Gene Expression Literature Summary

• Symbol: Rora
• Name: RAR-related orphan receptor alpha
• ID: MGI:104661

77 matching records from 77 references.

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

Age	E1.5	E2	E2.5	E3	E3.5	E4.5	E10.5	E11	E11.5	E12.5	E13	E13.5	E14	E14.5	E15	E15.5	E16	E16.5	E17	E17.5	E18	E18.5	E19.5	E	P
Immunohistochemistry (section)										1		2	2	4		2	1	1	2	4	2	4			11
In situ RNA (section)							1		4	6	1	3	1	12	1	10	1	2		7		9	2	2	20
In situ RNA (whole mount)							1					1				2
In situ reporter (knock in)																									1
Northern blot																									2
RT-PCR	1	1	1	1	1	1		1	1	3	1	1			2	2	1	1	1	2		2		1	10

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

Rora  RAR-related orphan receptor alpha   (Synonyms: 9530021D13Rik, Nr1f1, tmgc26)
Results	Reference
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1	J:317412 Cheng AH, Fung SW, Hegazi S, Abdalla OHMH, Cheng HM, SOX2 Regulates Neuronal Differentiation of the Suprachiasmatic Nucleus. Int J Mol Sci. 2021 Dec 26;23(1)
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:307860 Choquet H, Melles RB, Anand D, Yin J, Cuellar-Partida G, Wang W, Hoffmann TJ, Nair KS, Hysi PG, Lachke SA, Jorgenson E, A large multiethnic GWAS meta-analysis of cataract identifies new risk loci and sex-specific effects. Nat Commun. 2021 Jun 14;12(1):3595
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2	J:110576 Croci L, Chung SH, Masserdotti G, Gianola S, Bizzoca A, Gennarini G, Corradi A, Rossi F, Hawkes R, Consalez GG, A key role for the HLH transcription factor EBF2COE2,O/E-3 in Purkinje neuron migration and cerebellar cortical topography. Development. 2006 Jul;133(14):2719-29
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:250135 Ding M, Weng C, Fan S, Cao Q, Lu Z, Purkinje Cell Degeneration and Motor Coordination Deficits in a New Mouse Model of Autosomal Recessive Spastic Ataxia of Charlevoix-Saguenay. Front Mol Neurosci. 2017;10:121
1	J:274335 Draganova K, Zemke M, Zurkirchen L, Valenta T, Cantu C, Okoniewski M, Schmid MT, Hoffmans R, Gotz M, Basler K, Sommer L, Wnt/beta-catenin signaling regulates sequential fate decisions of murine cortical precursor cells. Stem Cells. 2015 Jan;33(1):170-82
2	J:235684 Feng X, Juan AH, Wang HA, Ko KD, Zare H, Sartorelli V, Polycomb Ezh2 controls the fate of GABAergic neurons in the embryonic cerebellum. Development. 2016 Jun 1;143(11):1971-80
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1	J:119485 Friedel RH, Kerjan G, Rayburn H, Schuller U, Sotelo C, Tessier-Lavigne M, Chedotal A, Plexin-B2 controls the development of cerebellar granule cells. J Neurosci. 2007 Apr 4;27(14):3921-32
4*	J:143073 Fujieda H, Bremner R, Mears AJ, Sasaki H, Retinoic acid receptor-related orphan receptor alpha regulates a subset of cone genes during mouse retinal development. J Neurochem. 2009 Jan;108(1):91-101
3	J:87181 Gold DA, Baek SH, Schork NJ, Rose DW, Larsen DD, Sachs BD, Rosenfeld MG, Hamilton BA, RORalpha coordinates reciprocal signaling in cerebellar development through sonic hedgehog and calcium-dependent pathways. Neuron. 2003 Dec 18;40(6):1119-31
