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An improved zebrafish transcriptome annotation for sensitive and comprehensive detection of cell type-specific genes.
Lawson ND, Li R, Shin M, Grosse A, Yukselen O, Stone OA, Kucukural A, Zhu L. Lawson ND, et al. Elife. 2020 Aug 24;9:e55792. doi: 10.7554/eLife.55792. Elife. 2020. PMID: 32831172 Free PMC article.
The zebrafish is ideal for studying embryogenesis and is increasingly applied to model human disease. ...Thus, we demonstrate that our new transcriptome annotation can outperform existing annotations, providing an important resource for zebrafish researchers....
The zebrafish is ideal for studying embryogenesis and is increasingly applied to model human disease. ...Thus, we demonstrate that ou …
Valves Are a Conserved Feature of the Zebrafish Lymphatic System.
Shin M, Nozaki T, Idrizi F, Isogai S, Ogasawara K, Ishida K, Yuge S, Roscoe B, Wolfe SA, Fukuhara S, Mochizuki N, Deguchi T, Lawson ND. Shin M, et al. Dev Cell. 2019 Nov 4;51(3):374-386.e5. doi: 10.1016/j.devcel.2019.08.019. Epub 2019 Sep 26. Dev Cell. 2019. PMID: 31564611 Free PMC article.
Zebrafish embryos bearing mutations in genes required for mammalian valve morphogenesis show defective lymphatic valve formation and edema. Together, our observations provide a foundation from which to further investigate lymphatic valve formation in zebrafish....
Zebrafish embryos bearing mutations in genes required for mammalian valve morphogenesis show defective lymphatic valve formation and
Enhanced Cas12a editing in mammalian cells and zebrafish.
Liu P, Luk K, Shin M, Idrizi F, Kwok S, Roscoe B, Mintzer E, Suresh S, Morrison K, Frazão JB, Bolukbasi MF, Ponnienselvan K, Luban J, Zhu LJ, Lawson ND, Wolfe SA. Liu P, et al. Nucleic Acids Res. 2019 May 7;47(8):4169-4180. doi: 10.1093/nar/gkz184. Nucleic Acids Res. 2019. PMID: 30892626 Free PMC article.
Here we describe improvements to the Cas12a system that facilitate efficient targeted mutagenesis in mammalian cells and zebrafish embryos. We show that engineered variants of Cas12a with two different nuclear localization sequences (NLS) on the C terminus provide increase …
Here we describe improvements to the Cas12a system that facilitate efficient targeted mutagenesis in mammalian cells and zebrafish em …
Evaluation and application of modularly assembled zinc-finger nucleases in zebrafish.
Zhu C, Smith T, McNulty J, Rayla AL, Lakshmanan A, Siekmann AF, Buffardi M, Meng X, Shin J, Padmanabhan A, Cifuentes D, Giraldez AJ, Look AT, Epstein JA, Lawson ND, Wolfe SA. Zhu C, et al. Development. 2011 Oct;138(20):4555-64. doi: 10.1242/dev.066779. Development. 2011. PMID: 21937602 Free PMC article.
In parallel, we constructed ZFNs from these cassettes and tested their ability to induce lesions in zebrafish embryos. We found that the majority of zinc-finger proteins assembled from these modules have favorable specificities and nearly one-third of modular ZFNs generate …
In parallel, we constructed ZFNs from these cassettes and tested their ability to induce lesions in zebrafish embryos. We found that …
Venous-derived angioblasts generate organ-specific vessels during zebrafish embryonic development.
Hen G, Nicenboim J, Mayseless O, Asaf L, Shin M, Busolin G, Hofi R, Almog G, Tiso N, Lawson ND, Yaniv K. Hen G, et al. Development. 2015 Dec 15;142(24):4266-78. doi: 10.1242/dev.129247. Epub 2015 Nov 2. Development. 2015. PMID: 26525671 Free PMC article.
Here, we show that both arterial and venous components of the subintestinal plexus originate from a pool of specialized angioblasts residing in the floor of the posterior cardinal vein (PCV). Using live imaging of zebrafish embryos, in combination with photoconvertable tra …
Here, we show that both arterial and venous components of the subintestinal plexus originate from a pool of specialized angioblasts residing …
Reverse genetic screening reveals poor correlation between morpholino-induced and mutant phenotypes in zebrafish.
