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Jonathan D. Zirin - Publications

Affiliations: 
Harvard Medical School, Boston, MA, United States 
Area:
Drosophila development
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31 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 McGee AV, Liu YV, Griffith AL, Szegletes ZM, Wen B, Kraus C, Miller NW, Steger RJ, Velasco BE, Bosch JA, Zirin JD, Viswanatha R, Sontheimer EJ, Goodale A, Greene MA, et al. Modular vector assembly enables rapid assessment of emerging CRISPR technologies. Biorxiv : the Preprint Server For Biology. PMID 37961518 DOI: 10.1101/2023.10.25.564061  0.699
2023 Zirin J, Jusiak B, Lopes R, Ewen-Campen B, Bosch J, Villalta C, Forman C, Hu Y, Mohr S, Perrimon N. Expanding the Drosophila toolkit for dual control of gene expression. Biorxiv : the Preprint Server For Biology. PMID 37645802 DOI: 10.1101/2023.08.15.553399  0.755
2022 Kim AR, Xu J, Cheloha R, Mohr SE, Zirin J, Ploegh HL, Perrimon N. NanoTag Nanobody Tools for Drosophila In Vitro and In Vivo Studies. Current Protocols. 2: e628. PMID 36571722 DOI: 10.1002/cpz1.628  0.496
2022 Kanca O, Zirin J, Hu Y, Tepe B, Dutta D, Lin WW, Ma L, Ge M, Zuo Z, Liu LP, Levis RW, Perrimon N, Bellen HJ. An expanded toolkit for Drosophila gene tagging using synthesized homology donor constructs for CRISPR mediated homologous recombination. Elife. 11. PMID 35723254 DOI: 10.7554/eLife.76077  0.533
2022 Xu J, Kim AR, Cheloha RW, Fischer FA, Li JSS, Feng Y, Stoneburner E, Binari R, Mohr SE, Zirin J, Ploegh HL, Perrimon N. Protein visualization and manipulation in through the use of epitope tags recognized by nanobodies. Elife. 11. PMID 35076390 DOI: 10.7554/eLife.74326  0.484
2021 Zirin J, Bosch J, Viswanatha R, Mohr SE, Perrimon N. State-of-the-art CRISPR for in vivo and cell-based studies in Drosophila. Trends in Genetics : Tig. PMID 34933779 DOI: 10.1016/j.tig.2021.11.006  0.752
2021 Mohr SE, Tattikota SG, Xu J, Zirin J, Hu Y, Perrimon N. Methods and tools for spatial mapping of single-cell RNAseq clusters in Drosophila. Genetics. PMID 33713129 DOI: 10.1093/genetics/iyab019  0.746
2020 Hu Y, Comjean A, Rodiger J, Liu Y, Gao Y, Chung V, Zirin J, Perrimon N, Mohr SE. FlyRNAi.org-the database of the Drosophila RNAi screening center and transgenic RNAi project: 2021 update. Nucleic Acids Research. PMID 33104800 DOI: 10.1093/nar/gkaa936  0.492
2020 Xia B, Amador G, Viswanatha R, Zirin J, Mohr SE, Perrimon N. CRISPR-based engineering of gene knockout cells by homology-directed insertion in polyploid Drosophila S2R+ cells. Nature Protocols. 15: 3478-3498. PMID 32958931 DOI: 10.1038/S41596-020-0383-8  0.758
2020 Zirin J, Hu Y, Liu L, Yang-Zhou D, Colbeth R, Yan D, Ewen-Campen B, Tao R, Vogt E, VanNest S, Cavers C, Villalta C, Comjean A, Sun J, Wang X, et al. Large-Scale Transgenic Resource Collections for Loss- and Gain-of-Function Studies. Genetics. PMID 32071193 DOI: 10.1534/Genetics.119.302964  0.776
2020 Bosch JA, Knight S, Kanca O, Zirin J, Yang-Zhou D, Hu Y, Rodiger J, Amador G, Bellen HJ, Perrimon N, Mohr SE. Use of the CRISPR-Cas9 System in Drosophila Cultured Cells to Introduce Fluorescent Tags into Endogenous Genes. Current Protocols in Molecular Biology. 130: e112. PMID 31869524 DOI: 10.1002/cpmb.112  0.47
2019 Bosch JA, Colbeth R, Zirin J, Perrimon N. Gene Knock-Ins in Using Homology-Independent Insertion of Universal Donor Plasmids. Genetics. PMID 31685521 DOI: 10.1534/Genetics.119.302819  0.611
2019 Kanca O, Zirin J, Garcia-Marques J, Knight SM, Yang-Zhou D, Amador G, Chung H, Zuo Z, Ma L, He Y, Lin WW, Fang Y, Ge M, Yamamoto S, Schulze KL, et al. An efficient CRISPR-based strategy to insert small and large fragments of DNA using short homology arms. Elife. 8. PMID 31674908 DOI: 10.7554/Elife.51539  0.521
2019 Zirin J, Ni X, Sack LM, Yang-Zhou D, Hu Y, Brathwaite R, Bulyk ML, Elledge SJ, Perrimon N. Interspecies analysis of MYC targets identifies tRNA synthetases as mediators of growth and survival in MYC-overexpressing cells. Proceedings of the National Academy of Sciences of the United States of America. PMID 31262815 DOI: 10.1073/Pnas.1821863116  0.525
