Gene Expression Literature Summary

• Symbol: Irx1
• Name: Iroquois homeobox 1
• ID: MGI:1197515

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	E6.5	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	E	P
Immunohistochemistry (section)												1		1		1				2				1		1
In situ RNA (section)		1		2		5	2	4	2	10	2	8		14	1	7	1	6	1	3		2	1	3	3	7
In situ RNA (whole mount)	1	2	1	4	3	7	2	10	1	8	1	4		5		4	1	2
In situ reporter (knock in)								1		1		2		1			1									2
Northern blot								1							1							1			1
Western blot																										1
RT-PCR						1		1		1		1	1	2		2	1	1		2	1			1		4
cDNA clones				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

Irx1  Iroquois homeobox 1
Results	Reference
1	J:307093 Amato CM, Yao HH, Developmental and sexual dimorphic atlas of the prenatal mouse external genitalia at the single-cell level. Proc Natl Acad Sci U S A. 2021 Jun 22;118(25):e2103856118
3	J:243561 Basta JM, Robbins L, Denner DR, Kolar GR, Rauchman M, A Sall1-NuRD interaction regulates multipotent nephron progenitors and is required for loop of Henle formation. Development. 2017 Sep 01;144(17):3080-3094
7*	J:70831 Becker MB, Zulch A, Bosse A, Gruss P, Irx1 and Irx2 expression in early lung development. Mech Dev. 2001 Aug;106(1-2):155-8
1	J:297087 Bian Q, Cheng YH, Wilson JP, Su EY, Kim DW, Wang H, Yoo S, Blackshaw S, Cahan P, A single cell transcriptional atlas of early synovial joint development. Development. 2020 Jul 20;147(14):dev185777
14*	J:45683 Bosse A, Zulch A, Becker MB, Torres M, Gomez-Skarmeta JL, Modolell J, Gruss P, Identification of the vertebrate Iroquois homeobox gene family with overlapping expression during early development of the nervous system. Mech Dev. 1997 Dec;69(1-2):169-81
2	J:67359 Bruneau BG, Bao ZZ, Fatkin D, Xavier-Neto J, Georgakopoulos D, Maguire CT, Berul CI, Kass DA, Kuroski-de Bold ML, de Bold AJ, Conner DA, Rosenthal N, Cepko CL, Seidman CE, Seidman JG, Cardiomyopathy in Irx4-deficient mice is preceded by abnormal ventricular gene expression. Mol Cell Biol. 2001 Mar;21(5):1730-6
1	J:266003 Caballero IM, Manuel MN, Molinek M, Quintana-Urzainqui I, Mi D, Shimogori T, Price DJ, Cell-autonomous repression of Shh by transcription factor Pax6 regulates diencephalic patterning by controlling the central diencephalic organizer. Cell Rep. 2014 Sep 11;8(5):1405-18
1	J:239780 Caputo L, Witzel HR, Kolovos P, Cheedipudi S, Looso M, Mylona A, van IJcken WF, Laugwitz KL, Evans SM, Braun T, Soler E, Grosveld F, Dobreva G, The Isl1/Ldb1 Complex Orchestrates Genome-wide Chromatin Organization to Instruct Differentiation of Multipotent Cardiac Progenitors. Cell Stem Cell. 2015 Sep 03;17(3):287-99
2	J:322321 Catela C, Chen Y, Weng Y, Wen K, Kratsios P, Control of spinal motor neuron terminal differentiation through sustained Hoxc8 gene activity. Elife. 2022 Mar 22;11:e70766
2	J:224508 Chatterjee M, Guo Q, Weber S, Scholpp S, Li JY, Pax6 regulates the formation of the habenular nuclei by controlling the temporospatial expression of Shh in the diencephalon in vertebrates. BMC Biol. 2014;12:13
9*	J:64020 Christoffels VM, Keijser AG, Houweling AC, Clout DE, Moorman AF, Patterning the embryonic heart: identification of five mouse Iroquois homeobox genes in the developing heart. Dev Biol. 2000 Aug 15;224(2):263-74
