1. Huang LC, McKeown CR, He HY, Ta AC, Cline HT. BRCA1 and ELK-1 regulate neural progenitor cell fate in the optic tectum in response to visual experience in Xenopus laevis tadpoles. Proc Natl Acad Sci U S A. 2024 Jan 16;121(3):e2316542121. doi: 10.1073/pnas.2316542121. Epub 2024 Jan 10. PMID: 38198524.

  2. Manubens-Gil L, Zhou Z, Chen H, Ramanathan A, Liu X, Liu Y, Bria A, Gillette T, Ruan Z, Yang J, Radojević M, Zhao T, Cheng L, Qu L, Liu S, Bouchard KE, Gu L, Cai W, Ji S, Roysam B, Wang CW, Yu H, Sironi A, Iascone DM, Zhou J, Bas E, Conde-Sousa E, Aguiar P, Li X, Li Y, Nanda S, Wang Y, Muresan L, Fua P, Ye B, He HY, Staiger JF, Peter M, Cox DN, Simonneau M, Oberlaender M, Jefferis G, Ito K, Gonzalez-Bellido P, Kim J, Rubel E, Cline HT, Zeng H, Nern A, Chiang AS, Yao J, Roskams J, Livesey R, Stevens J, Liu T, Dang C, Guo Y, Zhong N, Tourassi G, Hill S, Hawrylycz M, Koch C, Meijering E, Ascoli GA, Peng H. BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets. Nat Methods. 2023 Jun;20(6):824-835. doi: 10.1038/s41592-023-01848-5. Epub 2023 Apr 17. PMID: 37069271.

  3. Schiapparelli, L. M., Sharma, P., He, H. Y., Li, J., Shah, S. H., McClatchy, D. B., Ma, Y., Liu, H. H., Goldberg, J. L., Yates, J. R., 3rd, and Cline, H. T. (2022). Proteomic screen reveals diverse protein transport between connected neurons in the visual system. Cell reports, 38(4), 110287. PMID: 3508134

  4. Ta, A. C., Huang, L. C., McKeown, C. R., Bestman, J. E., Van Keuren-Jensen, K., and Cline, H. T. (2022). Temporal and spatial transcriptomic dynamics across brain development in Xenopus laevis tadpoles. G3 (Bethesda, Md.), 12(1), jkab387. PMID: 34751375

  5. Cline H. T. (2022). Imaging Structural and Functional Dynamics in Xenopus Neurons. Cold Spring Harbor protocols, 2022(2), pdb.top106773. PMID: 34531329

  6. Gore, S. V., James, E. J., Huang, L. C., Park, J. J., Berghella, A., Thompson, A. C., Cline, H. T., and Aizenman, C. D. (2021). Role of matrix metalloproteinase-9 in neurodevelopmental deficits and experience-dependent plasticity in Xenopus laevis. eLife, 10, e62147. PMID: 34282726

  7. Faulkner, R. L., Wall, N. R., Callaway, E. M., and Cline, H. T. (2021). Application of Recombinant Rabies Virus to Xenopus Tadpole Brain. eNeuro, 8(4), ENEURO.0477-20.2021. Advance online publication. PMID: 34099488

  8. He, H. Y., Lin, C. Y., and Cline, H. T. (2022). In Vivo Time-Lapse Imaging and Analysis of Dendritic Structural Plasticity in Xenopus laevis Tadpoles. Cold Spring Harbor protocols, 2022(1), pdb.prot106781. PMID: 33790043

  9. Luo, Y., Shen, W., and Cline, H. T. (2021). Electrophysiological Recording for Study of Xenopus Retinotectal Circuitry. Cold Spring Harbor protocols, 2021(6), 10.1101/pdb.prot106880. PMID: 33785560

  10. Hiramoto, M., and Cline, H. T. (2021). Tetrode Recording in the Xenopus laevis Visual System Using Multichannel Glass Electrodes. Cold Spring Harbor protocols, 2021(11), pdb.prot107086. PMID: 33536286

  11. Hiramoto, M., & Cline, H. T. (2021). Precisely controlled visual stimulation to study experience-dependent neural plasticity in Xenopus tadpoles. STAR protocols, 2(1), 100252. PMID: 33490972

  12. Cline, H. T., and Schwarz, T. L. (2020). Editorial overview: Cellular Nneuroscience. Current opinion in neurobiology, 63, iii–vi. PMID: 3289294

  13. Hiramoto, M., and Cline, H.T. (2020). NMDARs Translate Sequential Temporal Information into Spatial Maps. IScience 23, 101130.

