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Brian S. Clark, Ph.D - Publications

Affiliations: 
2014-2018 Neuroscience Johns Hopkins University, Baltimore, MD 
Area:
Visual System, lncRNAs
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33 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 Lin JB, Shen X, Pfeifer CW, Shiau F, Santeford A, Ruzycki PA, Clark BS, Liu Q, Huang AJW, Apte RS. Dry eye disease in mice activates adaptive corneal epithelial regeneration distinct from constitutive renewal in homeostasis. Proceedings of the National Academy of Sciences of the United States of America. 120: e2204134120. PMID 36595669 DOI: 10.1073/pnas.2204134120  0.319
2021 Lyu P, Hoang T, Santiago CP, Thomas ED, Timms AE, Appel H, Gimmen M, Le N, Jiang L, Kim DW, Chen S, Espinoza DF, Telger AE, Weir K, Clark BS, et al. Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina. Cell Reports. 37: 109994. PMID 34788628 DOI: 10.1016/j.celrep.2021.109994  0.621
2021 Shiau F, Ruzycki PA, Clark BS. A single-cell guide to retinal development: Cell fate decisions of multipotent retinal progenitors in scRNA-seq. Developmental Biology. PMID 34146533 DOI: 10.1016/j.ydbio.2021.06.005  0.353
2021 Brodie-Kommit J, Clark BS, Shi Q, Shiau F, Kim DW, Langel J, Sheely C, Ruzycki PA, Fries M, Javed A, Cayouette M, Schmidt T, Badea T, Glaser T, Zhao H, et al. Atoh7-independent specification of retinal ganglion cell identity. Science Advances. 7. PMID 33712461 DOI: 10.1126/sciadv.abe4983  0.609
2021 Stein-O'Brien GL, Clark BS, Sherman T, Zibetti C, Hu Q, Sealfon R, Liu S, Qian J, Colantuoni C, Blackshaw S, Goff LA, Fertig EJ. Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species. Cell Systems. 12: 203. PMID 33600760 DOI: 10.1016/j.cels.2021.01.005  0.727
2021 Mattar P, Jolicoeur C, Dang T, Shah S, Clark BS, Cayouette M. A Casz1-NuRD complex regulates temporal identity transitions in neural progenitors. Scientific Reports. 11: 3858. PMID 33594190 DOI: 10.1038/s41598-021-83395-7  0.322
2020 Clark BS, Miesfeld JB, Flinn MA, Collery RF, Link BA. Dynamic Polarization of Rab11a Modulates Crb2a Localization and Impacts Signaling to Regulate Retinal Neurogenesis. Frontiers in Cell and Developmental Biology. 8: 608112. PMID 33634099 DOI: 10.3389/fcell.2020.608112  0.616
2020 Menuchin-Lasowski Y, Dagan B, Conidi A, Cohen-Gulkar M, David A, Ehrlich M, Giladi PO, Clark BS, Blackshaw S, Shapira K, Huylebroeck D, Henis Y, Ashery-Padan R. Zeb2 regulates the balance between retinal interneurons and muller glia by inhibition of BMP-Smad signaling. Developmental Biology. PMID 32950463 DOI: 10.1016/J.Ydbio.2020.09.006  0.68
2020 Ray TA, Cochran K, Kozlowski C, Wang J, Alexander G, Cady MA, Spencer WJ, Ruzycki PA, Clark BS, Laeremans A, He MX, Wang X, Park E, Hao Y, Iannaccone A, et al. Comprehensive identification of mRNA isoforms reveals the diversity of neural cell-surface molecules with roles in retinal development and disease. Nature Communications. 11: 3328. PMID 32620864 DOI: 10.1038/S41467-020-17009-7  0.443
