Barske, L., Askary, A., Zuniga, E., Balczerski, B., Bump, P., Nichols, J.T., Crump, J.G. (2016) Competition between Jagged-Notch and Endothelin1 Signaling Selectively Restricts Cartilage Formation in the Zebrafish Upper Face. PLoS Genetics. 12:e1005967

Castro, J., Fagerstrom, K., Treaster, S., Duryea, J., Charles, J., Harris, M.P. (2025) The function and regulation of celsr1a in skeletal age-associated homeostasis and repair in zebrafish. The journals of gerontology. Series A, Biological sciences and medical sciences. :

Chestnut, B., Casie Chetty, S., Koenig, A.L., Sumanas, S. (2020) Single-cell transcriptomic analysis identifies the conversion of zebrafish Etv2-deficient vascular progenitors into skeletal muscle. Nature communications. 11:2796

Elkon, R., Milon, B., Morrison, L., Shah, M., Vijayakumar, S., Racherla, M., Leitch, C.C., Silipino, L., Hadi, S., Weiss-Gayet, M., Barras, E., Schmid, C.D., Ait-Lounis, A., Barnes, A., Song, Y., Eisenman, D.J., Eliyahu, E., Frolenkov, G.I., Strome, S.E., Durand, B., Zaghloul, N.A., Jones, S.M., Reith, W., Hertzano, R. (2015) RFX transcription factors are essential for hearing in mice. Nature communications. 6:8549

Fazilaty, H., Rago, L., Kass Youssef, K., Ocaña, O.H., Garcia-Asencio, F., Arcas, A., Galceran, J., Nieto, M.A. (2019) A gene regulatory network to control EMT programs in development and disease. Nature communications. 10:5115

Giffen, K.P., Liu, H., Kramer, K.L., He, D.Z. (2019) Expression of Protein-Coding Gene Orthologs in Zebrafish and Mouse Inner Ear Non-sensory Supporting Cells. Frontiers in neuroscience. 13:1117

Hu, T., Liu, L., Wang, H., Yang, M., Xu, B., Xie, H., Lin, Z., Jin, X., Wang, P., Liu, Y., Sun, H., Liu, S. (2024) RCAN family member 3 deficiency contributes to noncompaction of the ventricular myocardium. Journal of genetics and genomics = Yi chuan xue bao. 51(5):543-553

Jayasena, C.S., and Bronner, M.E. (2012) Rbms3 functions in craniofacial development by posttranscriptionally modulating TGF-β signaling. The Journal of cell biology. 199(3):453-466

Krol, A.J., Roellig, D., Dequéant, M.L., Tassy, O., Glynn, E., Hattem, G., Mushegian, A., Oates, A.C., and Pourquié, O. (2011) Evolutionary plasticity of segmentation clock networks. Development (Cambridge, England). 138(13):2783-2792

Liu, Y., Kassack, M.E., McFaul, M.E., Christensen, L.N., Siebert, S., Wyatt, S.R., Kamei, C.N., Horst, S., Arroyo, N., Drummond, I.A., Juliano, C.E., Draper, B.W. (2022) Single-cell transcriptome reveals insights into the development and function of the zebrafish ovary. eLIFE. 11:

Mosimann, C., Panáková, D., Werdich, A.A., Musso, G., Burger, A., Lawson, K.L., Carr, L.A., Nevis, K.R., Sabeh, M.K., Zhou, Y., Davidson, A.J., DiBiase, A., Burns, C.E., Burns, C.G., MacRae, C.A., Zon, L.I. (2015) Chamber identity programs drive early functional partitioning of the heart. Nature communications. 6:8146

Ocaña, O.H., Coskun, H., Minguillón, C., Murawala, P., Tanaka, E.M., Galcerán, J., Muñoz-Chápuli, R., Nieto, M.A. (2017) A right-handed signalling pathway drives heart looping in vertebrates. Nature. 549:86-90

Okeke, C., Paulding, D., Riedel, A., Paudel, S., Phelan, C., Teng, C.S., Barske, L. (2022) Control of cranial ectomesenchyme fate by Nr2f nuclear receptors. Development (Cambridge, England). 149(23):

Seifinejad, A., Li, S., Mikhail, C., Vassalli, A., Pradervand, S., Arribat, Y., Pezeshgi Modarres, H., Allen, B., John, R.M., Amati, F., Tafti, M. (2019) Molecular codes and in vitro generation of hypocretin and melanin concentrating hormone neurons. Proceedings of the National Academy of Sciences of the United States of America. 116(34):17061-17070

Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J., and Marra,M.A. (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 99(26):16899-903

Sánchez-Iranzo, H., Galardi-Castilla, M., Sanz-Morejón, A., González-Rosa, J.M., Costa, R., Ernst, A., Sainz de Aja, J., Langa, X., Mercader, N. (2018) Transient fibrosis resolves via fibroblast inactivation in the regenerating zebrafish heart. Proceedings of the National Academy of Sciences of the United States of America. 115(16):4188-4193

Tessadori, F., de Bakker, D.E.M., Barske, L., Nelson, N., Algra, H.A., Willekers, S., Nichols, J.T., Crump, J.G., Bakkers, J. (2020) Zebrafish prrx1a mutants have normal hearts. Nature. 585:E14-E16

Tucker, N.R., Dolmatova, E.V., Lin, H., Cooper, R.R., Ye, J., Hucker, W.J., Jameson, H.S., Parsons, V.A., Weng, L.C., Mills, R.W., Sinner, M.F., Imakaev, M., Leyton-Mange, J., Vlahakes, G., Benjamin, E.J., Lunetta, K.L., Lubitz, S.A., Mirny, L., Milan, D.J., Ellinor, P.T. (2017) Diminished PRRX1 Expression Is Associated With Increased Risk of Atrial Fibrillation and Shortening of the Cardiac Action Potential.. Circulation. Cardiovascular genetics. 10(5)

Zhou, W., Cai, W., Li, Y., Gao, L., Liu, X., Liu, S., Lei, J., Zhang, J., Wang, Y., Jiang, Z., Wu, X., Fan, X., Li, F., Zheng, L., Yuan, W. (2025) The Interaction Between the asb5a and asb5b Subtypes Jointly Regulates the L-R Asymmetrical Development of the Heart in Zebrafish. International Journal of Molecular Sciences. 26:

Castro, J., Fagerstrom, K., Treaster, S., Duryea, J., Charles, J., Harris, M.P. (2025) The function and regulation of celsr1a in skeletal age-associated homeostasis and repair in zebrafish. The journals of gerontology. Series A, Biological sciences and medical sciences. :

Farmer, D.T., Dukov, J.E., Chen, H.J., Arata, C., Hernandez-Trejo, J., Xu, P., Teng, C.S., Maxson, R.E., Crump, J.G. (2024) Cellular transitions during cranial suture establishment in zebrafish. Nature communications. 15:69486948

Letelier, J., Buono, L., Almuedo-Castillo, M., Zang, J., Mounieres, C., González-Díaz, S., Polvillo, R., Sanabria-Reinoso, E., Corbacho, J., Sousa-Ortega, A., Diez Del Corral, R., Neuhauss, S.C.F., Martínez-Morales, J.R. (2023) Mutation of vsx genes in zebrafish highlights the robustness of the retinal specification network. eLIFE. 12:

Okeke, C., Paulding, D., Riedel, A., Paudel, S., Phelan, C., Teng, C.S., Barske, L. (2022) Control of cranial ectomesenchyme fate by Nr2f nuclear receptors. Development (Cambridge, England). 149(23):

Chestnut, B., Casie Chetty, S., Koenig, A.L., Sumanas, S. (2020) Single-cell transcriptomic analysis identifies the conversion of zebrafish Etv2-deficient vascular progenitors into skeletal muscle. Nature communications. 11:2796

Fazilaty, H., Rago, L., Kass Youssef, K., Ocaña, O.H., Garcia-Asencio, F., Arcas, A., Galceran, J., Nieto, M.A. (2019) A gene regulatory network to control EMT programs in development and disease. Nature communications. 10:5115

Rago, L., Castroviejo, N., Fazilaty, H., Garcia-Asencio, F., Ocaña, O.H., Galcerán, J., Nieto, M.A. (2019) MicroRNAs Establish the Right-Handed Dominance of the Heart Laterality Pathway in Vertebrates. Developmental Cell. 51:446-459.e5