5*	J:61328 Cohen DR, Cheng CW, Cheng SH, Hui C, Expression of two novel mouse iroquois homeobox genes during neurogenesis. Mech Dev. 2000 Mar 1;91(1-2):317-21
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:92061 Eng SR, Lanier J, Fedtsova N, Turner EE, Coordinated regulation of gene expression by Brn3a in developing sensory ganglia. Development. 2004 Aug;131(16):3859-70
2	J:272612 Eyal S, Rubin S, Krief S, Levin L, Zelzer E, Common cellular origin and diverging developmental programs for different sesamoid bones. Development. 2019 Feb 28;146(4):dev167452
9*	J:73527 Ferguson CA, Tucker AS, Heikinheimo K, Nomura M, Oh P, Li E, Sharpe PT, The role of effectors of the activin signalling pathway, activin receptors IIA and IIB, and Smad2, in patterning of tooth development. Development. 2001 Nov;128(22):4605-13
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:244992 Gomez-Velazquez M, Badia-Careaga C, Lechuga-Vieco AV, Nieto-Arellano R, Tena JJ, Rollan I, Alvarez A, Torroja C, Caceres EF, Roy AR, Galjart N, Delgado-Olguin P, Sanchez-Cabo F, Enriquez JA, Gomez-Skarmeta JL, Manzanares M, CTCF counter-regulates cardiomyocyte development and maturation programs in the embryonic heart. PLoS Genet. 2017 Aug;13(8):e1006985
1*	J:98371 Gotz K, Briscoe J, Ruther U, Homozygous Ft embryos are affected in floor plate maintenance and ventral neural tube patterning. Dev Dyn. 2005 Jun;233(2):623-30
2*	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
2*	J:171409 GUDMAP Consortium, GUDMAP: the GenitoUrinary Development Molecular Anatomy Project. www.gudmap.org. 2004;
1	J:162637 Hang CT, Yang J, Han P, Cheng HL, Shang C, Ashley E, Zhou B, Chang CP, Chromatin regulation by Brg1 underlies heart muscle development and disease. Nature. 2010 Jul 1;466(7302):62-7
2	J:194051 Heliot C, Desgrange A, Buisson I, Prunskaite-Hyyrylainen R, Shan J, Vainio S, Umbhauer M, Cereghini S, HNF1B controls proximal-intermediate nephron segment identity in vertebrates by regulating Notch signalling components and Irx1/2. Development. 2013 Feb;140(4):873-85
5	J:119561 Hirata T, Nakazawa M, Muraoka O, Nakayama R, Suda Y, Hibi M, Zinc-finger genes Fez and Fez-like function in the establishment of diencephalon subdivisions. Development. 2006 Oct;133(20):3993-4004
14*	J:71423 Houweling AC, Dildrop R, Peters T, Mummenhoff J, Moorman AF, Ruther U, Christoffels VM, Gene and cluster-specific expression of the Iroquois family members during mouse development. Mech Dev. 2001 Sep;107(1-2):169-74
4	J:338900 Huang R, Zhang C, Zheng Y, Zhang W, Huang H, Qiu M, Li J, Li F, ISL1 regulates lung branching morphogenesis via Shh signaling pathway. J Biol Chem. 2023 Jul 11;299(8):105034
1	J:306907 Kodani N, Nakae J, Kobayashi M, Kikuchi O, Kitamura T, Itoh H, FCoR-Foxo1 Axis Regulates alpha-Cell Mass through Repression of Arx Expression. iScience. 2020 Jan 24;23(1):100798
