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Gene Expression Literature Summary
Symbol
Name
ID
Hoxd4
homeobox D4
MGI:96208

82 matching records from 82 references.

Summary by Age and Assay: Numbers in the table indicate the number of results matching the search criteria.
Age E0.5 E1 E2 E2.5 E3 E3.5 E7.5 E8 E8.5 E9 E9.5 E10 E10.5 E11 E11.5 E12 E12.5 E13 E13.5 E14 E14.5 E15 E15.5 E16 E16.5 E17 E17.5 E18 E18.5 E19.5 E A
In situ protein (section) 1
In situ RNA (section) 2 1 5 2 3 5 15 3 5 4 2 1 4
In situ RNA (whole mount) 1 4 7 2 20 3 12 2 9 1 5 1 1 2 1 2
Northern blot 1 1 1 1 1 1
Western blot 1 1
RT-PCR 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 1 4
cDNA clones 1 1 1
RNase protection 1 2 1 1 1 1 1
Nuclease S1 1 1 1 1

Summary by Gene and Reference: Number indicates the number of results matching the search criteria recorded for each reference.
* Indicates detailed expression data entries available
Hoxd4  homeobox D4   (Synonyms: Hox-4.2, Hox-5.1)
Results  Reference
1*J:33159 Akasaka T, Kanno M, Balling R, Mieza MA, Taniguchi M, Koseki H, A role for mel-18, a Polycomb group-related vertebrate gene, during the anteroposterior specification of the axial skeleton. Development. 1996 MAY;122(5):1513-1522
1*J:68216 Akasaka T, van Lohuizen M, van der Lugt N, Mizutani-Koseki Y, Kanno M, Taniguchi M, Vidal M, Alkema M, Berns A, Koseki H, Mice doubly deficient for the Polycomb Group genes Mel18 and Bmi1 reveal synergy and requirement for maintenance but not initiation of Hox gene expression. Development. 2001 May;128(9):1587-97
1*J:73281 Allan D, Houle M, Bouchard N, Meyer BI, Gruss P, Lohnes D, RARgamma and Cdx1 Interactions in Vertebral Patterning. Dev Biol. 2001 Dec 1;240(1):46-60
1*J:50401 Bel S, Core N, Djabali M, Kieboom K, Van der Lugt N, Alkema MJ , Van Lohuizen M, Genetic interactions and dosage effects of Polycomb group genes in mice. Development. 1998 Sep;125(18):3543-51
2*J:64019 Bel-Vialar S, Core N, Terranova R, Goudot V, Boned A, Djabali M, Altered retinoic acid sensitivity and temporal expression of Hox genes in polycomb-M33-deficient mice. Dev Biol. 2000 Aug 15;224(2):238-49
1*J:34198 Boulet AM, Capecchi MR, Targeted disruption of hoxc-4 causes esophageal defects and vertebral transformations. Dev Biol. 1996 Jul 10;177(1):232-49
2J:139339 Chawengsaksophak K, de Graaff W, Rossant J, Deschamps J, Beck F, Cdx2 is essential for axial elongation in mouse development. Proc Natl Acad Sci U S A. 2004 May 18;101(20):7641-5
4J:119560 Choi MY, Romer AI, Hu M, Lepourcelet M, Mechoor A, Yesilaltay A, Krieger M, Gray PA, Shivdasani RA, A dynamic expression survey identifies transcription factors relevant in mouse digestive tract development. Development. 2006 Oct;133(20):4119-29
2*J:168654 Chung YC, Tsai YJ, Shiu TY, Sun YY, Wang PF, Chen CL, Screening large numbers of expression patterns of transcription factors in late stages of the mouse thymus. Gene Expr Patterns. 2011 Jan-Feb;11(1-2):84-92
1J:79367 Collins EC, Appert A, Ariza-McNaughton L, Pannell R, Yamada Y, Rabbitts TH, Mouse Af9 Is a Controller of Embryo Patterning, Like Mll, Whose Human Homologue Fuses with AF9 after Chromosomal Translocation in Leukemia. Mol Cell Biol. 2002 Oct;22(20):7313-24