  14. Bestman, J.E., and Cline, H.T. (2020). Morpholino Studies in Xenopus Brain Development. Methods Mol. Biol. 2047, 377–395. PMID: 31552666

  15. McKeown, C.R., and Cline, H.T. (2019). Nutrient restriction causes reversible G2 arrest in Xenopus neural progenitors. Development 146. PMID: 31649012.

  16. Schiapparelli, L.M., Shah, S.H., Ma, Y., McClatchy, D.B., Sharma, P., Li, J., Yates, J.R., Goldberg, J.L., Cline, H.T. (2019). The Retinal Ganglion Cell Transportome Identifies Proteins Transported to Axons and Presynaptic Compartments in the Visual System In Vivo. Cell Rep 28, 1935-1947.e5. PMID: 31412257

  17. Sharma, P., Mesci, P., Carromeu, C., McClatchy, D.R., Schiapparelli, L., Yates, J.R., Muotri, A.R., and Cline, H.T. (2019). Exosomes regulate neurogenesis and circuit assembly. Proc. Natl. Acad. Sci. U.S.A. 116, 16086–16094. PMID: 31320591

  18. He, H.-Y., and Cline, H.T. (2019). What Is Excitation/Inhibition and How Is It Regulated? A Case of the Elephant and the Wisemen. J Exp Neurosci. PMID: 31258334

  19. Gambrill, A.C., Faulkner, R.L., McKeown, C.R., and Cline, H.T. (2018). Enhanced visual experience rehabilitates the injured brain in Xenopus tadpoles in an NMDAR-dependent manner. J Neurophysiol. 

  20. He, H., Shen, W., Zheng, L., Guo, X., and Cline, H.T. (2018). Excitatory synaptic dysfunction cell-autonomously decreases inhibitory inputs and disrupts structural and functional plasticity. Nature Communications 9, 2893.

  21. Liu, H. H., McClatchy, D. B., Schiapparelli, L., Shen, W., Yates III, J. R., & Cline, H. T. (2018). Role of the visual experience-dependent nascent proteome in neuronal plasticity. eLife, 7, e33420.

  22. Gambrill, A. C., Faulkner, R. L., & Cline, H. T. (2018). Direct intertectal inputs are an integral component of the bilateral sensorimotor circuit for behavior in Xenopus tadpoles. Journal of neurophysiology, 119(5), 1947-1961

  23. Lau M, Li J, Cline HT. (2017) In Vivo Analysis of the Neurovascular Niche in the Developing Xenopus Brain. Eneuro Jul-Aug;ecollection. 

  24. McKeown, C. R., Thompson, C. K., & Cline, H. T. (2017). Reversible developmental stasis in response to nutrient availability in the Xenopus laevis central nervous system. Journal of Experimental Biology, 220(3), 358-368.

  25. Pratt, K. G., Hiramoto, M., & Cline, H. T. (2016). An evolutionarily conserved mechanism for activity-dependent visual circuit development. Frontiers in Neural Circuits, 10.

  26. Thompson CK, Cline HT. (2016) Thyroid Hormone Acts Locally to Increase Neurogenesis, Neuronal Differentiation, and Dendritic Arbor Elaboration in the Tadpole Visual System. J Neurosci. Oct 5;36(40):10356-10375. PMID: 27707971.

  27. Gambrill AC, Faulkner R, Cline HT. (2016) Experience-dependent plasticity of excitatory and inhibitory intertectal inputs in Xenopus tadpoles. J Neurophysiol. Aug 31:jn.00611.2016. doi: 10.1152/jn.00611.2016. [Epub ahead of print] PMID:27582296.

  28. Truszkowski TL, James EJ, Hasan M, Wishard TJ, Liu Z, Pratt KG, Cline HT, Aizenman CD. (2016) Fragile X mental retardation protein knockdown in the developing Xenopus tadpole optic tectum results in enhanced feedforward inhibition and behavioral deficits. Neural Dev. Aug 8;11(1):14. doi: 10.1186/s13064-016-0069-7. PMID: 27503008.

  29. Liu HH, Cline HT. (2016) Fragile X Mental Retardation Protein Is Required to Maintain Visual Conditioning-Induced Behavioral Plasticity by Limiting Local Protein Synthesis J Neurosci. Jul 6;36(27):7325-7339

  30. He HY, Shen W, Hiramoto M, Cline HT. (2016) Experience-Dependent Bimodal Plasticity of Inhibitory Neurons in Early Development. Neuron. 2016 Jun 15;90(6):1203-14. doi: 10.1016/j.neuron.2016.04.044. Epub May 26.