2020 Lu Y, Shiau F, Yi W, Lu S, Wu Q, Pearson JD, Kallman A, Zhong S, Hoang T, Zuo Z, Zhao F, Zhang M, Tsai N, Zhuo Y, He S, ... ... Clark BS, et al. Single-Cell Analysis of Human Retina Identifies Evolutionarily Conserved and Species-Specific Mechanisms Controlling Development. Developmental Cell. PMID 32386599 DOI: 10.1016/J.Devcel.2020.04.009  0.666
2020 Ling JP, Wilks C, Charles R, Leavey PJ, Ghosh D, Jiang L, Santiago CP, Pang B, Venkataraman A, Clark BS, Nellore A, Langmead B, Blackshaw S. ASCOT identifies key regulators of neuronal subtype-specific splicing. Nature Communications. 11: 137. PMID 31919425 DOI: 10.1038/S41467-019-14020-5  0.697
2019 Clark BS, Stein-O'Brien GL, Shiau F, Cannon GH, Davis-Marcisak E, Sherman T, Santiago CP, Hoang TV, Rajaii F, James-Esposito RE, Gronostajski RM, Fertig EJ, Goff LA, Blackshaw S. Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification. Neuron. PMID 31128945 DOI: 10.1016/J.Neuron.2019.04.010  0.682
2019 Stein-O'Brien GL, Clark BS, Sherman T, Zibetti C, Hu Q, Sealfon R, Liu S, Qian J, Colantuoni C, Blackshaw S, Goff LA, Fertig EJ. Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species. Cell Systems. 8: 395-411.e8. PMID 31121116 DOI: 10.1016/J.Cels.2019.04.004  0.762
2018 de Melo J, Clark BS, Venkataraman A, Shiau F, Zibetti C, Blackshaw S. Ldb1 and Rnf12-dependent regulation of Lhx2 controls the relative balance between neurogenesis and gliogenesis in retina. Development (Cambridge, England). PMID 29650591 DOI: 10.1242/Dev.159970  0.776
2018 Venkataraman A, Yang K, Irizarry J, Mackiewicz M, Mita P, Kuang Z, Xue L, Ghosh D, Liu S, Ramos P, Hu S, Bayron Kain D, Keegan S, Saul R, Colantonio S, ... ... Clark BS, et al. A toolbox of immunoprecipitation-grade monoclonal antibodies to human transcription factors. Nature Methods. PMID 29638227 DOI: 10.1038/Nmeth.4632  0.646
2017 Clark BS, Blackshaw S. Understanding the Role of lncRNAs in Nervous System Development. Advances in Experimental Medicine and Biology. 1008: 253-282. PMID 28815543 DOI: 10.1007/978-981-10-5203-3_9  0.551
2017 Himmelstein DS, Cajigas I, Bi C, Clark BS, Van Der Voort G, Kohtz JD. SHH E176/E177-Zn(2+) conformation is required for signaling at endogenous sites. Developmental Biology. PMID 28263766 DOI: 10.1016/J.Ydbio.2017.02.006  0.705
2016 Thein T, de Melo J, Zibetti C, Clark BS, Juarez F, Blackshaw S. Control of lens development by Lhx2-regulated neuroretinal FGFs. Development (Cambridge, England). PMID 27633990 DOI: 10.1242/Dev.137760  0.74
2016 de Melo J, Clark BS, Blackshaw S. Multiple intrinsic factors act in concert with Lhx2 to direct retinal gliogenesis. Scientific Reports. 6: 32757. PMID 27605455 DOI: 10.1038/Srep32757  0.744
2016 de Melo J, Zibetti C, Clark BS, Hwang W, Miranda-Angulo AL, Qian J, Blackshaw S. Lhx2 Is an Essential Factor for Retinal Gliogenesis and Notch Signaling. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 36: 2391-405. PMID 26911688 DOI: 10.1523/Jneurosci.3145-15.2016  0.72
2015 Miesfeld JB, Gestri G, Clark BS, Flinn MA, Poole RJ, Bader JR, Besharse JC, Wilson SW, Link BA. Yap and Taz regulate retinal pigment epithelial cell fate. Development (Cambridge, England). PMID 26209646 DOI: 10.1242/Jcs.179598  0.686