Sun, Y., Zhang, B., Luo, L., Shi, D.L., Wang, H., Cui, Z., Huang, H., Cao, Y., Shu, X., Zhang, W., Zhou, J., Li, Y., Du, J., Zhao, Q., Chen, J., Zhong, H., Zhong, T.P., Li, L., Xiong, J.W., Peng, J., Xiao, W., Zhang, J., Yao, J., Yin, Z., Mo, X., Peng, G., Zhu, J., Chen, Y., Zhou, Y., Liu, D., Pan, W., Zhang, Y., Ruan, H., Liu, F., Zhu, Z., Meng, A., ZAKOC Consortium (2019) Systematic genome editing of the genes on zebrafish Chromosome 1 by CRISPR/Cas9. Genome research. 30(1):118-26

Sharma, P., MacLean, A.L., Meinecke, L., Clouthier, D., Nie, Q., Schilling, T.F. (2018) Transcriptomics reveals complex kinetics of dorsal-ventral patterning gene expression in the mandibular arch. Genesis (New York, N.Y. : 2000). 57(1):e23275

Teng, C.S., Ting, M.C., Farmer, D.T., Brockop, M., Maxson, R.E., Crump, J.G. (2018) Altered bone growth dynamics prefigure craniosynostosis in a zebrafish model of Saethre-Chotzen syndrome. eLIFE. 7:

Tucker, N.R., Dolmatova, E.V., Lin, H., Cooper, R.R., Ye, J., Hucker, W.J., Jameson, H.S., Parsons, V.A., Weng, L.C., Mills, R.W., Sinner, M.F., Imakaev, M., Leyton-Mange, J., Vlahakes, G., Benjamin, E.J., Lunetta, K.L., Lubitz, S.A., Mirny, L., Milan, D.J., Ellinor, P.T. (2017) Diminished PRRX1 Expression Is Associated With Increased Risk of Atrial Fibrillation and Shortening of the Cardiac Action Potential.. Circulation. Cardiovascular genetics. 10(5)

Fongang, B., Kudlicki, A. (2016) Comparison between Timelines of Transcriptional Regulation in Mammals, Birds, and Teleost Fish Somitogenesis. PLoS One. 11:e0155802

Mosimann, C., Panáková, D., Werdich, A.A., Musso, G., Burger, A., Lawson, K.L., Carr, L.A., Nevis, K.R., Sabeh, M.K., Zhou, Y., Davidson, A.J., DiBiase, A., Burns, C.E., Burns, C.G., MacRae, C.A., Zon, L.I. (2015) Chamber identity programs drive early functional partitioning of the heart. Nature communications. 6:8146

Chassaing, N., Sorrentino, S., Davis, E.E., Martin-Coignard, D., Iacovelli, A., Paznekas, W., Webb, B.D., Faye-Petersen, O., Encha-Razavi, F., Lequeux, L., Vigouroux, A., Yesilyurt, A., Boyadjiev, S.A., Kayserili, H., Loget, P., Carles, D., Sergi, C., Puvabanditsin, S., Chen, C.P., Etchevers, H.C., Katsanis, N., Mercer, C.L., Calvas, P., and Jabs, E.W. (2012) OTX2 mutations contribute to the otocephaly-dysgnathia complex. Journal of Medical Genetics. 49(6):373-379

Ocaña, O.H., Córcoles, R., Fabra, A., Moreno-Bueno, G., Acloque, H., Vega, S.,Barrallo-Gimeno, A., Cano, A., Nieto, M.A. (2012) Metastatic Colonization Requires the Repression of the Epithelial-Mesenchymal Transition Inducer Prrx1. Cancer Cell. 22(6):709-724

Itou, J., Taniguchi, N., Oishi, I., Kawakami, H., Lotz, M., and Kawakami, Y. (2011) HMGB factors are required for posterior digit development through integrating signaling pathway activities. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(5):1151-1162

Murata, Y., Tamura, M., Aita, Y., Fujimura, K., Murakami, Y., Okabe, M., Okada, N., and Tanaka, M. (2010) Allometric growth of the trunk leads to the rostral shift of the pelvic fin in teleost fishes. Developmental Biology. 347(1):236-245

Woods, I.G., Wilson, C., Friedlander, B., Chang, P., Reyes, D.K., Nix, R., Kelly, P.D., Chu, F., Postlethwait, J.H., and Talbot, W.S. (2005) The zebrafish gene map defines ancestral vertebrate chromosomes. Genome research. 15(9):1307-1314

Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J., and Marra,M.A. (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 99(26):16899-903