1*J:38487 Core N, Bel S, Gaunt SJ, Aurrand-Lions M, Pearce J, Fisher A, Djabali M, Altered cellular proliferation and mesoderm patterning in Polycomb-M33-deficient mice. Development. 1997 Feb;124(3):721-9
1J:124124 Core N, Caubit X, Metchat A, Boned A, Djabali M, Fasano L, Tshz1 is required for axial skeleton, soft palate and middle ear development in mice. Dev Biol. 2007 Aug 15;308(2):407-20
4*J:14757 Detmer K, Lawrence HJ, Largman C, Expression of class I homeobox genes in fetal and adult murine skin. J Invest Dermatol. 1993 Oct;101(4):517-22
1*J:153498 Diez-Roux G, Banfi S, Sultan M, Geffers L, Anand S, Rozado D, Magen A, Canidio E, Pagani M, Peluso I, Lin-Marq N, Koch M, Bilio M, Cantiello I, Verde R, De Masi C, Bianchi SA, Cicchini J, Perroud E, Mehmeti S, Dagand E, Schrinner S, Nurnberger A, SchmidtK, Metz K, Zwingmann C, Brieske N, Springer C, Hernandez AM, Herzog S, Grabbe F, Sieverding C, Fischer B, Schrader K, Brockmeyer M, Dettmer S, Helbig C, Alunni V, Battaini MA, Mura C, Henrichsen CN, Garcia-Lopez R, Echevarria D, Puelles E, et al., A high-resolution anatomical atlas of the transcriptome in the mouse embryo. PLoS Biol. 2011;9(1):e1000582
1*J:1778 Dolle P, Izpisua-Belmonte JC, Boncinelli E, Duboule D, The Hox-4.8 gene is localized at the 5' extremity of the Hox-4 complex and is expressed in the most posterior parts of the body during development. Mech Dev. 1991 Dec;36(1-2):3-13
5J:37004 Dolle P, Izpisua-Belmonte JC, Brown JM, Tickle C, Duboule D, HOX-4 genes and the morphogenesis of mammalian genitalia. Genes Dev. 1991 Oct;5(10):1767-7
6*J:21265 Dolle P, Izpisua-Belmonte JC, Falkenstein H, Renucci A, Duboule D, Coordinate expression of the murine Hox-5 complex homoeobox-containing genes during limb pattern formation. Nature. 1989 Dec 14;342(6251):767-72
3J:15802 Duboule D, The function of Hox genes in the morphogenesis of the vertebrate limb. Ann Genet. 1993;36(1):24-9
1*J:41551 Dupe V, Ghyselinck NB, Wendling O, Chambon P, Mark M, Key roles of retinoic acid receptors alpha and beta in the patterning of the caudal hindbrain, pharyngeal arches and otocyst in the mouse. Development. 1999 Nov;126(22):5051-9
8*J:9241 Featherstone MS, Baron A, Gaunt SJ, Mattei MG, Duboule D, Hox-5.1 defines a homeobox-containing gene locus on mouse chromosome 2. Proc Natl Acad Sci U S A. 1988 Jul;85(13):4760-4
5J:44065 Folberg A, Kovacs EN, Featherstone MS, Characterization and retinoic acid responsiveness of the murine Hoxd4 transcription unit. J Biol Chem. 1997 Nov 14;272(46):29151-7
2*J:58620 Folberg A, Kovacs EN, Huang H, Houle M, Lohnes D, Featherstone MS, Hoxd4 and rarg interact synergistically in the specification of the cervical vertebrae. Mech Dev. 1999 Dec;89(1-2):65-74
1J:55390 Folberg A, Nagy Kovacs E, Luo J, Giguere V, Featherstone MS, RARbeta mediates the response of Hoxd4 and Hoxb4 to exogenous retinoic acid. Dev Dyn. 1999 Jun;215(2):96-107
3*J:46439 Freeman TC, Dixon AK, Campbell EA, Tait TM, Richardson PJ, Rice KM, Maslen GL, Metcalfe AD, Streuli CH, Bentley DR, Expression Mapping of Mouse Genes. MGI Direct Data Submission. 1998;