  31. Muñoz R, Edwards-Faret G, Moreno M, Zuñiga N, Cline H, Larraín J. (2015) Regeneration of Xenopus laevis spinal cord requires Sox2/3 expressing cells. Dev Biol. 408(2), 229-243.

  32. Bestman JE, Huang LC, Lee-Osbourne J, Cheung P, Cline HT. (2015) An in vivo screen to identify candidate neurogenic genes in the developing Xenopus visual system. Dev Biol Mar 27 doi: 10.1016/j.ydbio.2015.03.010.

  33. Faulkner RL, Wishard TJ, Thompson CK, Liu H-H, Cline HT (2014) Fmrp regulates neurogenesis in vivo in Xenopus laevis tadpoles. eNeuro 2(1) DOI: 10.1523/ENEURO.0055-14.2014.

  34. Hiramoto M, Cline HT. Optic flow instructs retinotopic map formation through a spatial to temporal to spatial transformation of visual information. Proc Natl Acad Sci U S A. 2014 Nov 10. [Epub ahead of print].

  35. Schiapparelli, LM, McClatchy DB, Liu HH, Sharma P, Yates JR 3rd, Cline HT. Direct detection of biotinylated proteins by mass spectrometry. J Proteome Res. 5;13(9);3966-78.

  36. Shen W, Liu HH, Schiapparelli L, McClatchy D, He HY, Yates JR 3rd, Cline HT. (2014) Acute Synthesis of CPEB Is Required for Plasticity of Visual Avoidance Behavior in Xenopus. Cell Rep., Feb 27;6(4):737-47.

  37. Bestman JE, Cline HT. (2014) Morpholino studies in Xenopus brain development. Methods Mol Biol. 2014;1082:155-71. doi: 10.1007/978-1-62703-655-9_11.

  38. Sharma P, Schiapparelli L, Cline HT. (2013) Exosomes function in cell-cell communication during brain circuit development. Curr Opin Neurobiol Dec;23(6):997-1004.

  39. McKeown CR, Sharma P, Sharipov HE, Shen W, Cline HT. (2013), Neurogenesis is required for behavioral recovery after injury in the visual system of Xenopus laevis. J Comp Neurol, Jul 1;521(10):2226-78

  40. Lee PC, He HY, Lin CY, Ching YT, Cline HT. (2013) Computer aided alignment and quantitative 4D structural plasticity analysis of neurons. Neuroinformatics, Apr;11(2):249-57

  41. Cline, H. T. and Kelly, D. (2012), Xenopus as an experimental system for developmental neuroscience: Introduction to a special issue. Dev Neurobiol, 72: 463–4. doi: 10.1002/dneu.22012

  42. Demas JA, Payne H, Cline HT. (2012) Vision drives correlated activity without patterned spontaneous activity in developing Xenopus retina. Dev Neurobiol, Apr;72(4):537-46

  43. Bestman, J. E., Lee-Osbourne, J. and Cline, H. T. (2012), In vivo time-lapse imaging of cell proliferation and differentiation in the optic tectum of Xenopus laevis tadpoles. J. Comp. Neurol, Feb 1;520(2):401–433

  44. Miraucourt LS, Silva JS, Burgos K, Li J, Abe H, Ruthazer ES, Cline HT (2012) GABA expression and regulation by sensory experience in the developing visual system. PLoS One 7(1):e29086

  45. Shen, W., McKeown, C.R., Demas, J.A., and Cline, H.T. (2011). Inhibition to excitation ratio regulates Visual system responses and behavior in vivo. J Neurophysiol Nov;106(5):2285-302

  46. Hiramoto, M., and Cline, H.T. (2011). Mapping dynamic branch displacements: A versatile method to quantify spatiotemporal neurite dynamics. Front Neural Circuits 5:13. Epub Sep 30.

  47. He, H.Y. and Cline, HT (2011) Diadem X: Automated 4 Dimensional Analysis of Morphological Data. Neuroinformatics Sep 9(2-3);107-12

  48. Chiu, SL and Cline, HT (2010) Insulin receptor signaling in the development of neuronal structure and function. Neural Dev 5:7 

  49. Ruthazer, E.S., Schohl, A., Schwartz, N., Tavakoli, A. Tremblay, M and Cline, H.T. (2010) Axons and Dendrites: In Vivo Time-Lapse Imaging of Neuronal Development in Xenopus. in Imaging:  A Laboratory Manual (eds. R. Yuste, F. Lani and A. Konnerth), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.

