Gene Expression Literature Summary

• Symbol: Hoxd3
• Name: homeobox D3
• ID: MGI:96207

58 matching records from 58 references.

Summary by Age and Assay: Numbers in the table indicate the number of results matching the search criteria.

Age	E5	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	E18.5	E19.5	E	P
Immunohistochemistry (section)			1
In situ RNA (section)					1	1	3		2	1	3		5	1	3		2			1	1			1	2
In situ RNA (whole mount)	1	3	2	4	14	1	6	1	5	1	4	2					2							2
Northern blot		1		1		1		1			1														1
RT-PCR			2		2		2	1	1		2	1	2		1	2		1	2	1		1	1	1	4
cDNA clones			1		1	1	1		1																2

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

Hoxd3  homeobox D3   (Synonyms: Hox-4.1, Hox-5.5)
Results	Reference
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
8*	J:24539 Bedford M, Arman E, Orr-Urtreger A, Lonai P, Analysis of the Hoxd-3 gene: structure and localization of its sense and natural antisense transcripts. DNA Cell Biol. 1995 Apr;14(4):295-304
1*	J:139570 Capellini TD, Zewdu R, Di Giacomo G, Asciutti S, Kugler JE, Di Gregorio A, Selleri L, Pbx1/Pbx2 govern axial skeletal development by controlling Polycomb and Hox in mesoderm and Pax1/Pax9 in sclerotome. Dev Biol. 2008 Sep 15;321(2):500-14
1	J:231470 Chandler RL, Magnuson T, The SWI/SNF BAF-A complex is essential for neural crest development. Dev Biol. 2016 Mar 1;411(1):15-24
4*	J: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
3*	J:15678 Condie BG, Capecchi MR, Mice homozygous for a targeted disruption of Hoxd-3 (Hox-4.1) exhibit anterior transformations of the first and second cervical vertebrae, the atlas and the axis. Development. 1993 Nov;119(3):579-95
3	J:203785 Delpretti S, Montavon T, Leleu M, Joye E, Tzika A, Milinkovitch M, Duboule D, Multiple enhancers regulate Hoxd genes and the Hotdog LncRNA during cecum budding. Cell Rep. 2013 Oct 17;5(1):137-50
3	J:131874 Di-Poi N, Zakany J, Duboule D, Distinct Roles and Regulations for Hoxd Genes in Metanephric Kidney Development. PLoS Genet. 2007 Dec 21;3(12):e232
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: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;
1*	J:152838 Fu H, Cai J, Clevers H, Fast E, Gray S, Greenberg R, Jain MK, Ma Q, Qiu M, Rowitch DH, Taylor CM, Stiles CD, A genome-wide screen for spatially restricted expression patterns identifies transcription factors that regulate glial development. J Neurosci. 2009 Sep 9;29(36):11399-408
1	J:86041 Gaufo GO, Thomas KR, Capecchi MR, Hox3 genes coordinate mechanisms of genetic suppression and activation in the generation of branchial and somatic motoneurons. Development. 2003 Nov;130(21):5191-201
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. www.gudmap.org. 2004;
1	J:269738 Guerreiro I, Gitto S, Novoa A, Codourey J, Nguyen Huynh TH, Gonzalez F, Milinkovitch MC, Mallo M, Duboule D, Reorganisation of Hoxd regulatory landscapes during the evolution of a snake-like body plan. Elife. 2016 Aug 1;5:e16087
1*	J:231595 Gurdziel K, Vogt KR, Walton KD, Schneider GK, Gumucio DL, Transcriptome of the inner circular smooth muscle of the developing mouse intestine: Evidence for regulation of visceral smooth muscle genes by the hedgehog target gene, cJun. Dev Dyn. 2016 May;245(5):614-26
2	J:308865 Higashijima Y, Nagai N, Yamamoto M, Kitazawa T, Kawamura YK, Taguchi A, Nakada N, Nangaku M, Furukawa T, Aburatani H, Kurihara H, Wada Y, Kanki Y, Lysine demethylase 7a regulates murine anterior-posterior development by modulating the transcription of Hox gene cluster. Commun Biol. 2020 Nov 30;3(1):725
3*	J:326160 Hintermann A, Guerreiro I, Lopez-Delisle L, Bolt CC, Gitto S, Duboule D, Beccari L, Developmental and evolutionary comparative analysis of a regulatory landscape in mouse and chicken. Development. 2022 Jun 15;149(12):dev200594
1	J:86514 Houle M, Sylvestre JR, Lohnes D, Retinoic acid regulates a subset of Cdx1 function in vivo. Development. 2003 Dec;130(26):6555-67
1	J: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
3	J:301249 Lopez-Delgado AC, Delgado I, Cadenas V, Sanchez-Cabo F, Torres M, Axial skeleton anterior-posterior patterning is regulated through feedback regulation between Meis transcription factors and retinoic acid. Development. 2021 Jan 4;148(1):dev193813
1	J:175781 Makki N, Capecchi MR, Identification of novel Hoxa1 downstream targets regulating hindbrain, neural crest and inner ear development. Dev Biol. 2011 Sep 15;357(2):295-304
1	J:46523 Manley NR, Capecchi MR, Hox group 3 paralogs regulate the development and migration of the thymus, thyroid, and parathyroid glands. Dev Biol. 1998 Mar 1;195(1):1-15
4*	J:257654 Memic F, Knoflach V, Morarach K, Sadler R, Laranjeira C, Hjerling-Leffler J, Sundstrom E, Pachnis V, Marklund U, Transcription and Signaling Regulators in Developing Neuronal Subtypes of Mouse and Human Enteric Nervous System. Gastroenterology. 2018 Feb;154(3):624-636