2019 Kanca O, Zirin J, Garcia-Marques J, Knight SM, Yang-Zhou D, Amador G, Chung H, Zuo Z, Ma L, He Y, Lin W, Fang Y, Ge M, Yamamoto S, Schulze KL, et al. Author response: An efficient CRISPR-based strategy to insert small and large fragments of DNA using short homology arms Elife. DOI: 10.7554/Elife.51539.024  0.458
2018 Jia Y, Xu RG, Ren X, Ewen-Campen B, Rajakumar R, Zirin J, Yang-Zhou D, Zhu R, Wang F, Mao D, Peng P, Qiao HH, Wang X, Liu LP, Xu B, et al. Next-generation CRISPR/Cas9 transcriptional activation in using flySAM. Proceedings of the National Academy of Sciences of the United States of America. PMID 29666231 DOI: 10.1073/Pnas.1800677115  0.727
2018 Tang HW, Hu Y, Chen CL, Xia B, Zirin J, Yuan M, Asara JM, Rabinow L, Perrimon N. The TORC1-Regulated CPA Complex Rewires an RNA Processing Network to Drive Autophagy and Metabolic Reprogramming. Cell Metabolism. PMID 29606597 DOI: 10.1016/J.Cmet.2018.02.023  0.45
2018 Lee PT, Zirin J, Kanca O, Lin WW, Schulze KL, Li-Kroeger D, Tao R, Devereaux C, Hu Y, Chung V, Fang Y, He Y, Pan H, Ge M, Zuo Z, et al. A gene-specificlibrary for. Elife. 7. PMID 29565247 DOI: 10.7554/Elife.35574  0.595
2018 Lee P, Zirin J, Kanca O, Lin W, Schulze KL, Li-Kroeger D, Tao R, Devereaux C, Hu Y, Chung V, Fang Y, He Y, Pan H, Ge M, Zuo Z, et al. Author response: A gene-specific T2A-GAL4 library for Drosophila Elife. DOI: 10.7554/Elife.35574.023  0.529
2017 Mohr SE, Rudd K, Hu Y, Song WR, Gilly Q, Buckner M, Housden BE, Kelley C, Zirin J, Tao R, Amador G, Sierzputowska K, Comjean A, Perrimon N. Zinc Detoxification: A Functional Genomics and Transcriptomics Analysis in Drosophila melanogaster Cultured Cells. G3 (Bethesda, Md.). PMID 29223976 DOI: 10.1534/G3.117.300447  0.529
2017 Ewen-Campen B, Yang-Zhou D, Fernandes VR, González DP, Liu LP, Tao R, Ren X, Sun J, Hu Y, Zirin J, Mohr SE, Ni JQ, Perrimon N. Optimized strategy for in vivo Cas9-activation in Drosophila. Proceedings of the National Academy of Sciences of the United States of America. PMID 28808002 DOI: 10.1073/Pnas.1707635114  0.77
2017 Song W, Owusu-Ansah E, Hu Y, Cheng D, Ni X, Zirin J, Perrimon N. Activin signaling mediates muscle-to-adipose communication in a mitochondria dysfunction-associated obesity model. Proceedings of the National Academy of Sciences of the United States of America. PMID 28739899 DOI: 10.1073/Pnas.1708037114  0.679
2016 Hu Y, Comjean A, Roesel C, Vinayagam A, Flockhart I, Zirin J, Perkins L, Perrimon N, Mohr SE. FlyRNAi.org-the database of the Drosophila RNAi screening center and transgenic RNAi project: 2017 update. Nucleic Acids Research. PMID 27924039 DOI: 10.1093/Nar/Gkw977  0.549
2015 Zirin J, Nieuwenhuis J, Samsonova A, Tao R, Perrimon N. Regulators of autophagosome formation in Drosophila muscles. Plos Genetics. 11: e1005006. PMID 25692684 DOI: 10.1371/Journal.Pgen.1005006  0.512
2014 Vinayagam A, Zirin J, Roesel C, Hu Y, Yilmazel B, Samsonova AA, Neumüller RA, Mohr SE, Perrimon N. Integrating protein-protein interaction networks with phenotypes reveals signs of interactions. Nature Methods. 11: 94-9. PMID 24240319 DOI: 10.1038/Nmeth.2733  0.445
2013 Zirin J, Nieuwenhuis J, Perrimon N. Role of autophagy in glycogen breakdown and its relevance to chloroquine myopathy. Plos Biology. 11: e1001708. PMID 24265594 DOI: 10.1371/Journal.Pbio.1001708  0.477
2013 Zirin J, Cheng D, Dhanyasi N, Cho J, Dura JM, Vijayraghavan K, Perrimon N. Ecdysone signaling at metamorphosis triggers apoptosis of Drosophila abdominal muscles. Developmental Biology. 383: 275-84. PMID 24051228 DOI: 10.1016/J.Ydbio.2013.08.029  0.443
2011 Perrimon N, Zirin J, Bai J. Primary cell cultures from Drosophila gastrula embryos. Journal of Visualized Experiments : Jove. PMID 21403631 DOI: 10.3791/2215  0.482
2010 Zirin J, Perrimon N. Drosophila as a model system to study autophagy. Seminars in Immunopathology. 32: 363-72. PMID 20798940 DOI: 10.1007/S00281-010-0223-Y  0.492
2007 Zirin JD, Mann RS. Nubbin and Teashirt mark barriers to clonal growth along the proximal-distal axis of the Drosophila wing. Developmental Biology. 304: 745-58. PMID 17313943 DOI: 10.1016/J.Ydbio.2007.01.025  0.502
2004 Zirin JD, Mann RS. Differing strategies for the establishment and maintenance of teashirt and homothorax repression in the Drosophila wing. Development (Cambridge, England). 131: 5683-93. PMID 15509768 DOI: 10.1242/Dev.01450  0.551
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