2	J:332216 Govek KW, Chen S, Sgourdou P, Yao Y, Woodhouse S, Chen T, Fuccillo MV, Epstein DJ, Camara PG, Developmental trajectories of thalamic progenitors revealed by single-cell transcriptome profiling and Shh perturbation. Cell Rep. 2022 Dec 6;41(10):111768
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
1	J:149261 Grimaldi P, Parras C, Guillemot F, Rossi F, Wassef M, Origins and control of the differentiation of inhibitory interneurons and glia in the cerebellum. Dev Biol. 2009 Apr 15;328(2):422-33
2*	J:171409 GUDMAP Consortium, GUDMAP: the GenitoUrinary Development Molecular Anatomy Project. www.gudmap.org. 2004;
7*	J:140465 Guo G, Huss M, Tong GQ, Wang C, Li Sun L, Clarke ND, Robson P, Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Dev Cell. 2010 Apr 20;18(4):675-85
4	J:218172 Ha T, Swanson D, Larouche M, Glenn R, Weeden D, Zhang P, Hamre K, Langston M, Phillips C, Song M, Ouyang Z, Chesler E, Duvvurru S, Yordanova R, Cui Y, Campbell K, Ricker G, Phillips C, Homayouni R, Goldowitz D, CbGRiTS: cerebellar gene regulation in time and space. Dev Biol. 2015 Jan 1;397(1):18-30
5*	J:31470 Hamilton BA, Frankel WN, Kerrebrock AW, Hawkins TL, FitzHugh W, Kusumi K, Russell LB, Mueller KL, van Berkel V, Birren BW, Kruglyak L, Lander ES, Disruption of the nuclear hormone receptor RORalpha in staggerer mice. Nature. 1996 Feb 22;379(6567):736-9
2	J:184447 Hu J, Huang T, Li T, Guo Z, Cheng L, c-Maf is required for the development of dorsal horn laminae III/IV neurons and mechanoreceptive DRG axon projections. J Neurosci. 2012 Apr 18;32(16):5362-73
1	J:338083 Hwang I, Kim BS, Ko HR, Cho S, Lee HY, Cho SW, Ryu D, Shim S, Ahn JY, Cerebellar dysfunction and schizophrenia-like behavior in Ebp1-deficient mice. Mol Psychiatry. 2022 Apr;27(4):2030-2041
4*	J:282029 Ino H, Immunohistochemical characterization of the orphan nuclear receptor ROR alpha in the mouse nervous system. J Histochem Cytochem. 2004 Mar;52(3):311-23
2	J:259920 Ju J, Liu Q, Zhang Y, Liu Y, Jiang M, Zhang L, He X, Peng C, Zheng T, Lu QR, Li H, Olig2 regulates Purkinje cell generation in the early developing mouse cerebellum. Sci Rep. 2016 Jul 29;6:30711
1	J:226965 Kato K, Bhattaram P, Penzo-Mendez A, Gadi A, Lefebvre V, SOXC Transcription Factors Induce Cartilage Growth Plate Formation in Mouse Embryos by Promoting Noncanonical WNT Signaling. J Bone Miner Res. 2015 Sep;30(9):1560-71
1	J:171332 Kato TM, Kawaguchi A, Kosodo Y, Niwa H, Matsuzaki F, Lunatic fringe potentiates Notch signaling in the developing brain. Mol Cell Neurosci. 2010 Sep;45(1):12-25
1*	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
1	J:109564 Li MZ, Wang JS, Jiang DJ, Xiang CX, Wang FY, Zhang KH, Williams PR, Chen ZF, Molecular mapping of developing dorsal horn-enriched genes by microarray and dorsal/ventral subtractive screening. Dev Biol. 2006 Apr 15;292(2):555-64
2	J:293412 Lipiec MA, Bem J, Kozinski K, Chakraborty C, Urban-Ciecko J, Zajkowski T, Dabrowski M, Szewczyk LM, Toval A, Ferran JL, Nagalski A, Wisniewska MB, TCF7L2 regulates postmitotic differentiation programmes and excitability patterns in the thalamus. Development. 2020 Aug 25;147(16):dev190181
1*	J:270210 Loo L, Simon JM, Xing L, McCoy ES, Niehaus JK, Guo J, Anton ES, Zylka MJ, Single-cell transcriptomic analysis of mouse neocortical development. Nat Commun. 2019 Jan 11;10(1):134
