Gene Expression Literature Summary

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

Hoxd13  homeobox D13   (Synonyms: Hox-4.8, spdh)
Results	Reference
1*	J:75699 Albrecht AN, Schwabe GC, Stricker S, Boddrich A, Wanker EE, Mundlos S, The synpolydactyly homolog (spdh) mutation in the mouse -- a defect in patterning and growth of limb cartilage elements. Mech Dev. 2002 Mar;112(1-2):53-67
1	J:62547 Barna M, Hawe N, Niswander L, Pandolfi PP, Plzf regulates limb and axial skeletal patterning. Nat Genet. 2000 Jun;25(2):166-72
1	J:283343 Bastida MF, Perez-Gomez R, Trofka A, Zhu J, Rada-Iglesias A, Sheth R, Stadler HS, Mackem S, Ros MA, The formation of the thumb requires direct modulation of Gli3 transcription by Hoxa13. Proc Natl Acad Sci U S A. 2020 Jan 14;117(2):1090-1096
1*	J:49264 Beckers J, Duboule D, Genetic analysis of a conserved sequence in the HoxD complex: regulatory redundancy or limitations of the transgenic approach?. Dev Dyn. 1998 Sep;213(1):1-11
1*	J:168038 Bimonte S, De Angelis A, Quagliata L, Giusti F, Tammaro R, Dallai R, Ascenzi MG, Diez-Roux G, Franco B, Ofd1 is required in limb bud patterning and endochondral bone development. Dev Biol. 2011 Jan 15;349(2):179-91
1	J:104869 Blanc I, Bach A, Robert B, Unusual pattern of Sonic hedgehog expression in the polydactylous mouse mutant Hemimelic extra-toes. Int J Dev Biol. 2002;46(7):969-74
1	J:308920 Bolt CC, Lopez-Delisle L, Mascrez B, Duboule D, Mesomelic dysplasias associated with the HOXD locus are caused by regulatory reallocations. Nat Commun. 2021 Aug 18;12(1):5013
1*	J:78766 Boulet AM, Capecchi MR, Duplication of the Hoxd11 gene causes alterations in the axial and appendicular skeleton of the mouse. Dev Biol. 2002 Sep 1;249(1):96-107
1*	J:71694 Bruneau S, Johnson KR, Yamamoto M, Kuroiwa A, Duboule D, The mouse hoxd13(spdh) mutation, a polyalanine expansion similar to human type ii synpolydactyly (spd), disrupts the function but not the expression of other hoxd genes. Dev Biol. 2001 Sep 15;237(2):345-53
1*	J:36526 Bueno D, Skinner J, Abud H, Heath JK, Double in situ hybridization on mouse embryos for detection of overlapping regions of gene expression. Trends Genet. 1996 Oct;12(10):385-7
1	J:153595 Butterfield NC, Metzis V, McGlinn E, Bruce SJ, Wainwright BJ, Wicking C, Patched 1 is a crucial determinant of asymmetry and digit number in the vertebrate limb. Development. 2009 Oct;136(20):3515-24
1	J:148411 Cameron DA, Pennimpede T, Petkovich M, Tulp3 is a critical repressor of mouse hedgehog signaling. Dev Dyn. 2009 May;238(5):1140-9
1*	J:274320 Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ, Trapnell C, Shendure J, The single-cell transcriptional landscape of mammalian organogenesis. Nature. 2019 Feb;566(7745):496-502
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:232146 Carlson HL, Quinn JJ, Yang YW, Thornburg CK, Chang HY, Stadler HS, LncRNA-HIT Functions as an Epigenetic Regulator of Chondrogenesis through Its Recruitment of p100/CBP Complexes. PLoS Genet. 2015 Dec;11(12):e1005680
1*	J:71186 Chiang C, Litingtung Y, Harris MP, Simandl BK, Li Y, Beachy PA, Fallon JF, Manifestation of the limb prepattern: limb development in the absence of sonic hedgehog function. Dev Biol. 2001 Aug 15;236(2):421-35
1*	J:98919 Cobb J, Duboule D, Comparative analysis of genes downstream of the Hoxd cluster in developing digits and external genitalia. Development. 2005 Jul;132(13):3055-67
