, Lechtreck K, Ko HW, Eggenschwiler J, Cell Cycle-Related Kinase (CCRK) regulates ciliogenesis and Hedgehog signaling in mice. PLoS Genet. 2017 Aug;13(8):e1006912 |
| 1 | J:350460 Soussi G, Girdziusaite A, Jhanwar S, Palacio V, Notaro M, Sheth R, Zeller R, Zuniga A, TBX3 is essential for establishment of the posterior boundary of anterior genes and upregulation of posterior genes together with HAND2 during the onset of limb bud development. Development. 2024 Jun 1;151(11) |
| 1 | J:108506 Storm EE, Garel S, Borello U, Hebert JM, Martinez S, McConnell SK, Martin GR, Rubenstein JL, Dose-dependent functions of Fgf8 in regulating telencephalic patterning centers. Development. 2006 May;133(9):1831-44 |
| 1 | J:237498 Symmons O, Pan L, Remeseiro S, Aktas T, Klein F, Huber W, Spitz F, The Shh Topological Domain Facilitates the Action of Remote Enhancers by Reducing the Effects of Genomic Distances. Dev Cell. 2016 Dec 05;39(5):529-543 |
| 1 | J:145945 Szabo NE, Zhao T, Zhou X, Alvarez-Bolado G, The role of Sonic hedgehog of neural origin in thalamic differentiation in the mouse. J Neurosci. 2009 Feb 25;29(8):2453-66 |
| 1 | J:157263 Talamillo A, Delgado I, Nakamura T, de-Vega S, Yoshitomi Y, Unda F, Birchmeier W, Yamada Y, Ros MA, Role of Epiprofin, a zinc-finger transcription factor, in limb development. Dev Biol. 2010 Jan 15;337(2):363-74 |
| 1 | J:114566 Tarchini B, Duboule D, Kmita M, Regulatory constraints in the evolution of the tetrapod limb anterior-posterior polarity. Nature. 2006 Oct 26;443(7114):985-8 |
| 1* | J:71035 ten Berge D, Brouwer A, Korving J, Reijnen MJ, van Raaij EJ, Verbeek F, Gaffield W, Meijlink F, Prx1 and Prx2 are upstream regulators of sonic hedgehog and control cell proliferation during mandibular arch morphogenesis. Development. 2001 Aug;128(15):2929-38 |
| 1 | J:89466 Ueta E, Maekawa M, Morimoto I, Nanba E, Naruse I, Sonic hedgehog expression in Gli3 depressed mouse embryo, Pdn/Pdn. Congenit Anom (Kyoto). 2004 Mar;44(1):27-32 |
| 1 | J:112886 Williams ME, Lehoczky JA, Innis JW, A group 13 homeodomain is neither necessary nor sufficient for posterior prevalence in the mouse limb. Dev Biol. 2006 Sep 15;297(2):493-507 |
| 1* | J:132031 Wong RL, Wlodarczyk BJ, Min KS, Scott ML, Kartiko S, Yu W, Merriweather MY, Vogel P, Zambrowicz BP, Finnell RH, Mouse Fkbp8 activity is required to inhibit cell death and establish dorso-ventral patterning in the posterior neural tube. Hum Mol Genet. 2008 Feb 15;17(4):587-601 |
| 1* | J:185554 Wu CI, Hoffman JA, Shy BR, Ford EM, Fuchs E, Nguyen H, Merrill BJ, Function of Wnt/beta-catenin in counteracting Tcf3 repression through the Tcf3-beta-catenin interaction. Development. 2012 Jun;139(12):2118-29 |
| 1 | J:46380 Xu X, Weinstein M, Li C, Naski M, Cohen RI, Ornitz DM, Leder P, Deng C, Fibroblast growth factor receptor 2 (FGFR2)-mediated reciprocal regulation loop between FGF8 and FGF10 is essential for limb induction. Development. 1998 Feb;125(4):753-65 |
| 2* | J:75942 Ybot-Gonzalez P, Cogram P, Gerrelli D, Copp AJ, Sonic hedgehog and the molecular regulation of mouse neural tube closure. Development. 2002 May;129(10):2507-17 |
| 1* | J:327901 Ye Q, Bhojwani A, Hu JK, Understanding the development of oral epithelial organs through single cell transcriptomic analysis. Development. 2022 Aug 15;149(16):dev200539 |
| 1 | J:91567 Zakany J, Kmita M, Duboule D, A dual role for Hox genes in limb anterior-posterior asymmetry. Science. 2004 Jun 11;304(5677):1669-72 |
| 1 | J:122561 Zakany J, Zacchetti G, Duboule D, Interactions between HOXD and Gli3 genes control the limb apical ectodermal ridge via Fgf10. Dev Biol. 2007 Jun 15;306(2):883-93 |
| 3 | J:321170 Zhang R, Lee C, Lawson LY, Svete LJ, McIntyre LM, Harfe BD, SHH Protein Variance in the Limb Bud Is Constrained by Feedback Regulation and Correlates with Altered Digit Patterning. G3 (Bethesda). 2017 Mar 10;7(3):851-858 |
| 1 | J:219584 Zhulyn O, Hui CC, Sufu and Kif7 in limb patterning and development. Dev Dyn. 2015 Mar;244(3):468-78 |
| 1 | J:213417 Zhulyn O, Li D, Deimling S, Vakili NA, Mo R, Puviindran V, Chen MH, Chuang PT, Hopyan S, Hui CC, A switch from low to high Shh activity regulates establishment of limb progenitors and signaling centers. Dev Cell. 2014 Apr 28;29(2):241-9 |
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO) |
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last database update 05/19/2026 MGI 6.24 |
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