4*	J:85727 Louvi A, Alexandre P, Metin C, Wurst W, Wassef M, The isthmic neuroepithelium is essential for cerebellar midline fusion. Development. 2003 Nov;130(22):5319-30
1*	J:91057 Louvi A, Sisodia SS, Grove EA, Presenilin 1 in migration and morphogenesis in the central nervous system. Development. 2004 Jul;131(13):3093-105
3*	J:162220 Magdaleno S, Jensen P, Brumwell CL, Seal A, Lehman K, Asbury A, Cheung T, Cornelius T, Batten DM, Eden C, Norland SM, Rice DS, Dosooye N, Shakya S, Mehta P, Curran T, BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. PLoS Biol. 2006 Apr;4(4):e86
1	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
1	J:152678 Maricich SM, Xia A, Mathes EL, Wang VY, Oghalai JS, Fritzsch B, Zoghbi HY, Atoh1-lineal neurons are required for hearing and for the survival of neurons in the spiral ganglion and brainstem accessory auditory nuclei. J Neurosci. 2009 Sep 9;29(36):11123-33
2	J:302306 Martinez LR, Black KC, Webb BT, Bell A, Baygani SK, Mier TJ, Dominguez L, Mackie K, Kalinovsky A, Components of Endocannabinoid Signaling System Are Expressed in the Perinatal Mouse Cerebellum and Required for Its Normal Development. eNeuro. 2020 Mar/Apr;7(2):ENEURO.0471-19.2020
1	J:139387 Marzban H, Kim CT, Doorn D, Chung SH, Hawkes R, A novel transverse expression domain in the mouse cerebellum revealed by a neurofilament-associated antigen. Neuroscience. 2008 Jun 2;153(4):1190-201
1	J:239291 Metzakopian E, Bouhali K, Alvarez-Saavedra M, Whitsett JA, Picketts DJ, Ang SL, Genome-wide characterisation of Foxa1 binding sites reveals several mechanisms for regulating neuronal differentiation in midbrain dopamine cells. Development. 2015 Apr 01;142(7):1315-24
2*	J:137604 Minaki Y, Nakatani T, Mizuhara E, Inoue T, Ono Y, Identification of a novel transcriptional corepressor, Corl2, as a cerebellar Purkinje cell-selective marker. Gene Expr Patterns. 2008 Jul;8(6):418-23
3	J:331478 Monko T, Rebertus J, Stolley J, Salton SR, Nakagawa Y, Thalamocortical axons regulate neurogenesis and laminar fates in the early sensory cortex. Proc Natl Acad Sci U S A. 2022 May 31;119(22):e2201355119
3*	J:41898 Nakagawa S, Watanabe M, Inoue Y, Prominent expression of nuclear hormone receptor ROR alpha in Purkinje cells from early development. Neurosci Res. 1997 Jun;28(2):177-84
5*	J:85879 Nakagawa Y, O'Leary DD, Dynamic patterned expression of orphan nuclear receptor genes RORalpha and RORbeta in developing mouse forebrain. Dev Neurosci. 2003 Mar-Aug;25(2-4):234-44
6	J:208769 Nakatani T, Minaki Y, Kumai M, Nitta C, Ono Y, The c-Ski family member and transcriptional regulator Corl2/Skor2 promotes early differentiation of cerebellar Purkinje cells. Dev Biol. 2014 Apr 1;388(1):68-80
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1	J:283325 Oberbeck N, Pham VC, Webster JD, Reja R, Huang CS, Zhang Y, Roose-Girma M, Warming S, Li Q, Birnberg A, Wong W, Sandoval W, Komuves LG, Yu K, Dugger DL, Maltzman A, Newton K, Dixit VM, The RIPK4-IRF6 signalling axis safeguards epidermal differentiation and barrier function. Nature. 2019 Oct;574(7777):249-253
1	J:286219 Pandolfi EC, Breuer JA, Nguyen Huu VA, Talluri T, Nguyen D, Lee JS, Hu R, Bharti K, Skowronska-Krawczyk D, Gorman MR, Mellon PL, Hoffmann HM, The Homeodomain Transcription Factors Vax1 and Six6 Are Required for SCN Development and Function. Mol Neurobiol. 2020 Feb;57(2):1217-1232
