Gene Expression Literature Summary

• Symbol: Col9a1
• Name: collagen, type IX, alpha 1
• ID: MGI:88465

52 matching records from 52 references.

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

Age	E9	E9.5	E10	E10.5	E11.5	E12	E12.5	E13.5	E14	E14.5	E15	E15.5	E16	E16.5	E17.5	E18	E18.5	P
Immunohistochemistry (section)							1	1		2		2					2	4
In situ RNA (section)	1	3		3	1	1	6	3		9		6		8	1		9	6
In situ RNA (whole mount)				2			2	2
Northern blot		1		2	1		3	1		3		1		3	3		5	3
Western blot															1			1
RT-PCR			1	1	2	1	4	5	1	1		2	1		1	1	2	4
cDNA clones								1			1	1			1	1
RNase protection				1	1		1	1				2		1	2		1	3

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

Col9a1  collagen, type IX, alpha 1   (Synonyms: Col9a-1)
Results	Reference
6*	J:17466 Abe N, Yoshioka H, Inoue H, Ninomiya Y, The complete primary structure of the long form of mouse alpha 1(IX) collagen chain and its expression during limb development. Biochim Biophys Acta. 1994 Jan 11;1204(1):61-7
1	J:153618 Ahrens MJ, Li Y, Jiang H, Dudley AT, Convergent extension movements in growth plate chondrocytes require gpi-anchored cell surface proteins. Development. 2009 Oct;136(20):3463-74
1	J:166547 Airik R, Trowe MO, Foik A, Farin HF, Petry M, Schuster-Gossler K, Schweizer M, Scherer G, Kist R, Kispert A, Hydroureternephrosis due to loss of Sox9-regulated smooth muscle cell differentiation of the ureteric mesenchyme. Hum Mol Genet. 2010 Dec 15;19(24):4918-29
2	J:51376 Aszodi A, Chan D, Hunziker E, Bateman JF, Fassler R, Collagen II is essential for the removal of the notochord and the formation of intervertebral discs. J Cell Biol. 1998 Nov 30;143(5):1399-412
3	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
3	J:330573 Bonet F, Anez SB, Inacio JM, Futschik ME, Belo JA, CCBE1 Is Essential for Epicardial Function during Myocardium Development. Int J Mol Sci. 2022 Oct 20;23(20)
1	J:78596 Brandau O, Aszodi A, Hunziker EB, Neame PJ, Vestweber D, Fassler R, Chondromodulin I is dispensable during enchondral ossification and eye development. Mol Cell Biol. 2002 Sep;22(18):6627-35
1	J:213873 Chen Z, Huang J, Liu Y, Dattilo LK, Huh SH, Ornitz D, Beebe DC, FGF signaling activates a Sox9-Sox10 pathway for the formation and branching morphogenesis of mouse ocular glands. Development. 2014 Jul;141(13):2691-701
1*	J:148410 Combes AN, Lesieur E, Harley VR, Sinclair AH, Little MH, Wilhelm D, Koopman P, Three-dimensional visualization of testis cord morphogenesis, a novel tubulogenic mechanism in development. Dev Dyn. 2009 May;238(5):1033-41
1	J:58700 Costell M, Gustafsson E, Aszodi A, Morgelin M, Bloch W, Hunziker E, Addicks K, Timpl R, Fassler R, Perlecan maintains the integrity of cartilage and some basement membranes. J Cell Biol. 1999 Nov 29;147(5):1109-22
1	J:108241 Desai J, Shannon ME, Johnson MD, Ruff DW, Hughes LA, Kerley MK, Carpenter DA, Johnson DK, Rinchik EM, Culiat CT, Nell1-deficient mice have reduced expression of extracellular matrix proteins causing cranial and vertebral defects. Hum Mol Genet. 2006 Apr 15;15(8):1329-41
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
3*	J:18628 Fassler R, Schnegelsberg PN, Dausman J, Shinya T, Muragaki Y, McCarthy MT, Olsen BR, Jaenisch R, Mice lacking alpha 1 (IX) collagen develop noninflammatory degenerative joint disease. Proc Natl Acad Sci U S A. 1994 May 24;91(11):5070-4
3*	J:92176 Ficker M, Powles N, Warr N, Pirvola U, Maconochie M, Analysis of genes from inner ear developmental-stage cDNA subtraction reveals molecular regionalization of the otic capsule. Dev Biol. 2004 Apr 1;268(1):7-23
1	J:171615 Georgas KM, Chiu HS, Lesieur E, Rumballe BA, Little MH, Expression of metanephric nephron-patterning genes in differentiating mesonephric tubules. Dev Dyn. 2011 Jun;240(6):1600-12
5*	J:171409 GUDMAP Consortium, GUDMAP: the GenitoUrinary Development Molecular Anatomy Project. www.gudmap.org. 2004;
1*	J:54095 Inada M, Yasui T, Nomura S, Miyake S, Deguchi K, Himeno M, Sato M, Yamagiwa H, Kimura T, Yasui N, Ochi T, Endo N, Kitamura Y, Kishimoto T, Komori T, Maturational disturbance of chondrocytes in Cbfa1-deficient mice. Dev Dyn. 1999 Apr;214(4):279-90