2015 Cajigas I, Leib DE, Cochrane J, Luo H, Swyter K, Chen S, Clark BS, Thompson J, Yates JR, Kingston RE, Kohtz JD. Evf2 lncRNA/BRG1/DLX1 interactions reveal RNA-dependent chromatin remodeling inhibition. Development (Cambridge, England). PMID 26138476 DOI: 10.1242/Dev.126318  0.706
2014 Clark BS, Blackshaw S. Long non-coding RNA-dependent transcriptional regulation in neuronal development and disease. Frontiers in Genetics. 5: 164. PMID 24936207 DOI: 10.3389/Fgene.2014.00164  0.587
2013 Buckley CE, Ren X, Ward LC, Girdler GC, Araya C, Green MJ, Clark BS, Link BA, Clarke JD. Mirror-symmetric microtubule assembly and cell interactions drive lumen formation in the zebrafish neural rod. The Embo Journal. 32: 30-44. PMID 23202854 DOI: 10.1038/Emboj.2012.305  0.624
2012 Hayes JM, Hartsock A, Clark BS, Napier HR, Link BA, Gross JM. Integrin α5/fibronectin1 and focal adhesion kinase are required for lens fiber morphogenesis in zebrafish. Molecular Biology of the Cell. 23: 4725-38. PMID 23097490 DOI: 10.1091/Mbc.E12-09-0672  0.607
2012 Cayo MA, Cai J, DeLaForest A, Noto FK, Nagaoka M, Clark BS, Collery RF, Si-Tayeb K, Duncan SA. JD induced pluripotent stem cell-derived hepatocytes faithfully recapitulate the pathophysiology of familial hypercholesterolemia. Hepatology (Baltimore, Md.). 56: 2163-71. PMID 22653811 DOI: 10.1002/Hep.25871  0.313
2012 Clark BS, Cui S, Miesfeld JB, Klezovitch O, Vasioukhin V, Link BA. Loss of Llgl1 in retinal neuroepithelia reveals links between apical domain size, Notch activity and neurogenesis. Development (Cambridge, England). 139: 1599-610. PMID 22492354 DOI: 10.1242/Dev.078097  0.719
2011 Clark BS, Winter M, Cohen AR, Link BA. Generation of Rab-based transgenic lines for in vivo studies of endosome biology in zebrafish. Developmental Dynamics : An Official Publication of the American Association of Anatomists. 240: 2452-65. PMID 21976318 DOI: 10.1002/Dvdy.22758  0.586
2011 Clark B, Cui S, Miesfeld JB, Link BA. Loss of Llgl1 results in neuroepithelial apical domain expansion, increased Notch activity and reduced neurogenesis in the zebrafish retina Developmental Biology. 356: 182. DOI: 10.1016/J.Ydbio.2011.05.212  0.669
2011 Miesfeld JB, Clark BS, Link BA. Establishment of transgenic lines that report nervous system specific Notch activity based on nort gene regulatory sequence Developmental Biology. 356: 129. DOI: 10.1016/J.Ydbio.2011.05.091  0.677
2010 Himmelstein DS, Bi C, Clark BS, Bai B, Kohtz JD. Balanced Shh signaling is required for proper formation and maintenance of dorsal telencephalic midline structures. Bmc Developmental Biology. 10: 118. PMID 21114856 DOI: 10.1186/1471-213X-10-118  0.721
2009 Clark BS, Link BA. Rab-endosome polarization during retinogenesis Developmental Biology. 331: 463. DOI: 10.1016/J.Ydbio.2009.05.289  0.52
2006 Feng J, Bi C, Clark BS, Mady R, Shah P, Kohtz JD. The Evf-2 noncoding RNA is transcribed from the Dlx-5/6 ultraconserved region and functions as a Dlx-2 transcriptional coactivator. Genes & Development. 20: 1470-84. PMID 16705037 DOI: 10.1101/Gad.1416106  0.72
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