  50. Li, J., Erisir, A. and Cline, H.T. (2010) Rapid synaptic rearrangements during CNS circuit development revealed by combined in vivo time-lapse imaging and serial section electron microscopy. Neuron Jan 27;69(2);273-86

  51. Wurdak, H, Zhu, S., Min, K H, Aimone, L, Lairson, LL, Watson, J, Chopluk, G, Demas, J., Charette, B., Weerapana, E., Cravatt, B.F., Cline, H.T., Peters, E.C., Zhang, J., Walker, J.R., Wu. C., Chang, J., Tuntland, T., Cho, C.Y., Schultz, P.G. (2010) A small molecule accelerates neuronal differentiation in the adult rat. PNAS 107(38):16542-16547.

  52. Sharma, P and Cline, HT (2010) Visual Activity Regulates Neural Progenitor Cells in Developing Xenopus CNS through Musashi1. Neuron 68:442-455

  53. Li, J. and Cline H.T. (2010) Visual deprivation increases accumulation of dense core vesicles in developing optic tectal synapses in Xenopus laevis. J. Comp. Neurol 518: 2365-2381. 

  54. Li, J., Wang, Y., Chiu, SL., and Cline, H.T. (2010) Membrane targeted horseradish peroxidase as a marker for correlative fluorescence and electron microscopy studies. Front. Neural Circuits Feb 26;4:6

  55. Bestman, J.E., and Cline, H.T. (2009) The relationship between dendritic branch dynamics and CPEB-labeled RNP granules captured in vivo. Front Neural Circuits 3:10

  56. Ewald, R.C., and Cline, H.T. (2009) Cloning and Phylogenetic Analysis of NMDA Receptor Subunits NR1, NR2A and NR2B in Xenopus laevis Tadpoles. Frontiers in Molecular Neuroscience 2:4

  57. Chen, C-M., Chiu, S-L., and Cline, H.T. (2009) Co-expression of Argonaute2 enhances short hairpin RNA-induced RNA interference in Xenopus CNS neurons in vivo. Frontiers in Neurosci. 9;3:63

  58. Shen, W., Santos Da Silva, J., He, H.H. and Cline, H.T. (2009) Type A GABAAR-receptor-dependent synaptic transmission sculpts dendritic arbor structure in Xenopus laevis in vivo. J Neuroscience 29: 5032-5043.

  59. Bestman, J.E., and Cline, H.T. (2009) The relationship between dendritic branch dynamics and CPEB labeled RNP granules captured in vivo. Front Neural Circuits 3:10

  60. Hiramoto, M. and Cline, H.T. (2009) Convergence of multisensory inputs into Xenopus tadpole tectum. Developmental Neurobiology 69: 969-971.

  61. Thirumalai V., Cline H.T. (2008) A commanding control of behavior. Nat Neurosci. 11:246-248.

  62. Ewald, R. E. and Cline, H.T. (2008) NMDA Receptors and Brain Development in Biology of the NMDA receptor (ed A. M. Van Dongen) CRC Press.

  63. Haas, K. and Cline, H.T. (2008) The regulation of dendritic arbor development and plasticity by glutamatergic synaptic input:  a review of the synaptotrophic hypothesis. J. Physiol. 586: 1509-17.

  64. Bestman, J.E., and Cline, H.T. (2008) The RNA binding protein CPEB controls dendrite growth and neural circuit assembly in vivo. PNAS: 105: 20494-20499.

  65. Thirumalai, V., and Cline, H.T. (2008). Endogenous dopamine suppresses initiation of swimming in pre-feeding zebrafish larvae. J Neurophysiol. 100:1635-1648.

  66. Chiu, S.L., Chen, C.M., and Cline, H.T. (2008). Insulin receptor signaling regulates synapse number, dendritic plasticity, and circuit function in vivo. Neuron 58, 708-719.

  67. Van Keuren-Jensen, K.R., and Cline, H.T. (2008). Homer proteins shape Xenopus optic tectal cell dendritic arbor development in vivo. Dev Neurobiol. 68:1315-1324.

  68. Bestman, J.E., and Cline, H.T. (2008) The RNA binding protein CPEB controls dendrite growth and neural circuit assembly in vivo. PNAS: 105: 20494-20499.

  69. Akerman, CJ, and Cline, H.T. (2007) Refining the roles of GABAergic transmission during neural circuit formation. TINS 30: 382-389.