Kok FO, Shin M, Ni CW, Gupta A, Grosse AS, van Impel A, Kirchmaier BC, Peterson-Maduro J, Kourkoulis G, Male I, DeSantis DF, Sheppard-Tindell S, Ebarasi L, Betsholtz C, Schulte-Merker S, Wolfe SA, Lawson ND. Kok FO, et al. Dev Cell. 2015 Jan 12;32(1):97-108. doi: 10.1016/j.devcel.2014.11.018. Epub 2014 Dec 18. Dev Cell. 2015. PMID: 25533206 Free PMC article.
The widespread availability of programmable site-specific nucleases now enables targeted gene disruption in the zebrafish. In this study, we applied site-specific nucleases to generate zebrafish lines bearing individual mutations in more than 20 genes. ...Consistent …
The widespread availability of programmable site-specific nucleases now enables targeted gene disruption in the zebrafish. In this st …
Targeted chromosomal deletions and inversions in zebrafish.
Gupta A, Hall VL, Kok FO, Shin M, McNulty JC, Lawson ND, Wolfe SA. Gupta A, et al. Genome Res. 2013 Jun;23(6):1008-17. doi: 10.1101/gr.154070.112. Epub 2013 Mar 11. Genome Res. 2013. PMID: 23478401 Free PMC article.
We have examined the feasibility of using this approach to delete chromosomal segments within the zebrafish genome, which would facilitate the functional study of large noncoding sequences in a vertebrate model of development. Herein, we demonstrate that segmental deletion …
We have examined the feasibility of using this approach to delete chromosomal segments within the zebrafish genome, which would facil …
Vegfa signals through ERK to promote angiogenesis, but not artery differentiation.
Shin M, Beane TJ, Quillien A, Male I, Zhu LJ, Lawson ND. Shin M, et al. Development. 2016 Oct 15;143(20):3796-3805. doi: 10.1242/dev.137919. Epub 2016 Aug 30. Development. 2016. PMID: 27578780 Free PMC article.
To address this issue, we have visualized activation of presumptive Vegfa effectors at single-cell resolution in zebrafish blood vessels. From these studies, we find that phosphorylation of the serine/threonine kinase ERK (pERK) preferentially occurs in endothelial cells u …
To address this issue, we have visualized activation of presumptive Vegfa effectors at single-cell resolution in zebrafish blood vess …
Distinct Notch signaling outputs pattern the developing arterial system.
Quillien A, Moore JC, Shin M, Siekmann AF, Smith T, Pan L, Moens CB, Parsons MJ, Lawson ND. Quillien A, et al. Development. 2014 Apr;141(7):1544-52. doi: 10.1242/dev.099986. Epub 2014 Mar 5. Development. 2014. PMID: 24598161 Free PMC article.
However, when and where Notch activation occurs to affect endothelial cell fate is less clear. Using transgenic zebrafish bearing a Notch-responsive reporter, we demonstrate that Notch is activated in endothelial progenitors during vasculogenesis prior to blood vessel morp …
However, when and where Notch activation occurs to affect endothelial cell fate is less clear. Using transgenic zebrafish bearing a N …
Lymphatic vessels arise from specialized angioblasts within a venous niche.
Nicenboim J, Malkinson G, Lupo T, Asaf L, Sela Y, Mayseless O, Gibbs-Bar L, Senderovich N, Hashimshony T, Shin M, Jerafi-Vider A, Avraham-Davidi I, Krupalnik V, Hofi R, Almog G, Astin JW, Golani O, Ben-Dor S, Crosier PS, Herzog W, Lawson ND, Hanna JH, Yanai I, Yaniv K. Nicenboim J, et al. Nature. 2015 Jun 4;522(7554):56-61. doi: 10.1038/nature14425. Nature. 2015. PMID: 25992545
In the case of the lymphatic system, venous cells from the cardinal vein are thought to generate lymphatic vessels through trans-differentiation. Here we show that in zebrafish, lymphatic progenitors arise from a previously uncharacterized niche of specialized angioblasts …
In the case of the lymphatic system, venous cells from the cardinal vein are thought to generate lymphatic vessels through trans-differentia …
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