1	J:120058 Pascual M, Abasolo I, Mingorance-Le Meur A, Martinez A, Del Rio JA, Wright CV, Real FX, Soriano E, Cerebellar GABAergic progenitors adopt an external granule cell-like phenotype in the absence of Ptf1a transcription factor expression. Proc Natl Acad Sci U S A. 2007 Mar 20;104(12):5193-8
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1	J:280142 Quintana-Urzainqui I, Kozic Z, Mitra S, Tian T, Manuel M, Mason JO, Price DJ, Tissue-Specific Actions of Pax6 on Proliferation and Differentiation Balance in Developing Forebrain Are Foxg1 Dependent. iScience. 2018 Dec 21;10:171-191
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1	J:290398 Suh J, Romano DM, Nitschke L, Herrick SP, DiMarzio BA, Dzhala V, Bae JS, Oram MK, Zheng Y, Hooli B, Mullin K, Gennarino VA, Wasco W, Schmahmann JD, Albers MW, Zoghbi HY, Tanzi RE, Loss of Ataxin-1 Potentiates Alzheimer's Pathogenesis by Elevating Cerebral BACE1 Transcription. Cell. 2019 Aug 22;178(5):1159-1175.e17
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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
6	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
1*	J:251975 Vibulyaseck S, Fujita H, Luo Y, Tran AK, Oh-Nishi A, Ono Y, Hirano S, Sugihara I, Spatial rearrangement of Purkinje cell subsets forms the transverse and longitudinal compartmentalization in the mouse embryonic cerebellum. J Comp Neurol. 2017 Oct 1;525(14):2971-2990
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4	J:147427 Vue TY, Bluske K, Alishahi A, Yang LL, Koyano-Nakagawa N, Novitch B, Nakagawa Y, Sonic hedgehog signaling controls thalamic progenitor identity and nuclei specification in mice. J Neurosci. 2009 Apr 8;29(14):4484-97
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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:293436 Wilson SL, Kalinovsky A, Orvis GD, Joyner AL, Spatially restricted and developmentally dynamic expression of engrailed genes in multiple cerebellar cell types. Cerebellum. 2011 Sep;10(3):356-72
1	J:212272 Wu J, Bao J, Kim M, Yuan S, Tang C, Zheng H, Mastick GS, Xu C, Yan W, Two miRNA clusters, miR-34b/c and miR-449, are essential for normal brain development, motile ciliogenesis, and spermatogenesis. Proc Natl Acad Sci U S A. 2014 Jul 15;111(28):E2851-7
2	J:306911 Yamashiro K, Hori K, Lai ESK, Aoki R, Shimaoka K, Arimura N, Egusa SF, Sakamoto A, Abe M, Sakimura K, Watanabe T, Uesaka N, Kano M, Hoshino M, AUTS2 Governs Cerebellar Development, Purkinje Cell Maturation, Motor Function and Social Communication. iScience. 2020 Dec 18;23(12):101820
2	J:335582 Yuan W, Ma S, Brown JR, Kim K, Murek V, Trastulla L, Meissner A, Lodato S, Shetty AS, Levin JZ, Buenrostro JD, Ziller MJ, Arlotta P, Temporally divergent regulatory mechanisms govern neuronal diversification and maturation in the mouse and marmoset neocortex. Nat Neurosci. 2022 Aug;25(8):1049-1058
2*	J:310864 Zainolabidin N, Kamath SP, Thanawalla AR, Chen AI, Distinct Activities of Tfap2A and Tfap2B in the Specification of GABAergic Interneurons in the Developing Cerebellum. Front Mol Neurosci. 2017;10:281
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