Gene Expression Literature Summary

• Symbol: Hoxa1
• Name: homeobox A1
• ID: MGI:96170

76 matching records from 76 references.

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

Age	E6.5	E7.5	E8	E8.5	E9	E9.5	E10	E10.5	E11	E11.5	E12	E12.5	E13	E13.5	E14.5	E15	E15.5	E16.5	E17	E17.5	E18.5	E19.5	E	P
Immunohistochemistry (section)			1	1		1		1				1
In situ RNA (section)		3	2	4	4	5	1	1		4		3		3	2		3			1	1		2	3
In situ RNA (whole mount)		5	11	13	4	4		4		2				1			2						1
In situ reporter (knock in)				2		1		1		1
Northern blot		2		2	1	2	1	3		2		4	1	2	1		1	1		1				5
Western blot								1												1
RT-PCR	1	1	2	3		4		6	1	3		1	1	2	5	1	1	1	1	1	2	1		3
cDNA clones		1		3		1	1
Nuclease S1							1				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

Hoxa1  homeobox A1   (Synonyms: early retinoic acid, ERA1, Hox-1.6)
Results	Reference
1	J:274580 Bademci G, Abad C, Incesulu A, Elian F, Reyahi A, Diaz-Horta O, Cengiz FB, Sineni CJ, Seyhan S, Atli EI, Basmak H, Demir S, Nik AM, Footz T, Guo S, Duman D, Fitoz S, Gurkan H, Blanton SH, Walter MA, Carlsson P, Walz K, Tekin M, FOXF2 is required for cochlear development in humans and mice. Hum Mol Genet. 2019 Apr 15;28(8):1286-1297
12*	J:33943 Baron A, Featherstone MS, Hill RE, Hall A, Galliot B, Duboule D, Hox-1.6: a mouse homeo-box-containing gene member of the Hox-1 complex. EMBO J. 1987 Oct;6(10):2977-86
1*	J:60095 Barrow JR, Stadler HS, Capecchi MR, Roles of Hoxa1 and Hoxa2 in patterning the early hindbrain of the mouse. Development. 2000 Mar;127(5):933-44
4*	J:173839 Bertrand N, Roux M, Ryckebusch L, Niederreither K, Dolle P, Moon A, Capecchi M, Zaffran S, Hox genes define distinct progenitor sub-domains within the second heart field. Dev Biol. 2011 May 15;353(2):266-74
1	J:203823 Billings SE, Pierzchalski K, Butler Tjaden NE, Pang XY, Trainor PA, Kane MA, Moise AR, The retinaldehyde reductase DHRS3 is essential for preventing the formation of excess retinoic acid during embryonic development. FASEB J. 2013 Dec;27(12):4877-89
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
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
1	J:283391 de Soysa TY, Ranade SS, Okawa S, Ravichandran S, Huang Y, Salunga HT, Schricker A, Del Sol A, Gifford CA, Srivastava D, Single-cell analysis of cardiogenesis reveals basis for organ-level developmental defects. Nature. 2019 Aug;572(7767):120-124
1	J:115001 Dorrance AM, Liu S, Yuan W, Becknell B, Arnoczky KJ, Guimond M, Strout MP, Feng L, Nakamura T, Yu L, Rush LJ, Weinstein M, Leone G, Wu L, Ferketich A, Whitman SP, Marcucci G, Caligiuri MA, Mll partial tandem duplication induces aberrant Hox expression in vivo via specific epigenetic alterations. J Clin Invest. 2006 Oct;116(10):2707-16
4*	J:9951 Duboule D, Dolle P, The structural and functional organization of the murine HOX gene family resembles that of Drosophila homeotic genes. EMBO J. 1989 May;8(5):1497-505
3*	J:38388 Dupe V, Davenne M, Brocard J, Dolle P, Mark M, Dierich A, Chambon P, Rijli FM, In vivo functional analysis of the Hoxa-1 3' retinoic acid response element (3'RARE). Development. 1997 Jan;124(2):399-410
1	J:178316 Ferretti E, Li B, Zewdu R, Wells V, Hebert JM, Karner C, Anderson MJ, Williams T, Dixon J, Dixon MJ, Depew MJ, Selleri L, A conserved Pbx-Wnt-p63-Irf6 regulatory module controls face morphogenesis by promoting epithelial apoptosis. Dev Cell. 2011 Oct 18;21(4):627-41
1*	J:16389 Gendron-Maguire M, Mallo M, Zhang M, Gridley T, Hoxa-2 mutant mice exhibit homeotic transformation of skeletal elements derived from cranial neural crest. Cell. 1993 Dec 31;75(7):1317-31
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;