1	J:101707 Inagaki M, Irie K, Ishizaki H, Tanaka-Okamoto M, Morimoto K, Inoue E, Ohtsuka T, Miyoshi J, Takai Y, Roles of cell-adhesion molecules nectin 1 and nectin 3 in ciliary body development. Development. 2005 Apr;132(7):1525-37
4	J:241397 Kamper M, Paulsson M, Zaucke F, Absence of collagen IX accelerates hypertrophic differentiation in the embryonic mouse spine through a disturbance of the Ihh-PTHrP feedback loop. Cell Tissue Res. 2017 Feb;367(2):359-367
2	J:194035 Kan A, Tabin CJ, c-Jun is required for the specification of joint cell fates. Genes Dev. 2013 Mar 1;27(5):514-24
1	J:307236 Li Y, Yang S, Qin L, Yang S, TAZ is required for chondrogenesis and skeletal development. Cell Discov. 2021 Apr 20;7(1):26
2*	J:122205 Little MH, Brennan J, Georgas K, Davies JA, Davidson DR, Baldock RA, Beverdam A, Bertram JF, Capel B, Chiu HS, Clements D, Cullen-McEwen L, Fleming J, Gilbert T, Herzlinger D, Houghton D, Kaufman MH, Kleymenova E, Koopman PA, Lewis AG, McMahon AP, Mendelsohn CL, Mitchell EK, Rumballe BA, Sweeney DE, Valerius MT, Yamada G, Yang Y, Yu J, A high-resolution anatomical ontology of the developing murine genitourinary tract. Gene Expr Patterns. 2007 Jun;7(6):680-99
17	J:16153 Liu CY, Olsen BR, Kao WW, Developmental patterns of two alpha 1(IX) collagen mRNA isoforms in mouse. Dev Dyn. 1993 Oct;198(2):150-7
2	J:202899 Liu H, Lan Y, Xu J, Chang CF, Brugmann SA, Jiang R, Odd-skipped related-1 controls neural crest chondrogenesis during tongue development. Proc Natl Acad Sci U S A. 2013 Nov 12;110(46):18555-60
1	J:193853 Makino Y, Takahashi Y, Tanabe R, Tamamura Y, Watanabe T, Haraikawa M, Hamagaki M, Hata K, Kanno J, Yoneda T, Saga Y, Goseki-Sone M, Kaneko K, Yamaguchi A, Iimura T, Spatiotemporal disorder in the axial skeleton development of the Mesp2-null mouse: a model of spondylocostal dysostosis and spondylothoracic dysostosis. Bone. 2013 Mar;53(1):248-58
1*	J:308708 Martinez ME, Hernandez A, The Type 3 Deiodinase Is a Critical Modulator of Thyroid Hormone Sensitivity in the Fetal Brain. Front Neurosci. 2021;15:703730
3*	J:82986 McClive PJ, Sinclair AH, Type II and Type IX Collagen Transcript Isoforms Are Expressed During Mouse Testis Development. Biol Reprod. 2003 May;68(5):1742-7
1	J:160358 Miyaki S, Sato T, Inoue A, Otsuki S, Ito Y, Yokoyama S, Kato Y, Takemoto F, Nakasa T, Yamashita S, Takada S, Lotz MK, Ueno-Kudo H, Asahara H, MicroRNA-140 plays dual roles in both cartilage development and homeostasis. Genes Dev. 2010 Jun 1;24(11):1173-85
13	J:40590 Perala M, Savontaus M, Metsaranta M, Vuorio E, Developmental regulation of mRNA species for types II, IX and XI collagens during mouse embryogenesis. Biochem J. 1997 May 15;324(Pt 1):209-16
19*	J:84724 Rahkonen O, Savontaus M, Abdelwahid E, Vuorio E, Jokinen E, Expression patterns of cartilage collagens and Sox9 during mouse heart development. Histochem Cell Biol. 2003 Aug;120(2):103-10
2	J:18819 Rokos I, Muragaki Y, Warman M, Olsen BR, Assembly and sequencing of a cDNA covering the entire mouse alpha 1(IX) collagen chain. Matrix Biol. 1994 Jan;14(1):1-8
4*	J:44842 Savontaus M, Metsaranta M, Vuorio E, Mutation in type II collagen gene disturbs spinal development and gene expression patterns in transgenic Del1 mice. Lab Invest. 1997 Dec;77(6):591-600
6*	J:37148 Savontaus M, Metsranta M, Vuorio E, Retarded skeletal development in transgenic mice with a type II collagen mutation. Am J Pathol. 1996 Dec;149(6):2169-82
2	J:95068 Savontaus M, Rintala-Jamsa M, Morko J, Ronning O, Metsaranta M, Vuorio E, Abnormal craniofacial development and expression patterns of extracellular matrix components in transgenic Del1 mice harboring a deletion mutation in the type II collagen gene. Orthod Craniofac Res. 2004 Nov;7(4):216-26
2*	J:249183 Saxon JG, Baer DR, Barton JA, Hawkins T, Wu B, Trusk TC, Harris SE, Zhou B, Mishina Y, Sugi Y, BMP2 expression in the endocardial lineage is required for AV endocardial cushion maturation and remodeling. Dev Biol. 2017 Oct 1;430(1):113-128