2*	J:228563 Koscielny G, Yaikhom G, Iyer V, Meehan TF, Morgan H, Atienza-Herrero J, Blake A, Chen CK, Easty R, Di Fenza A, Fiegel T, Grifiths M, Horne A, Karp NA, Kurbatova N, Mason JC, Matthews P, Oakley DJ, Qazi A, Regnart J, Retha A, Santos LA, Sneddon DJ, Warren J, Westerberg H, Wilson RJ, Melvin DG, Smedley D, Brown SD, Flicek P, Skarnes WC, Mallon AM, Parkinson H, The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data. Nucleic Acids Res. 2014 Jan;42(Database issue):D802-9
3	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
3	J:86477 Lebel M, Agarwal P, Cheng CW, Kabir MG, Chan TY, Thanabalasingham V, Zhang X, Cohen DR, Husain M, Cheng SH, Bruneau BG, Hui CC, The Iroquois homeobox gene Irx2 is not essential for normal development of the heart and midbrain-hindbrain boundary in mice. Mol Cell Biol. 2003 Nov;23(22):8216-25
1	J:241012 Lee M, Yoon J, Song H, Lee B, Lam DT, Yoon J, Baek K, Clevers H, Jeong Y, Tcf7l2 plays crucial roles in forebrain development through regulation of thalamic and habenular neuron identity and connectivity. Dev Biol. 2017 Apr 01;424(1):62-76
4	J:308430 Lopez-Gonzalez L, Alonso A, Garcia-Calero E, de Puelles E, Puelles L, Tangential Intrahypothalamic Migration of the Mouse Ventral Premamillary Nucleus and Fgf8 Signaling. Front Cell Dev Biol. 2021;9:676121
3	J:227021 Mallika C, Guo Q, Li JY, Gbx2 is essential for maintaining thalamic neuron identity and repressing habenular characters in the developing thalamus. Dev Biol. 2015 Nov 1;407(1):26-39
3	J:194050 Massa F, Garbay S, Bouvier R, Sugitani Y, Noda T, Gubler MC, Heidet L, Pontoglio M, Fischer E, Hepatocyte nuclear factor 1beta controls nephron tubular development. Development. 2013 Feb;140(4):886-96
1	J:243618 McCracken KW, Aihara E, Martin B, Crawford CM, Broda T, Treguier J, Zhang X, Shannon JM, Montrose MH, Wells JM, Wnt/beta-catenin promotes gastric fundus specification in mice and humans. Nature. 2017 Jan 12;541(7636):182-187
6	J:163793 McDonald LA, Gerrelli D, Fok Y, Hurst LD, Tickle C, Comparison of Iroquois gene expression in limbs/fins of vertebrate embryos. J Anat. 2010 Jun;216(6):683-91
1*	J:112887 Mori AD, Zhu Y, Vahora I, Nieman B, Koshiba-Takeuchi K, Davidson L, Pizard A, Seidman JG, Seidman CE, Chen XJ, Henkelman RM, Bruneau BG, Tbx5-dependent rheostatic control of cardiac gene expression and morphogenesis. Dev Biol. 2006 Sep 15;297(2):566-86
1*	J:333713 Narwidina A, Miyazaki A, Iwata K, Kurogoushi R, Sugimoto A, Kudo Y, Kawarabayashi K, Yamakawa Y, Akazawa Y, Kitamura T, Nakagawa H, Yamaguchi-Ueda K, Hasegawa T, Yoshizaki K, Fukumoto S, Yamamoto A, Ishimaru N, Iwasaki T, Iwamoto T, Iroquois homeobox 3 regulates odontoblast proliferation and differentiation mediated by Wnt5a expression. Biochem Biophys Res Commun. 2023 Apr 2;650:47-54
2	J:309384 Neirijnck Y, Reginensi A, Renkema KY, Massa F, Kozlov VM, Dhib H, Bongers EMHF, Feitz WF, van Eerde AM, Lefebvre V, Knoers NVAM, Tabatabaei M, Schulz H, McNeill H, Schaefer F, Wegner M, Sock E, Schedl A, Sox11 gene disruption causes congenital anomalies of the kidney and urinary tract (CAKUT). Kidney Int. 2018 May;93(5):1142-1153
1	J:283357 Nowotschin S, Setty M, Kuo YY, Liu V, Garg V, Sharma R, Simon CS, Saiz N, Gardner R, Boutet SC, Church DM, Hoodless PA, Hadjantonakis AK, Pe'er D, The emergent landscape of the mouse gut endoderm at single-cell resolution. Nature. 2019 May;569(7756):361-367
