Bayliss, P.E., Bellavance, K.L., Whitehead, G.G., Abrams, J.M., Aegerter, S., Robbins, H.S., Cowan, D.B., Keating, M.T., O'reilly, T., Wood, J.M., Roberts, T.M., and Chan, J. (2006) Chemical modulation of receptor signaling inhibits regenerative angiogenesis in adult zebrafish. Nature Chemical Biology. 2(5):265-273

Britto, D.D., He, J., Misa, J.P., Chen, W., Kakadia, P.M., Grimm, L., Herbert, C.D., Crosier, K.E., Crosier, P.S., Bohlander, S.K., Hogan, B.M., Hall, C.J., Torres-Vázquez, J., Astin, J.W. (2022) Plexind1 negatively regulates zebrafish lymphatic development. Development (Cambridge, England). 149(21)

Chen, Z., Lee, H., Henle, S.J., Cheever, T.R., Ekker, S.C., and Henley, J.R. (2013) Primary Neuron Culture for Nerve Growth and Axon Guidance Studies in Zebrafish (Danio rerio). PLoS One. 8(3):e57539

Dell, A.L., Fried-Cassorla, E., Xu, H., and Raper, J.A. (2013) cAMP-Induced Expression of Neuropilin1 Promotes Retinal Axon Crossing in the Zebrafish Optic Chiasm. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33(27):11076-11088

Fazio, M., van Rooijen, E., Dang, M., van de Hoek, G., Ablain, J., Mito, J.K., Yang, S., Thomas, A., Michael, J., Fabo, T., Modhurima, R., Pessina, P., Kaufman, C.K., Zhou, Y., White, R.M., Zon, L.I. (2021) SATB2 induction of a neural crest mesenchyme-like program drives melanoma invasion and drug resistance. eLIFE. 10:

Feldner, J., Reimer, M.M., Schweitzer, J., Wendik, B., Meyer, D., Becker, T., and Becker, C.G. (2007) PlexinA3 restricts spinal exit points and branching of trunk motor nerves in embryonic zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 27(18):4978-4983

Gong, G., Kam, H., Tse, Y.C., Giesy, J.P., Seto, S.W., Lee, S.M. (2020) Forchlorfenuron (CPPU) causes disorganization of the cytoskeleton and dysfunction of human umbilical vein endothelial cells, and abnormal vascular development in zebrafish embryos. Environmental pollution (Barking, Essex : 1987). 271:115791

He, Z., Crenshaw, E., Raper, J.A. (2019) Semaphorin/neuropilin binding specificities are stable over 400 million years of evolution. Biochemical and Biophysical Research Communications. 517(1):23-28

Jiang, Q., Arnold, S., Heanue, T., Kilambi, K.P., Doan, B., Kapoor, A., Ling, A.Y., Sosa, M.X., Guy, M., Jiang, Q., Burzynski, G., West, K., Bessling, S., Griseri, P., Amiel, J., Fernandez, R.M., Verheij, J.B., Hofstra, R.M., Borrego, S., Lyonnet, S., Ceccherini, I., Gray, J.J., Pachnis, V., McCallion, A.S., Chakravarti, A. (2015) Functional Loss of Semaphorin 3C and/or Semaphorin 3D and Their Epistatic Interaction with Ret Are Critical to Hirschsprung Disease Liability. American journal of human genetics. 96:581-596

Lee, P., Goishi, K., Davidson, A.J., Mannix, R., Zon, L., and Klagsbrun, M. (2002) Neuropilin-1 is required for vascular development and is a mediator of VEGF-dependent angiogenesis in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 99(16):10470-10475

McDonald, T.M., Pascual, A.S., Uppalapati, C.K., Cooper, K.E., Leyva, K.J., and Hull, E.E. (2013) Zebrafish keratocyte explant cultures as a wound healing model system: Differential gene expression & morphological changes support epithelial-mesenchymal transition. Experimental cell research. 319(12):1815-27

Minchin, J.E.N., Scahill, C.M., Staudt, N., Busch-Nentwich, E.M., Rawls, J.F. (2018) Deep phenotyping in zebrafish reveals genetic and diet-induced adiposity changes that may inform disease risk. Journal of Lipid Research. 59(8):1536-1545

Sato-Maeda, M., Obinata, M., and Shoji, W. (2008) Position fine-tuning of caudal primary motoneurons in the zebrafish spinal cord. Development (Cambridge, England). 135(2):323-332

Schuster, K., Leeke, B., Meier, M., Wang, Y., Newman, T., Burgess, S., Horsfield, J.A. (2015) A neural crest origin for cohesinopathy heart defects. Human molecular genetics. 24(24):7005-16

Shoji, W., Isogai, S., Sato-Maeda, M., Obinata, M., and Kuwada, J.Y. (2003) Semaphorin3a1 regulates angioblast migration and vascular development in zebrafish embryos. Development (Cambridge, England). 130(14):3227-3236