1	J:356218 Szakats S, McAtamney A, Cross H, Wilson MJ, Sex-biased gene and microRNA expression in the developing mouse brain is associated with neurodevelopmental functions and neurological phenotypes. Biol Sex Differ. 2023 Sep 7;14(1):57
3*	J:71456 Takanosu M, Boyd TC, Le Goff M, Henry SP, Zhang Y, Bishop PN, Mayne R, Structure, chromosomal location, and tissue-specific expression of the mouse opticin gene. Invest Ophthalmol Vis Sci. 2001 Sep;42(10):2202-10
1	J:99926 Tamamura Y, Otani T, Kanatani N, Koyama E, Kitagaki J, Komori T, Yamada Y, Costantini F, Wakisaka S, Pacifici M, Iwamoto M, Enomoto-Iwamoto M, Developmental regulation of Wnt/beta-catenin signals is required for growth plate assembly, cartilage integrity, and endochondral ossification. J Biol Chem. 2005 May 13;280(19):19185-95
1	J:171050 Thiagarajan RD, Georgas KM, Rumballe BA, Lesieur E, Chiu HS, Taylor D, Tang DT, Grimmond SM, Little MH, Identification of anchor genes during kidney development defines ontological relationships, molecular subcompartments and regulatory pathways. PLoS One. 2011;6(2):e17286
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
4*	J:67747 Thut CJ, Rountree RB, Hwa M, Kingsley DM, A large-scale in situ screen provides molecular evidence for the induction of eye anterior segment structures by the developing lens. Dev Biol. 2001 Mar 1;231(1):63-76
1	J:160473 Trowe MO, Shah S, Petry M, Airik R, Schuster-Gossler K, Kist R, Kispert A, Loss of Sox9 in the periotic mesenchyme affects mesenchymal expansion and differentiation, and epithelial morphogenesis during cochlea development in the mouse. Dev Biol. 2010 Jun 1;342(1):51-62
3	J:48562 Wai AW, Ng LJ, Watanabe H, Yamada Y, Tam PP, Cheah KS, Disrupted expression of matrix genes in the growth plate of the mouse cartilage matrix deficiency (cmd) mutant. Dev Genet. 1998;22(4):349-58
1	J:286823 Wang L, Tang Q, Xu J, Li H, Yang T, Li L, Machon O, Hu T, Chen Y, The transcriptional regulator MEIS2 sets up the ground state for palatal osteogenesis in mice. J Biol Chem. 2020 Apr 17;295(16):5449-5460
1*	J:279388 Weiss AC, Bohnenpoll T, Kurz J, Blank P, Airik R, Ludtke TH, Kleppa MJ, Deuper L, Kaiser M, Mamo TM, Costa R, von Hahn T, Trowe MO, Kispert A, Delayed onset of smooth muscle cell differentiation leads to hydroureter formation in mice with conditional loss of the zinc finger transcription factor gene Gata2 in the ureteric mesenchyme. J Pathol. 2019 Aug;248(4):452-463
1*	J:307862 Wilkerson BA, Zebroski HL, Finkbeiner CR, Chitsazan AD, Beach KE, Sen N, Zhang RC, Bermingham-McDonogh O, Novel cell types and developmental lineages revealed by single-cell RNA-seq analysis of the mouse crista ampullaris. Elife. 2021 May 18;10:e60108
1	J:172737 Wilson DG, Phamluong K, Li L, Sun M, Cao TC, Liu PS, Modrusan Z, Sandoval WN, Rangell L, Carano RA, Peterson AS, Solloway MJ, Global defects in collagen secretion in a Mia3/TANGO1 knockout mouse. J Cell Biol. 2011 May 30;193(5):935-51
1*	J:341382 Wu B, Wu B, Benkaci S, Shi L, Lu P, Park T, Morrow BE, Wang Y, Zhou B, Crk and Crkl Are Required in the Endocardial Lineage for Heart Valve Development. J Am Heart Assoc. 2023 Sep 19;12(18):e029683
3*	J:327588 Yamada R, Oguri A, Fujiki K, Shirahige K, Takezoe H, Takahashi N, Kanai Y, Single-cell transcriptional analysis reveals developmental stage-dependent changes in retinal progenitors in the murine early optic vesicle. Biochem Biophys Res Commun. 2021 Mar 5;543:80-86
1*	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
1	J:286157 Zheng C, Lin X, Xu X, Wang C, Zhou J, Gao B, Fan J, Lu W, Hu Y, Jie Q, Luo Z, Yang L, Suppressing UPR-dependent overactivation of FGFR3 signaling ameliorates SLC26A2-deficient chondrodysplasias. EBioMedicine. 2019 Feb;40:695-709
1	J:118268 Zhou G, Zheng Q, Engin F, Munivez E, Chen Y, Sebald E, Krakow D, Lee B, Dominance of SOX9 function over RUNX2 during skeletogenesis. Proc Natl Acad Sci U S A. 2006 Dec 12;103(50):19004-9