4*J:66343 Gaunt SJ, Krumlauf R, Duboule D, Mouse homeo-genes within a subfamily, Hox-1.4, -2.6 and -5.1, display similar anteroposterior domains of expression in the embryo, but show stage- and tissue-dependent differences in their regulation. Development. 1989 Sep;107(1):131-41
1*J:3103 Geada AM, Gaunt SJ, Azzawi M, Shimeld SM, Pearce J, Sharpe PT, Sequence and embryonic expression of the murine Hox-3.5 gene. Development. 1992 Oct;116(2):497-506
1J:139385 Geisen MJ, Di Meglio T, Pasqualetti M, Ducret S, Brunet JF, Chedotal A, Rijli FM, Hox paralog group 2 genes control the migration of mouse pontine neurons through slit-robo signaling. PLoS Biol. 2008 Jun 10;6(6):e142
3*J:91257 Gray PA, Fu H, Luo P, Zhao Q, Yu J, Ferrari A, Tenzen T, Yuk DI, Tsung EF, Cai Z, Alberta JA, Cheng LP, Liu Y, Stenman JM, Valerius MT, Billings N, Kim HA, Greenberg ME, McMahon AP, Rowitch DH, Stiles CD, Ma Q, Mouse Brain Organization Revealed Through Direct Genome-Scale TF Expression Analysis. Science. 2004 Dec 24;306(5705):2255-2257
5*J:149067 Grier DG, Thompson A, Lappin TR, Halliday HL, Quantification of Hox and Surfactant Protein-B Transcription during Murine Lung Development. Neonatology. 2009 Feb 10;96(1):50-60
1*J:171409 GUDMAP Consortium, GUDMAP: the GenitoUrinary Development Molecular Anatomy Project. http://www.gudmap.org. 2004;
1J:105259 Guris DL, Duester G, Papaioannou VE, Imamoto A, Dose-dependent interaction of Tbx1 and Crkl and locally aberrant RA signaling in a model of del22q11 syndrome. Dev Cell. 2006 Jan;10(1):81-92
1*J:109593 Heanue TA, Pachnis V, Expression profiling the developing mammalian enteric nervous system identifies marker and candidate Hirschsprung disease genes. Proc Natl Acad Sci U S A. 2006 May 2;103(18):6919-24
2*J:25267 Horan GS, Kovacs EN, Behringer RR, Featherstone MS, Mutations in paralogous hox genes result in overlapping homeotic transformations of the axial skeleton: evidence for unique and redundant function. Dev Biol. 1995 MAY;169(1):359-372
1J:86514 Houle M, Sylvestre JR, Lohnes D, Retinoic acid regulates a subset of Cdx1 function in vivo. Development. 2003 Dec;130(26):6555-67
1J:621 Hunt P, Gulisano M, Cook M, Sham MH, Faiella A, Wilkinson D, Boncinelli E, Krumlauf R, A distinct Hox code for the branchial region of the vertebrate head. Nature. 1991 Oct 31;353(6347):861-4
1*J:69781 Ikeya M, Takada S, Wnt-3a is required for somite specification along the anteroposterior axis of the mouse embryo and for regulation of cdx-1 expression. Mech Dev. 2001 May;103(1-2):27-33
1J:102844 Ishii M, Han J, Yen HY, Sucov HM, Chai Y, Maxson RE Jr, Combined deficiencies of Msx1 and Msx2 cause impaired patterning and survival of the cranial neural crest. Development. 2005 Nov;132(22):4937-50
1J:100027 Isono K, Fujimura Y, Shinga J, Yamaki M, O-Wang J, Takihara Y, Murahashi Y, Takada Y, Mizutani-Koseki Y, Koseki H, Mammalian polyhomeotic homologues phc2 and phc1 act in synergy to mediate polycomb repression of hox genes. Mol Cell Biol. 2005 Aug;25(15):6694-706