1*	J:153164 Cocquempot O, Brault V, Babinet C, Herault Y, Fork stalling and template switching as a mechanism for polyalanine tract expansion affecting the DYC mutant of HOXD13, a new murine model of synpolydactyly. Genetics. 2009 Sep;183(1):23-30
1*	J:203431 Collette NM, Yee CS, Murugesh D, Sebastian A, Taher L, Gale NW, Economides AN, Harland RM, Loots GG, Sost and its paralog Sostdc1 coordinate digit number in a Gli3-dependent manner. Dev Biol. 2013 Nov 1;383(1):90-105
1	J:143544 Cortellino S, Wang C, Wang B, Bassi MR, Caretti E, Champeval D, Calmont A, Jarnik M, Burch J, Zaret KS, Larue L, Bellacosa A, Defective ciliogenesis, embryonic lethality and severe impairment of the Sonic Hedgehog pathway caused by inactivation of the mouse complex A intraflagellar transport gene Ift122/Wdr10, partially overlapping with the DNA repair gene Med1/Mbd4. Dev Biol. 2009 Jan 1;325(1):225-37
1*	J:264204 Deimling SJ, Lau K, Hui CC, Hopyan S, Genetic interaction between Gli3 and Ezh2 during limb pattern formation. Mech Dev. 2018 Jun;151:30-36
1*	J:15507 Dolle P, Dierich A, LeMeur M, Schimmang T, Schuhbaur B, Chambon P, Duboule D, Disruption of the Hoxd-13 gene induces localized heterochrony leading to mice with neotenic limbs. Cell. 1993 Nov 5;75(3):431-41
1*	J:172775 Gildea DE, Luetkemeier ES, Bao X, Loftus SK, Mackem S, Yang Y, Pavan WJ, Biesecker LG, The pleiotropic mouse phenotype extra-toes spotting is caused by translation initiation factor Eif3c mutations and is associated with disrupted sonic hedgehog signaling. FASEB J. 2011 May;25(5):1596-605
1	J:122568 Gonzalez F, Duboule D, Spitz F, Transgenic analysis of Hoxd gene regulation during digit development. Dev Biol. 2007 Jun 15;306(2):847-59
1	J:62029 Haraguchi R, Suzuki K, Murakami R, Sakai M, Kamikawa M, Kengaku M, Sekine K, Kawano H, Kato S, Ueno N, Yamada G, Molecular analysis of external genitalia formation: the role of fibroblast growth factor (Fgf) genes during genital tubercle formation. Development. 2000 Jun;127(11):2471-9
1	J:233374 Hayashi S, Akiyama R, Wong J, Tahara N, Kawakami H, Kawakami Y, Gata6-Dependent GLI3 Repressor Function is Essential in Anterior Limb Progenitor Cells for Proper Limb Development. PLoS Genet. 2016 Jun;12(6):e1006138
1*	J:46225 Hayes C, Brown JM, Lyon MF, Morriss-Kay GM, Sonic hedgehog is not required for polarising activity in the Doublefoot mutant mouse limb bud. Development. 1998 Feb;125(3):351-7
1*	J:47900 Herault Y, Beckers J, Kondo T, Fraudeau N, Duboule D, Genetic analysis of a Hoxd-12 regulatory element reveals global versus local modes of controls in the HoxD complex. Development. 1998 May;125(9):1669-77
1*	J:43310 Herault Y, Fraudeau N, Zakany J, Duboule D, Ulnaless (Ul), a regulatory mutation inducing both loss-of-function and gain-of-function of posterior Hoxd genes. Development. 1997 Sep;124(18):3493-500
1*	J:37211 Herault Y, Hraba-Renevey S, van der Hoeven F, Duboule D, Function of the Evx-2 gene in the morphogenesis of vertebrate limbs. EMBO J. 1996 Dec 2;15(23):6727-38
1	J:184018 Itou J, Kawakami H, Quach T, Osterwalder M, Evans SM, Zeller R, Kawakami Y, Islet1 regulates establishment of the posterior hindlimb field upstream of the Hand2-Shh morphoregulatory gene network in mouse embryos. Development. 2012 May;139(9):1620-9