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

Taku, A.A., Marcaccio, C.L., Ye, W., Krause, G.J., Raper, J.A. (2016) Attractant and repellent cues cooperate in guiding a subset of olfactory sensory axons to a well-defined protoglomerular target. Development (Cambridge, England). 143:123-32

Torres-Vazquez, J., Gitler, A.D., Fraser, S.D., Berk, J.D., Pham, V.N., Fishman, M.C., Childs, S., Epstein, J.A., and Weinstein, B.M. (2004) Semaphorin-plexin signaling guides patterning of the developing vasculature. Developmental Cell. 7(1):117-123

Ward, R., Ali, Z., Slater, K., Reynolds, A.L., Jensen, L.D., Kennedy, B.N. (2019) Pharmacological restoration of visual function in a zebrafish model of von-Hippel Lindau disease. Developmental Biology. 457(2):226-234

Wolman, M.A., Liu, Y., Tawarayama, H., Shoji, W., and Halloran, M.C. (2004) Repulsion and attraction of axons by Semaphorin3D are mediated by different neuropilins in vivo. The Journal of neuroscience : the official journal of the Society for Neuroscience. 24(39):8428-8435

Xue, Y., Liu, D., Cui, G., Ding, Y., Ai, D., Gao, S., Zhang, Y., Suo, S., Wang, X., Lv, P., Zhou, C., Li, Y., Chen, X., Peng, G., Jing, N., Han, J.J., Liu, F. (2019) A 3D Atlas of Hematopoietic Stem and Progenitor Cell Expansion by Multi-dimensional RNA-Seq Analysis. Cell Reports. 27:1567-1578.e5

Yeh, C.H., Liao, Y.F., Chang, C.Y., Tsai, J.N., Wang, Y.H., Cheng, C.C., Wen, C.C., and Chen, Y.H. (2012) Caffeine treatment disturbs the angiogenesis of zebrafish embryos. Drug and chemical toxicology. 35(4):361-365

Hipke, K., Pitter, B., Hruscha, A., van Bebber, F., Modic, M., Bansal, V., Lewandowski, S.A., Orozco, D., Edbauer, D., Bonn, S., Haass, C., Pohl, U., Montanez, E., Schmid, B. (2023) Loss of TDP-43 causes ectopic endothelial sprouting and migration defects through increased fibronectin, vcam 1 and integrin α4/β1. Frontiers in cell and developmental biology. 11:11699621169962

Fazio, M., van Rooijen, E., Dang, M., van de Hoek, G., Ablain, J., Mito, J.K., Yang, S., Thomas, A., Michael, J., Fabo, T., Modhurima, R., Pessina, P., Kaufman, C.K., Zhou, Y., White, R.M., Zon, L.I. (2021) SATB2 induction of a neural crest mesenchyme-like program drives melanoma invasion and drug resistance. eLIFE. 10:

Takamiya, M., Stegmaier, J., Kobitski, A.Y., Schott, B., Weger, B.D., Margariti, D., Cereceda Delgado, A.R., Gourain, V., Scherr, T., Yang, L., Sorge, S., Otte, J.C., Hartmann, V., van Wezel, J., Stotzka, R., Reinhard, T., Schlunck, G., Dickmeis, T., Rastegar, S., Mikut, R., Nienhaus, G.U., Strähle, U. (2020) Pax6 organizes the anterior eye segment by guiding two distinct neural crest waves. PLoS Genetics. 16:e1008774

van der Klaauw, A.A., Croizier, S., Mendes de Oliveira, E., Stadler, L.K.J., Park, S., Kong, Y., Banton, M.C., Tandon, P., Hendricks, A.E., Keogh, J.M., Riley, S.E., Papadia, S., Henning, E., Bounds, R., Bochukova, E.G., Mistry, V., O'Rahilly, S., Simerly, R.B., INTERVAL, UK10K Consortium, Minchin, J.E.N., Barroso, I., Jones, E.Y., Bouret, S.G., Farooqi, I.S. (2019) Human Semaphorin 3 Variants Link Melanocortin Circuit Development and Energy Balance. Cell. 176(4):729-742.e18

Xue, Y., Liu, D., Cui, G., Ding, Y., Ai, D., Gao, S., Zhang, Y., Suo, S., Wang, X., Lv, P., Zhou, C., Li, Y., Chen, X., Peng, G., Jing, N., Han, J.J., Liu, F. (2019) A 3D Atlas of Hematopoietic Stem and Progenitor Cell Expansion by Multi-dimensional RNA-Seq Analysis. Cell Reports. 27:1567-1578.e5

Diamante, G., do Amaral E Silva Müller, G., Menjivar-Cervantes, N., Xu, E.G., Volz, D.C., Dias Bainy, A.C., Schlenk, D. (2017) Developmental toxicity of hydroxylated chrysene metabolites in zebrafish embryos. Aquatic toxicology (Amsterdam, Netherlands). 189:77-86