1J:96358 Isono K, Mizutani-Koseki Y, Komori T, Schmidt-Zachmann MS, Koseki H, Mammalian polycomb-mediated repression of Hox genes requires the essential spliceosomal protein Sf3b1. Genes Dev. 2005 Mar 1;19(5):536-41
1*J:11135 Izpisua-Belmonte JC, Dolle P, Renucci A, Zappavigna V, Falkenstein H, Duboule D, Primary structure and embryonic expression pattern of the mouse Hox-4.3 homeobox gene. Development. 1990 Nov;110(3):733-45
1*J:80934 Jiang X, Choudhary B, Merki E, Chien KR, Maxson RE, Sucov HM, Normal fate and altered function of the cardiac neural crest cell lineage in retinoic acid receptor mutant embryos. Mech Dev. 2002 Sep;117(1-2):115-22
3J:79649 Kawazoe Y, Sekimoto T, Araki M, Takagi K, Araki K, Yamamura K, Region-specific gastrointestinal Hox code during murine embryonal gut development. Dev Growth Differ. 2002 Feb;44(1):77-84
1J:54543 Kondo T, Duboule D, Breaking colinearity in the mouse HoxD complex. Cell. 1999 Apr 30;97(3):407-17
2J:119875 Lebel M, Mo R, Shimamura K, Hui CC, Gli2 and Gli3 play distinct roles in the dorsoventral patterning of the mouse hindbrain. Dev Biol. 2007 Feb 1;302(1):345-55
1J:170279 Li X, Isono K, Yamada D, Endo TA, Endoh M, Shinga J, Mizutani-Koseki Y, Otte AP, Casanova M, Kitamura H, Kamijo T, Sharif J, Ohara O, Toyada T, Bernstein BE, Brockdorff N, Koseki H, Mammalian polycomb-like Pcl2/Mtf2 is a novel regulatory component of PRC2 that can differentially modulate polycomb activity both at the Hox gene cluster and at Cdkn2a genes. Mol Cell Biol. 2011 Jan;31(2):351-64
2J:109284 Lorente M, Perez C, Sanchez C, Donohoe M, Shi Y, Vidal M, Homeotic transformations of the axial skeleton of YY1 mutant mice and genetic interaction with the Polycomb group gene Ring1/Ring1A. Mech Dev. 2006 Apr;123(4):312-20
1*J:19631 McKay IJ, Muchamore I, Krumlauf R, Maden M, Lumsden A, Lewis J, The kreisler mouse: a hindbrain segmentation mutant that lacks two rhombomeres. Development. 1994 Aug;120(8):2199-211
2J:144017 Minoux M, Antonarakis GS, Kmita M, Duboule D, Rijli FM, Rostral and caudal pharyngeal arches share a common neural crest ground pattern. Development. 2009 Feb;136(4):637-45
1J:178930 Montavon T, Soshnikova N, Mascrez B, Joye E, Thevenet L, Splinter E, de Laat W, Spitz F, Duboule D, A regulatory archipelago controls hox genes transcription in digits. Cell. 2011 Nov 23;147(5):1132-45
1J:206883 Murashima A, Akita H, Okazawa M, Kishigami S, Nakagata N, Nishinakamura R, Yamada G, Midline-derived Shh regulates mesonephric tubule formation through the paraxial mesoderm. Dev Biol. 2014 Feb 1;386(1):216-26
1*J:53473 Niederreither K, Vermot J, Schuhbaur B, Chambon P, Dolle P, Retinoic acid synthesis and hindbrain patterning in the mouse embryo. Development. 2000 Jan;127(1):75-85
5J:115152 Nolte C, Rastegar M, Amores A, Bouchard M, Grote D, Maas R, Kovacs EN, Postlethwait J, Rambaldi I, Rowan S, Yan YL, Zhang F, Featherstone M, Stereospecificity and PAX6 function direct Hoxd4 neural enhancer activity along the antero-posterior axis. Dev Biol. 2006 Nov 15;299(2):582-93
1J:49154 Partanen J, Schwartz L, Rossant J, Opposite phenotypes of hypomorphic and Y766 phosphorylation site mutations reveal a function for Fgfr1 in anteroposterior patterning of mouse embryos. Genes Dev. 1998 Aug 1;12(15):2332-44