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:312493 Jhanwar S, Malkmus J, Stolte J, Romashkina O, Zuniga A, Zeller R, Conserved and species-specific chromatin remodeling and regulatory dynamics during mouse and chicken limb bud development. Nat Commun. 2021 Sep 28;12(1):5685
1*	J:285195 Kajioka D, Suzuki K, Nakada S, Matsushita S, Miyagawa S, Takeo T, Nakagata N, Yamada G, Bmp4 is an essential growth factor for the initiation of genital tubercle (GT) outgrowth. Congenit Anom (Kyoto). 2020 Jan;60(1):15-21
1	J:144018 Kawakami Y, Uchiyama Y, Rodriguez Esteban C, Inenaga T, Koyano-Nakagawa N, Kawakami H, Marti M, Kmita M, Monaghan-Nichols P, Nishinakamura R, Izpisua Belmonte JC, Sall genes regulate region-specific morphogenesis in the mouse limb by modulating Hox activities. Development. 2009 Feb;136(4):585-94
1	J:66264 Kmita M, Kondo T, Duboule D, Targeted inversion of a polar silencer within the HoxD complex re-allocates domains of enhancer sharing. Nat Genet. 2000 Dec;26(4):451-4
1	J:47366 Kondo T, Zakany J, Duboule D, Control of colinearity in AbdB genes of the mouse HoxD complex. Mol Cell. 1998 Jan;1(2):289-300
1	J:205405 Kozhemyakina E, Ionescu A, Lassar AB, GATA6 is a crucial regulator of Shh in the limb bud. PLoS Genet. 2014 Jan;10(1):e1004072
1*	J:66531 Kraus P, Fraidenraich D, Loomis CA, Some distal limb structures develop in mice lacking Sonic hedgehog signaling. Mech Dev. 2001 Jan;100(1):45-58
1*	J:150759 Lallemand Y, Bensoussan V, Cloment CS, Robert B, Msx genes are important apoptosis effectors downstream of the Shh/Gli3 pathway in the limb. Dev Biol. 2009 Jul 15;331(2):189-98
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
1*	J:226028 Lewandowski JP, Du F, Zhang S, Powell MB, Falkenstein KN, Ji H, Vokes SA, Spatiotemporal regulation of GLI target genes in the mammalian limb bud. Dev Biol. 2015 Oct 1;406(1):92-103
1*	J:293790 Lewis EMA, Sankar S, Tong C, Patterson ES, Waller LE, Gontarz P, Zhang B, Ornitz DM, Kroll KL, Geminin is required for Hox gene regulation to pattern the developing limb. Dev Biol. 2020 Aug 1;464(1):11-23
1	J:102949 Li C, Xu X, Nelson DK, Williams T, Kuehn MR, Deng CX, FGFR1 function at the earliest stages of mouse limb development plays an indispensable role in subsequent autopod morphogenesis. Development. 2005 Nov;132(21):4755-64
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:235489 Li J, Wang Q, Cui Y, Yang X, Li Y, Zhang X, Qiu M, Zhang Z, Zhang Z, Suppressor of Fused Is Required for Determining Digit Number and Identity via Gli3/Fgfs/Gremlin. PLoS One. 2015;10(5):e0128006
1	J:158288 Lin C, Yin Y, Veith GM, Fisher AV, Long F, Ma L, Temporal and spatial dissection of Shh signaling in genital tubercle development. Development. 2009 Dec;136(23):3959-67
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:249936 Lu H, Galeano MCR, Ott E, Kaeslin G, Kausalya PJ, Kramer C, Ortiz-Bruchle N, Hilger N, Metzis V, Hiersche M, Tay SY, Tunningley R, Vij S, Courtney AD, Whittle B, Wuhl E, Vester U, Hartleben B, Neuber S, Frank V, Little MH, Epting D, Papathanasiou P, Perkins AC, Wright GD, Hunziker W, Gee HY, Otto EA, Zerres K, Hildebrandt F, Roy S, Wicking C, Bergmann C, Mutations in DZIP1L, which encodes a ciliary-transition-zone protein, cause autosomal recessive polycystic kidney disease. Nat Genet. 2017 Jul;49(7):1025-1034
1	J:136057 Lu P, Yu Y, Perdue Y, Werb Z, The apical ectodermal ridge is a timer for generating distal limb progenitors. Development. 2008 Apr;135(8):1395-405