3*	J:186535 Herriges JC, Yi L, Hines EA, Harvey JF, Xu G, Gray PA, Ma Q, Sun X, Genome-scale study of transcription factor expression in the branching mouse lung. Dev Dyn. 2012 Sep;241(9):1432-53
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
7*	J:10124 Hosler BA, LaRosa GJ, Grippo JF, Gudas LJ, Expression of REX-1, a gene containing zinc finger motifs, is rapidly reduced by retinoic acid in F9 teratocarcinoma cells. Mol Cell Biol. 1989 Dec;9(12):5623-9
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:33651 Hunt P, Whiting J, Nonchev S, Sham MH, Marshall H, Graham A, Cook M, Allemann R, Rigby PW, Gulisano M, Faiella A, Boncinelli E, Krumlauf R, The branchial Hox code and its implications for gene regulation, patterning of the nervous system and head evolution. Development. 1991;Suppl 2:63-77
2*	J:39345 Inoue T, Chisaka O, Matsunami H, Takeichi M, Cadherin-6 expression transiently delineates specific rhombomeres, other neural tube subdivisions, and neural crest subpopulations in mouse embryos. Dev Biol. 1997 Mar 15;183(2):183-94
1	J:162938 Kang X, Qi Y, Zuo Y, Wang Q, Zou Y, Schwartz RJ, Cheng J, Yeh ET, SUMO-specific protease 2 is essential for suppression of polycomb group protein-mediated gene silencing during embryonic development. Mol Cell. 2010 Apr 23;38(2):191-201
1	J:213451 Karpinski BA, Maynard TM, Fralish MS, Nuwayhid S, Zohn IE, Moody SA, LaMantia AS, Dysphagia and disrupted cranial nerve development in a mouse model of DiGeorge (22q11) deletion syndrome. Dis Model Mech. 2014 Feb;7(2):245-57
1*	J:4243 Kessel M, Reversal of axonal pathways from rhombomere 3 correlates with extra Hox expression domains. Neuron. 1993 Mar;10(3):379-93
1	J:336393 Kessler S, Minoux M, Joshi O, Ben Zouari Y, Ducret S, Ross F, Vilain N, Salvi A, Wolff J, Kohler H, Stadler MB, Rijli FM, A multiple super-enhancer region establishes inter-TAD interactions and controls Hoxa function in cranial neural crest. Nat Commun. 2023 Jun 5;14(1):3242
2	J:265501 Kim H, Langohr IM, Faisal M, McNulty M, Thorn C, Kim J, Ablation of Ezh2 in neural crest cells leads to aberrant enteric nervous system development in mice. PLoS One. 2018;13(8):e0203391
2*	J:13573 LaRosa GJ, Gudas LJ, Early retinoic acid-induced F9 teratocarcinoma stem cell gene ERA-1: alternate splicing creates transcripts for a homeobox-containing protein and one lacking the homeobox. Mol Cell Biol. 1988 Sep;8(9):3906-17
1	J:203783 Li L, Liu B, Wapinski OL, Tsai MC, Qu K, Zhang J, Carlson JC, Lin M, Fang F, Gupta RA, Helms JA, Chang HY, Targeted disruption of Hotair leads to homeotic transformation and gene derepression. Cell Rep. 2013 Oct 17;5(1):3-12
1*	J:291732 Lin Y, Yu J, Wu J, Wang S, Zhang T, Abnormal level of CUL4B-mediated histone H2A ubiquitination causes disruptive HOX gene expression. Epigenetics Chromatin. 2019 Apr 16;12(1):22
2	J:224422 Liu M, Zhao S, Lin Q, Wang XP, YAP regulates the expression of Hoxa1 and Hoxc13 in mouse and human oral and skin epithelial tissues. Mol Cell Biol. 2015 Apr;35(8):1449-61
1	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:311909 Machado CB, Kanning KC, Kreis P, Stevenson D, Crossley M, Nowak M, Iacovino M, Kyba M, Chambers D, Blanc E, Lieberam I, Reconstruction of phrenic neuron identity in embryonic stem cell-derived motor neurons. Development. 2014 Feb;141(4):784-94
4	J:160496 Makki N, Capecchi MR, Hoxa1 lineage tracing indicates a direct role for Hoxa1 in the development of the inner ear, the heart, and the third rhombomere. Dev Biol. 2010 May 15;341(2):499-509
3	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
3*	J:178887 Makki N, Capecchi MR, Cardiovascular defects in a mouse model of HOXA1 syndrome. Hum Mol Genet. 2012 Jan 1;21(1):26-31