4*J:89197 Patterson LT, Potter SS, Atlas of Hox gene expression in the developing kidney. Dev Dyn. 2004 Apr;229(4):771-9
7J:173614 Paul D, Bridoux L, Rezsohazy R, Donnay I, HOX genes are expressed in bovine and mouse oocytes and early embryos. Mol Reprod Dev. 2011 Jun;78(6):436-49
1*J:43311 Peichel CL, Prabhakaran B, Vogt TF, The mouse Ulnaless mutation deregulates posterior HoxD gene expression and alters appendicular patterning. Development. 1997 Sep;124(18):3481-92
2J:179633 Phua SL, Sivakamasundari V, Shao Y, Cai X, Zhang LF, Lufkin T, Featherstone M, Nuclear accumulation of an uncapped RNA produced by Drosha cleavage of a transcript encoding miR-10b and HOXD4. PLoS One. 2011;6(10):e25689
1J:146408 Pilon N, Oh K, Sylvestre JR, Savory JG, Lohnes D, Wnt signaling is a key mediator of Cdx1 expression in vivo. Development. 2007 Jun;134(12):2315-23
9J:60124 Pitera JE, Smith VV, Thorogood P, Milla PJ, Coordinated expression of 3' hox genes during murine embryonal gut development: an enteric Hox code. Gastroenterology. 1999 Dec;117(6):1339-51
3*J:92772 Rastegar M, Kobrossy L, Kovacs EN, Rambaldi I, Featherstone M, Sequential histone modifications at Hoxd4 regulatory regions distinguish anterior from posterior embryonic compartments. Mol Cell Biol. 2004 Sep;24(18):8090-103
1J:177362 Rhinn M, Schuhbaur B, Niederreither K, Dolle P, Involvement of retinol dehydrogenase 10 in embryonic patterning and rescue of its loss of function by maternal retinaldehyde treatment. Proc Natl Acad Sci U S A. 2011 Oct 4;108(40):16687-92
1J:21946 Rijli FM, Dolle P, Fraulob V, LeMeur M, Chambon P, Insertion of a targeting construct in a Hoxd-10 allele can influence the control of Hoxd-9 expression. Dev Dyn. 1994 Dec;201(4):366-77
1J:16077 Schneider-Maunoury S, Topilko P, Seitandou T, Levi G, Cohen-Tannoudji M, Pournin S, Babinet C, Charnay P, Disruption of Krox-20 results in alteration of rhombomeres 3 and 5 in the developing hindbrain. Cell. 1993 Dec 17;75(6):1199-214
1J:204375 Sheth R, Bastida MF, Kmita M, Ros M, "Self-regulation," a new facet of Hox genes' function. Dev Dyn. 2014 Jan;243(1):182-91
4J:209112 Shimizu H, Kubo A, Uchibe K, Hashimoto M, Yokoyama S, Takada S, Mitsuoka K, Asahara H, The AERO system: a 3D-like approach for recording gene expression patterns in the whole mouse embryo. PLoS One. 2013;8(10):e75754
1J:71405 Spitz F, Gonzalez F, Peichel C, Vogt TF, Duboule D, Zakany J, Large scale transgenic and cluster deletion analysis of the HoxD complex separate an ancestral regulatory module from evolutionary innovations. Genes Dev. 2001 Sep 1;15(17):2209-14
2*J:43764 Takihara Y, Tomotsune D, Shirai M, Katoh-Fukui Y, Nishii K, Motaleb MA , Nomura M , Tsuchiya R , Fujita Y , Shibata Y , Higashinakagawa T , Shimada K, Targeted disruption of the mouse homologue of the Drosophila polyhomeotic gene leads to altered anteroposterior patterning and neural crest defects. Development. 1997 Oct;124(19):3673-82
2J:105255 Tarchini B, Duboule D, Control of Hoxd genes' collinearity during early limb development. Dev Cell. 2006 Jan;10(1):93-103