1*	J:146434 Maatouk DM, Choi KS, Bouldin CM, Harfe BD, In the limb AER Bmp2 and Bmp4 are required for dorsal-ventral patterning and interdigital cell death but not limb outgrowth. Dev Biol. 2009 Mar 15;327(2):516-23
1	J:334725 Markman S, Zada M, David E, Giladi A, Amit I, Zelzer E, A single-cell census of mouse limb development identifies complex spatiotemporal dynamics of skeleton formation. Dev Cell. 2023 Apr 10;58(7):565-581.e4
1	J:82850 Monge I, Kondo T, Duboule D, An enhancer-titration effect induces digit-specific regulatory alleles of the HoxD cluster. Dev Biol. 2003 Apr 15;256(2):212-20
1	J:103158 Moribe H, Takagi T, Kondoh H, Higashi Y, Suppression of polydactyly of the Gli3 mutant (extra toes) by deltaEF1 homozygous mutation. Dev Growth Differ. 2000 Aug;42(4):367-76
1	J:217206 Neufeld SJ, Wang F, Cobb J, Genetic interactions between Shox2 and Hox genes during the regional growth and development of the mouse limb. Genetics. 2014 Nov;198(3):1117-26
1*	J:199568 Neufeld SJ, Zhou X, Vize PD, Cobb J, mRNA fluorescence in situ hybridization to determine overlapping gene expression in whole-mount mouse embryos. Dev Dyn. 2013 Sep;242(9):1094-100
1	J:78407 O'Rourke MP, Soo K, Behringer RR, Hui CC, Tam PP, Twist plays an essential role in FGF and SHH signal transduction during mouse limb development. Dev Biol. 2002 Aug 1;248(1):143-56
1	J:144308 Ovchinnikov DA, Selever J, Wang Y, Chen YT, Mishina Y, Martin JF, Behringer RR, BMP receptor type IA in limb bud mesenchyme regulates distal outgrowth and patterning. Dev Biol. 2006 Jul 1;295(1):103-15
1*	J:157955 Pennimpede T, Cameron DA, MacLean GA, Petkovich M, Analysis of Cyp26b1/Rarg compound-null mice reveals two genetically separable effects of retinoic acid on limb outgrowth. Dev Biol. 2010 Mar 1;339(1):179-86
1*	J:77812 Perriton CL, Powles N, Chiang C, Maconochie MK, Cohn MJ, Sonic hedgehog signaling from the urethral epithelium controls external genital development. Dev Biol. 2002 Jul 1;247(1):26-46
1*	J:56986 Post LC, Innis JW, Altered Hox expression and increased cell death distinguish Hypodactyly from Hoxa13 null mice. Int J Dev Biol. 1999 Jul;43(4):287-94
1	J:239799 Raines AM, Magella B, Adam M, Potter SS, Key pathways regulated by HoxA9,10,11/HoxD9,10,11 during limb development. BMC Dev Biol. 2015 Jul 19;15:28
1	J:118803 Ribes V, Otto DM, Dickmann L, Schmidt K, Schuhbaur B, Henderson C, Blomhoff R, Wolf CR, Tickle C, Dolle P, Rescue of cytochrome P450 oxidoreductase (Por) mouse mutants reveals functions in vasculogenesis, brain and limb patterning linked to retinoic acid homeostasis. Dev Biol. 2007 Mar 1;303(1):66-81
1	J:128571 Selever J, Liu W, Lu MF, Behringer RR, Martin JF, Bmp4 in limb bud mesoderm regulates digit pattern by controlling AER development. Dev Biol. 2004 Dec 15;276(2):268-79
1	J:241710 Sheth R, Barozzi I, Langlais D, Osterwalder M, Nemec S, Carlson HL, Stadler HS, Visel A, Drouin J, Kmita M, Distal Limb Patterning Requires Modulation of cis-Regulatory Activities by HOX13. Cell Rep. 2016 Dec 13;17(11):2913-2926
1	J:83372 Spitz F, Gonzalez F, Duboule D, A global control region defines a chromosomal regulatory landscape containing the HoxD cluster. Cell. 2003 May 2;113(3):405-17