1*	J:97458 Matt N, Schmidt CK, Dupe V, Dennefeld C, Nau H, Chambon P, Mark M, Ghyselinck NB, Contribution of cellular retinol-binding protein type 1 to retinol metabolism during mouse development. Dev Dyn. 2005 May;233(1):167-76
2	J:42706 McGrath KE, Palis J, Expression of homeobox genes, including an insulin promoting factor, in the murine yolk sac at the time of hematopoietic initiation. Mol Reprod Dev. 1997 Oct;48(2):145-53
9*	J:44152 Mollard R, Dziadek M, Homeobox genes from clusters A and B demonstrate characteristics of temporal colinearity and differential restrictions in spatial expression domains in the branching mouse lung. Int J Dev Biol. 1997 Oct;41(5):655-66
10*	J:32084 Murphy P, Hill RE, Expression of the mouse labial-like homeobox-containing genes, Hox 2.9 and Hox 1.6, during segmentation of the hindbrain. Development. 1991 Jan;111(1):61-74
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:54067 Niederreither K, Subbarayan V, Dolle P, Chambon P, Embryonic retinoic acid synthesis is essential for early mouse post-implantation development [see comments]. Nat Genet. 1999 Apr;21(4):444-8
1	J:82804 Niederreither K, Vermot J, Le Roux I, Schuhbaur B, Chambon P, Dolle P, The regional pattern of retinoic acid synthesis by RALDH2 is essential for the development of posterior pharyngeal arches and the enteric nervous system. Development. 2003 Jun;130(11):2525-34
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:337811 Petrelli B, Ozturk A, Pind M, Ayele H, Fainsod A, Hicks GG, Genetically programmed retinoic acid deficiency during gastrulation phenocopies most known developmental defects due to acute prenatal alcohol exposure in FASD. Front Cell Dev Biol. 2023;11:1208279
2	J:246236 Rana MS, Theveniau-Ruissy M, De Bono C, Mesbah K, Francou A, Rammah M, Dominguez JN, Roux M, Laforest B, Anderson RH, Mohun T, Zaffran S, Christoffels VM, Kelly RG, Tbx1 coordinates addition of posterior second heart field progenitor cells to the arterial and venous poles of the heart. Circ Res. 2014 Oct 10;115(9):790-9
1	J:83923 Rayasam GV, Wendling O, Angrand PO, Mark M, Niederreither K, Song L, Lerouge T, Hager GL, Chambon P, Losson R, NSD1 is essential for early post-implantation development and has a catalytically active SET domain. EMBO J. 2003 Jun 16;22(12):3153-63
2	J:93020 Remacle S, Abbas L, De Backer O, Pacico N, Gavalas A, Gofflot F, Picard JJ, Rezsohazy R, Loss of function but no gain of function caused by amino acid substitutions in the hexapeptide of Hoxa1 in vivo. Mol Cell Biol. 2004 Oct;24(19):8567-75
2*	J:80131 Ren SY, Angrand PO, Rijli FM, Targeted insertion results in a rhombomere 2-specific Hoxa2 knockdown and ectopic activation of Hoxa1 expression. Dev Dyn. 2002 Nov;225(3):305-15
1	J: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
2	J:132815 Ryckebusch L, Wang Z, Bertrand N, Lin SC, Chi X, Schwartz R, Zaffran S, Niederreither K, Retinoic acid deficiency alters second heart field formation. Proc Natl Acad Sci U S A. 2008 Feb 26;105(8):2913-8
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
3	J:181230 Scotti M, Kmita M, Recruitment of 5' Hoxa genes in the allantois is essential for proper extra-embryonic function in placental mammals. Development. 2012 Feb;139(4):731-9
4*	J:218555 Sheikh BN, Downer NL, Kueh AJ, Thomas T, Voss AK, Excessive versus physiologically relevant levels of retinoic acid in embryonic stem cell differentiation. Stem Cells. 2014 Jun;32(6):1451-8
9*	J:32896 Sundin OH, Busse HG, Rogers MB, Gudas LJ, Eichele G, Region-specific expression in early chick and mouse embryos of Ghox-lab and Hox 1.6, vertebrate homeobox-containing genes related to Drosophila labial. Development. 1990 Jan;108(1):47-58