1	J:289378 Mesnard D, Guzman-Ayala M, Constam DB, Nodal specifies embryonic visceral endoderm and sustains pluripotent cells in the epiblast before overt axial patterning. Development. 2006 Jul;133(13):2497-505
1	J: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
1	J:247259 Naruse C, Shibata S, Tamura M, Kawaguchi T, Abe K, Sugihara K, Kato T, Nishiuchi T, Wakana S, Ikawa M, Asano M, New insights into the role of Jmjd3 and Utx in axial skeletal formation in mice. FASEB J. 2017 Jun;31(6):2252-2266
2	J:65651 Neidhardt L, Gasca S, Wertz K, Obermayr F, Worpenberg S, Lehrach H, Herrmann BG, Large-scale screen for genes controlling mammalian embryogenesis, using high-throughput gene expression analysis in mouse embryos. Mech Dev. 2000 Nov;98(1-2):77-94
1	J:1104 Orr-Urtreger A, Bedford MT, Do MS, Eisenbach L, Lonai P, Developmental expression of the alpha receptor for platelet-derived growth factor, which is deleted in the embryonic lethal Patch mutation. Development. 1992 May;115(1):289-303
4*	J:89197 Patterson LT, Potter SS, Atlas of Hox gene expression in the developing kidney. Dev Dyn. 2004 Apr;229(4):771-9
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
1*	J: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
1	J:290220 Sato T, Kataoka K, Ito Y, Yokoyama S, Inui M, Mori M, Takahashi S, Akita K, Takada S, Ueno-Kudoh H, Asahara H, Lin28a/let-7 pathway modulates the Hox code via Polycomb regulation during axial patterning in vertebrates. Elife. 2020 May 29;9:e53608
1*	J:149234 Savory JG, Pilon N, Grainger S, Sylvestre JR, Beland M, Houle M, Oh K, Lohnes D, Cdx1 and Cdx2 are functionally equivalent in vertebral patterning. Dev Biol. 2009 Jun 1;330(1):114-22
2*	J:71996 Selleri L, Depew MJ, Jacobs Y, Chanda SK, Tsang KY, Cheah KS, Rubenstein JL, O'Gorman S, Cleary ML, Requirement for Pbx1 in skeletal patterning and programming chondrocyte proliferation and differentiation. Development. 2001 Sep;128(18):3543-57
4*	J: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
1	J:152861 Skuntz S, Mankoo B, Nguyen MT, Hustert E, Nakayama A, Tournier-Lasserve E, Wright CV, Pachnis V, Bharti K, Arnheiter H, Lack of the mesodermal homeodomain protein MEOX1 disrupts sclerotome polarity and leads to a remodeling of the cranio-cervical joints of the axial skeleton. Dev Biol. 2009 Aug 15;332(2):383-95
1*	J:29755 Subramanian V, Meyer BI, Gruss P, Disruption of the murine homeobox gene Cdx1 affects axial skeletal identities by altering the mesodermal expression domains of Hox genes. Cell. 1995 Nov 17;83(4):641-53
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
11*	J:34829 Tan DP, Shao X, Pu L, Guo V, Nirenberg M, Sequence and expression of the murine Hoxd-3 homeobox gene. Proc Natl Acad Sci U S A. 1996 Aug 6;93(16):8247-52
1	J:190432 Taniguchi Y, Tanaka O, Sekiguchi M, Takekoshi S, Tsukamoto H, Kimura M, Imai K, Inoko H, Enforced expression of the transcription factor HOXD3 under the control of the Wnt1 regulatory element modulates cell adhesion properties in the developing mouse neural tube. J Anat. 2011 Nov;219(5):589-600
1	J:231980 Tomas-Roca L, Corral-San-Miguel R, Aroca P, Puelles L, Marin F, Crypto-rhombomeres of the mouse medulla oblongata, defined by molecular and morphological features. Brain Struct Funct. 2016 Mar;221(2):815-38
2	J: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
3	J: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:171421 Vandunk C, Hunter LA, Gray PA, Development, maturation, and necessity of transcription factors in the mouse suprachiasmatic nucleus. J Neurosci. 2011 Apr 27;31(17):6457-67
2	J: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
1*	J:190636 Wiese CB, Ireland S, Fleming NL, Yu J, Valerius MT, Georgas K, Chiu HS, Brennan J, Armstrong J, Little MH, McMahon AP, Southard-Smith EM, A genome-wide screen to identify transcription factors expressed in pelvic ganglia of the lower urinary tract. Front Neurosci. 2012;6:130
1*	J:316988 Williamson I, Eskeland R, Lettice LA, Hill AE, Boyle S, Grimes GR, Hill RE, Bickmore WA, Anterior-posterior differences in HoxD chromatin topology in limb development. Development. 2012 Sep;139(17):3157-67
1	J: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
1*	J:53289 Yang X, Castilla LH, Xu X, Li C, Gotay J, Weinstein M, Liu PP, Deng CX, Angiogenesis defects and mesenchymal apoptosis in mice lacking SMAD5. Development. 1999 Apr;126(8):1571-80
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
1	J: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
2*	J:70547 Zakany J, Kmita M, Alarcon P, de la Pompa JL, Duboule D, Localized and transient transcription of Hox genes suggests a link between patterning and the segmentation clock. Cell. 2001 Jul 27;106(2):207-17
1	J:326576 Zhang M, Du S, Ou H, Cui R, Jiang N, Lin Y, Ge R, Ma D, Zhang J, Ablation of Zfhx4 results in early postnatal lethality by disrupting the respiratory center in mice. J Mol Cell Biol. 2021 Jul 6;13(3):210-224
1	J:225113 Zhang Y, Liu Z, Medrzycki M, Cao K, Fan Y, Reduction of Hox gene expression by histone H1 depletion. PLoS One. 2012;7(6):e38829