2J:109102 Terranova R, Agherbi H, Boned A, Meresse S, Djabali M, Histone and DNA methylation defects at Hox genes in mice expressing a SET domain-truncated form of Mll. Proc Natl Acad Sci U S A. 2006 Apr 25;103(17):6629-34
1J:81179 Trokovic N, Trokovic R, Mai P, Partanen J, Fgfr1 regulates patterning of the pharyngeal region. Genes Dev. 2003 Jan 1;17(1):141-53
2J:182758 Tschopp P, Christen AJ, Duboule D, Bimodal control of Hoxd gene transcription in the spinal cord defines two regulatory subclusters. Development. 2012 Mar;139(5):929-39
3J:146752 Tschopp P, Tarchini B, Spitz F, Zakany J, Duboule D, Uncoupling time and space in the collinear regulation of Hox genes. PLoS Genet. 2009 Mar;5(3):e1000398
1*J:75947 van den Akker E, Forlani S, Chawengsaksophak K, de Graaff W, Beck F, Meyer BI, Deschamps J, Cdx1 and Cdx2 have overlapping functions in anteroposterior patterning and posterior axis elongation. Development. 2002 May;129(9):2181-93
2J:35539 van der Lugt NM, Alkema M, Berns A, Deschamps J, The Polycomb-group homolog Bmi-1 is a regulator of murine Hox gene expression. Mech Dev. 1996 Aug;58(1-2):153-64
1*J:122989 Visel A, Thaller C, Eichele G, GenePaint.org: an atlas of gene expression patterns in the mouse embryo. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D552-6
2J:78736 Wang J, Mager J, Schnedier E, Magnuson T, The mouse PcG gene eed is required for Hox gene repression and extraembryonic development. Mamm Genome. 2002 Sep;13(9):493-503
2J:145738 Wang LL, Zhang Z, Li Q, Yang R, Pei X, Xu Y, Wang J, Zhou SF, Li Y, Ethanol exposure induces differential microRNA and target gene expression and teratogenic effects which can be suppressed by folic acid supplementation. Hum Reprod. 2009 Mar;24(3):562-79
3J:4189 Watrin F, Wolgemuth DJ, Conservation and divergence of patterns of expression and lineage-specific transcripts in orthologues and paralogues of the mouse Hox-1.4 gene. Dev Biol. 1993 Mar;156(1):136-45
1J:54222 Xu X, Li C, Takahashi K, Slavkin HC, Shum L, Deng CX, Murine fibroblast growth factor receptor 1alpha isoforms mediate node regression and are essential for posterior mesoderm development. Dev Biol. 1999 Apr 15;208(2):293-306
1J:194424 Yasunaga S, Ohtsubo M, Ohno Y, Saeki K, Kurogi T, Tanaka-Okamoto M, Ishizaki H, Shirai M, Mihara K, Brock HW, Miyoshi J, Takihara Y, Scmh1 has E3 ubiquitin ligase activity for geminin and histone H2A and regulates geminin stability directly or indirectly via transcriptional repression of Hoxa9 and Hoxb4. Mol Cell Biol. 2013 Feb;33(4):644-60
3*J:156017 Yokoyama S, Ito Y, Ueno-Kudoh H, Shimizu H, Uchibe K, Albini S, Mitsuoka K, Miyaki S, Kiso M, Nagai A, Hikata T, Osada T, Fukuda N, Yamashita S, Harada D, Mezzano V, Kasai M, Puri PL, Hayashizaki Y, Okado H, Hashimoto M, Asahara H, A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Dev Cell. 2009 Dec;17(6):836-48
1J:127046 Zacchetti G, Duboule D, Zakany J, Hox gene function in vertebrate gut morphogenesis: the case of the caecum. Development. 2007 Nov;134(22):3967-3973

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last database update
08/19/2014
MGI 5.19
The Jackson Laboratory