1	J:154460 Suzuki D, Yamada A, Amano T, Yasuhara R, Kimura A, Sakahara M, Tsumaki N, Takeda S, Tamura M, Nakamura M, Wada N, Nohno T, Shiroishi T, Aiba A, Kamijo R, Essential mesenchymal role of small GTPase Rac1 in interdigital programmed cell death during limb development. Dev Biol. 2009 Nov 15;335(2):396-406
1*	J:50488 ten Berge D, Brouwer A, Korving J, Martin JF, Meijlink F, Prx1 and Prx2 in skeletogenesis: roles in the craniofacial region, inner ear and limbs. Development. 1998 Oct;125(19):3831-42
1	J:111607 Tribioli C, Lufkin T, Bapx1 homeobox gene gain-of-function mice show preaxial polydactyly and activated Shh signaling in the developing limb. Dev Dyn. 2006 Jun 21;235(9):2483-2492
1	J:317370 Trofka A, Huang BL, Zhu J, Heinz WF, Magidson V, Shibata Y, Shi YB, Tarchini B, Stadler HS, Kabangu M, Al Haj Baddar NW, Voss SR, Mackem S, Genetic basis for an evolutionary shift from ancestral preaxial to postaxial limb polarity in non-urodele vertebrates. Curr Biol. 2021 Nov 22;31(22):4923-4934.e5
1	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:101736 Verheyden JM, Lewandoski M, Deng C, Harfe BD, Sun X, Conditional inactivation of Fgfr1 in mouse defines its role in limb bud establishment, outgrowth and digit patterning. Development. 2005 Oct;132(19):4235-45
1	J:330212 Wang S, Tanaka Y, Xu Y, Takeda S, Hirokawa N, KIF3B promotes a PI3K signaling gradient causing changes in a Shh protein gradient and suppressing polydactyly in mice. Dev Cell. 2022 Oct 10;57(19):2273-2289.e11
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:95882 Williams TM, Williams ME, Innis JW, Range of HOX/TALE superclass associations and protein domain requirements for HOXA13:MEIS interaction. Dev Biol. 2005 Jan 15;277(2):457-71
1	J:170090 Xu B, Wellik DM, Axial Hox9 activity establishes the posterior field in the developing forelimb. Proc Natl Acad Sci U S A. 2011 Mar 22;108(12):4888-91
1*	J:52600 Yamaguchi TP, Bradley A, McMahon AP, Jones S, A Wnt5a pathway underlies outgrowth of multiple structures in the vertebrate embryo. Development. 1999 Mar;126(6):1211-23
1*	J:49653 Yang Y, Guillot P, Boyd Y, Lyon MF, McMahon AP, Evidence that preaxial polydactyly in the Doublefoot mutant is due to ectopic Indian Hedgehog signaling. Development. 1998 Aug;125(16):3123-32
1*	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:154781 Young T, Rowland JE, van de Ven C, Bialecka M, Novoa A, Carapuco M, van Nes J, de Graaff W, Duluc I, Freund JN, Beck F, Mallo M, Deschamps J, Cdx and Hox genes differentially regulate posterior axial growth in mammalian embryos. Dev Cell. 2009 Oct;17(4):516-26
1	J:159120 Zeng H, Hoover AN, Liu A, PCP effector gene Inturned is an important regulator of cilia formation and embryonic development in mammals. Dev Biol. 2010 Mar 15;339(2):418-28
1	J:149477 Zhang Z, Verheyden JM, Hassell JA, Sun X, FGF-regulated Etv genes are essential for repressing Shh expression in mouse limb buds. Dev Cell. 2009 Apr;16(4):607-13
1	J:61723 Zhang Z, Yu X, Zhang Y, Geronimo B, Lovlie A, Fromm SH, Chen Y, Targeted misexpression of constitutively active BMP receptor-IB causes bifurcation, duplication, and posterior transformation of digit in mouse limb. Dev Biol. 2000 Apr 15;220(2):154-67
1	J:200718 Zhou W, Zhu H, Zhao J, Li H, Wan Y, Cao J, Zhao H, Yu J, Zhou R, Yao Y, Zhang L, Wang L, He L, Ma G, Yao Z, Guo X, Misexpression of Pknox2 in mouse limb bud mesenchyme perturbs zeugopod development and deltoid crest formation. PLoS One. 2013;8(5):e64237