3	J:116620 Petri A, Ahnfelt-Ronne J, Frederiksen KS, Edwards DG, Madsen D, Serup P, Fleckner J, Heller RS, The effect of neurogenin3 deficiency on pancreatic gene expression in embryonic mice. J Mol Endocrinol. 2006 Oct;37(2):301-16
3	J:336866 Puelles L, Hidalgo-Sanchez M, The Midbrain Preisthmus: A Poorly Known Effect of the Isthmic Organizer. Int J Mol Sci. 2023 Jun 5;24(11)
1	J:123264 Quina LA, Pak W, Lanier J, Banwait P, Gratwick K, Liu Y, Velasquez T, O'Leary DD, Goulding M, Turner EE, Brn3a-expressing retinal ganglion cells project specifically to thalamocortical and collicular visual pathways. J Neurosci. 2005 Dec 14;25(50):11595-604
2	J:154739 Quina LA, Wang S, Ng L, Turner EE, Brn3a and Nurr1 mediate a gene regulatory pathway for habenula development. J Neurosci. 2009 Nov 11;29(45):14309-22
2*	J:125316 Reggiani L, Raciti D, Airik R, Kispert A, Brandli AW, The prepattern transcription factor Irx3 directs nephron segment identity. Genes Dev. 2007 Sep 15;21(18):2358-70
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:306135 Shimizu R, Ishihara K, Kawashita E, Sago H, Yamakawa K, Mizutani KI, Akiba S, Decrease in the T-box1 gene expression in embryonic brain and adult hippocampus of down syndrome mouse models. Biochem Biophys Res Commun. 2021 Jan 8;535:87-92
1	J:308790 Sweat M, Sweat Y, Yu W, Su D, Leonard RJ, Eliason SL, Amendt BA, The miR-200 family is required for ectodermal organ development through the regulation of the epithelial stem cell niche. Stem Cells. 2021 Jun;39(6):761-775
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
1	J:105309 van Tuyl M, Liu J, Groenman F, Ridsdale R, Han RN, Venkatesh V, Tibboel D, Post M, Iroquois genes influence proximo-distal morphogenesis during rat lung development. Am J Physiol Lung Cell Mol Physiol. 2006 Apr;290(4):L777-L789
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
2	J:340740 Xu J, Zhou X, Zhang T, Zhang B, Xu PX, Smarca4 deficiency induces Pttg1 oncogene upregulation and hyperproliferation of tubular and interstitial cells during kidney development. Front Cell Dev Biol. 2023;11:1233317
9*	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
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
2	J:184004 Yu J, Valerius MT, Duah M, Staser K, Hansard JK, Guo JJ, McMahon J, Vaughan J, Faria D, Georgas K, Rumballe B, Ren Q, Krautzberger AM, Junker JP, Thiagarajan RD, Machanick P, Gray PA, van Oudenaarden A, Rowitch DH, Stiles CD, Ma Q, Grimmond SM, Bailey TL, Little MH, McMahon AP, Identification of molecular compartments and genetic circuitry in the developing mammalian kidney. Development. 2012 May;139(10):1863-73
12*	J:248919 Yu W, Li X, Eliason S, Romero-Bustillos M, Ries RJ, Cao H, Amendt BA, Irx1 regulates dental outer enamel epithelial and lung alveolar type II epithelial differentiation. Dev Biol. 2017 Sep 1;429(1):44-55
2	J:290855 Yu W, Sun Z, Sweat Y, Sweat M, Venugopalan SR, Eliason S, Cao H, Paine ML, Amendt BA, Pitx2-Sox2-Lef1 interactions specify progenitor oral/dental epithelial cell signaling centers. Development. 2020 Jun 4;147(11):dev186023
6*	J:70832 Zulch A, Becker MB, Gruss P, Expression pattern of Irx1 and Irx2 during mouse digit development. Mech Dev. 2001 Aug;106(1-2):159-62