Braasch, I., Gehrke, A.R., Smith, J.J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A.M., Campbell, M.S., Barrell, D., Martin, K.J., Mulley, J.F., Ravi, V., Lee, A.P., Nakamura, T., Chalopin, D., Fan, S., Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F.E., Sun, Y., Hertel, J., Beam, M.J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J.H., Litman, G.W., Litman, R.T., Mikami, M., Ota, T., Saha, N.R., Williams, L., Stadler, P.F., Wang, H., Taylor, J.S., Fontenot, Q., Ferrara, A., Searle, S.M., Aken, B., Yandell, M., Schneider, I., Yoder, J.A., Volff, J.N., Meyer, A., Amemiya, C.T., Venkatesh, B., Holland, P.W., Guiguen, Y., Bobe, J., Shubin, N.H., Di Palma, F., Alföldi, J., Lindblad-Toh, K., Postlethwait, J.H. (2016) The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48(4):427-37

Taku, A.A., Marcaccio, C.L., Ye, W., Krause, G.J., Raper, J.A. (2016) Attractant and repellent cues cooperate in guiding a subset of olfactory sensory axons to a well-defined protoglomerular target. Development (Cambridge, England). 143:123-32

Jiang, Q., Arnold, S., Heanue, T., Kilambi, K.P., Doan, B., Kapoor, A., Ling, A.Y., Sosa, M.X., Guy, M., Jiang, Q., Burzynski, G., West, K., Bessling, S., Griseri, P., Amiel, J., Fernandez, R.M., Verheij, J.B., Hofstra, R.M., Borrego, S., Lyonnet, S., Ceccherini, I., Gray, J.J., Pachnis, V., McCallion, A.S., Chakravarti, A. (2015) Functional Loss of Semaphorin 3C and/or Semaphorin 3D and Their Epistatic Interaction with Ret Are Critical to Hirschsprung Disease Liability. American journal of human genetics. 96:581-596

Schuster, K., Leeke, B., Meier, M., Wang, Y., Newman, T., Burgess, S., Horsfield, J.A. (2015) A neural crest origin for cohesinopathy heart defects. Human molecular genetics. 24(24):7005-16

Dell, A.L., Fried-Cassorla, E., Xu, H., and Raper, J.A. (2013) cAMP-Induced Expression of Neuropilin1 Promotes Retinal Axon Crossing in the Zebrafish Optic Chiasm. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33(27):11076-11088

Micale, L., Loviglio, M.N., Manzoni, M., Fusco, C., Augello, B., Migliavacca, E., Cotugno, G., Monti, E., Borsani, G., Reymond, A., and Merla, G. (2012) A Fish-Specific Transposable Element Shapes the Repertoire of p53 Target Genes in Zebrafish. PLoS One. 7(10):e46642

Sato-Maeda, M., Obinata, M., and Shoji, W. (2008) Position fine-tuning of caudal primary motoneurons in the zebrafish spinal cord. Development (Cambridge, England). 135(2):323-332

Feldner, J., Reimer, M.M., Schweitzer, J., Wendik, B., Meyer, D., Becker, T., and Becker, C.G. (2007) PlexinA3 restricts spinal exit points and branching of trunk motor nerves in embryonic zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 27(18):4978-4983

Tanaka, H., Maeda, R., Shoji, W., Wada, H., Masai, I., Shiraki, T., Kobayashi, M., Nakayama, R., and Okamoto, H. (2007) Novel mutations affecting axon guidance in zebrafish and a role for plexin signalling in the guidance of trigeminal and facial nerve axons. Development (Cambridge, England). 134(18):3259-3269

Sato-Maeda, M., Tawarayama, H., Obinata, M., Kuwada, J.Y., and Shoji, W. (2006) Sema3a1 guides spinal motor axons in a cell- and stage-specific manner in zebrafish. Development (Cambridge, England). 133(5):937-947

Feldner, J., Becker, T., Goishi, K., Schweitzer, J., Lee, P., Schachner, M., Klagsbrun, M., and Becker, C.G. (2005) Neuropilin-1a is involved in trunk motor axon outgrowth in embryonic zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 234(3):535-549

Yu, H.H., and Moens, C.B. (2005) Semaphorin signaling guides cranial neural crest cell migration in zebrafish. Developmental Biology. 280(2):373-385

Wolman, M.A., Liu, Y., Tawarayama, H., Shoji, W., and Halloran, M.C. (2004) Repulsion and attraction of axons by Semaphorin3D are mediated by different neuropilins in vivo. The Journal of neuroscience : the official journal of the Society for Neuroscience. 24(39):8428-8435

David, N.B., Sapede, D., Saint-Etienne, L., Thisse, C., Thisse, B., Dambly-Chaudiere, C., Rosa, F.M., and Ghysen, A. (2002) Molecular basis of cell migration in the fish lateral line: role of the chemokine receptor CXCR4 and of its ligand, SDF1. Proceedings of the National Academy of Sciences of the United States of America. 99(25):16297-16302

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

Yee, C.S., Chandrasekhar, A., Halloran, M.C., Shoji, W., Warren, J.T., and Kuwada, J.Y. (1999) Molecular cloning, expression, and activity of zebrafish semaphorin Z1a. Brain research bulletin. 48(6):581-593