5*	J:215487 Thompson CL, Ng L, Menon V, Martinez S, Lee CK, Glattfelder K, Sunkin SM, Henry A, Lau C, Dang C, Garcia-Lopez R, Martinez-Ferre A, Pombero A, Rubenstein JL, Wakeman WB, Hohmann J, Dee N, Sodt AJ, Young R, Smith K, Nguyen TN, Kidney J, Kuan L, Jeromin A,Kaykas A, Miller J, Page D, Orta G, Bernard A, Riley Z, Smith S, Wohnoutka P, Hawrylycz MJ, Puelles L, Jones AR, A high-resolution spatiotemporal atlas of gene expression of the developing mouse brain. Neuron. 2014 Jul 16;83(2):309-23
2	J:356349 Torres L, Juarez U, Garcia L, Miranda-Rios J, Frias S, External ear microRNA expression profiles during mouse development. Int J Dev Biol. 2015;59(10-12):497-503
4	J:119279 Tvrdik P, Capecchi MR, Reversal of Hox1 gene subfunctionalization in the mouse. Dev Cell. 2006 Aug;11(2):239-50
1	J:81969 Vermot J, Niederreither K, Garnier JM, Chambon P, Dolle P, Decreased embryonic retinoic acid synthesis results in a DiGeorge syndrome phenotype in newborn mice. Proc Natl Acad Sci U S A. 2003 Feb 18;100(4):1763-8
1*	J:112455 Vesque C, Anselme I, Couve E, Charnay P, Schneider-Maunoury S, Cloning of vertebrate Protogenin (Prtg) and comparative expression analysis during axis elongation. Dev Dyn. 2006 Jul 31;235(10):2836-2844
1	J:292264 Vinckier NK, Patel NA, Geusz RJ, Wang A, Wang J, Matta I, Harrington AR, Wortham M, Wetton N, Wang J, Jhala US, Rosenfeld MG, Benner CW, Shih HP, Sander M, LSD1-mediated enhancer silencing attenuates retinoic acid signalling during pancreatic endocrine cell development. Nat Commun. 2020 Apr 29;11(1):2082
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
1	J:155755 Voss AK, Collin C, Dixon MP, Thomas T, Moz and retinoic acid coordinately regulate H3K9 acetylation, Hox gene expression, and segment identity. Dev Cell. 2009 Nov;17(5):674-86
1	J:243182 Wang H, Shun MC, Dickson AK, Engelman AN, Embryonic Lethality Due to Arrested Cardiac Development in Psip1/Hdgfrp2 Double-Deficient Mice. PLoS One. 2015;10(9):e0137797
6	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:96328 Warnecke M, Oster H, Revelli JP, Alvarez-Bolado G, Eichele G, Abnormal development of the locus coeruleus in Ear2(Nr2f6)-deficient mice impairs the functionality of the forebrain clock and affects nociception. Genes Dev. 2005 Mar 1;19(5):614-25
2	J: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
2	J:213512 Werber M, Wittler L, Timmermann B, Grote P, Herrmann BG, The tissue-specific transcriptomic landscape of the mid-gestational mouse embryo. Development. 2014 Jun;141(11):2325-30
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:222493 Yamaguchi YL, Tanaka SS, Kumagai M, Fujimoto Y, Terabayashi T, Matsui Y, Nishinakamura R, Sall4 is essential for mouse primordial germ cell specification by suppressing somatic cell program genes. Stem Cells. 2015 Jan;33(1):289-300
1*	J:246912 Ye A, Kim H, Kim J, PEG3 control on the mammalian MSL complex. PLoS One. 2017;12(6):e0178363
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: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:308982 Zhang H, Xie J, So KKH, Tong KK, Sae-Pang JJ, Wang L, Tsang SL, Chan WY, Wong EYM, Sham MH, Hoxb3 Regulates Jag1 Expression in Pharyngeal Epithelium and Affects Interaction With Neural Crest Cells. Front Physiol. 2020;11:612230
2*	J:20158 Zhang M, Kim HJ, Marshall H, Gendron-Maguire M, Lucas DA, Baron A, Gudas LJ, Gridley T, Krumlauf R, Grippo JF, Ectopic Hoxa-1 induces rhombomere transformation in mouse hindbrain. Development. 1994 Sep;120(9):2431-42
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