Zhang, H., Nelken, I., Sharpee, T. Parsing auditory neural code into maximum-entropy packets. (2025) bioRxiv. DOI: 10.1101/2025.11.09.687481

Yao, M., Praturu, A., Sharpee, T. Multiscale Hyperbolic Embedding for Cell Hierarchies in Large-Scale Bioinformatics Data. (2025) bioRxiv. DOI: 10.1101/2025.09.29.679407

Praturu, A., Sharpee, T.O. Distance-Based Logistic Matrix Factorization. (2025) 神经计算.:1-14 DOI: 10.1162/neco.a.25

Yao, M., Nagamori, A., Campos Maçãs, S., Azim, E., Sharpee, T., Goulding, M., Golomb, D., Gatto, G. The spinal premotor network driving scratching flexor and extensor alternation. (2025) 细胞报告. 44(6):115845. DOI: 10.1016/j.celrep.2025.115845

Rowekamp, R.J., Sharpee, T.O. Computations that sustain neural feature selectivity across processing stages. (2025) PLOS计算生物学. 21(6):e1013075. DOI: 10.1371/journal.pcbi.1013075

Rusu, I., Cecere, Z.T., How, J.J., Quach, K.T., Yemini, E., Sharpee, T.O., Chalasani, S.H. 一种用于分析秀丽隐杆线虫神经活动的多维双曲嵌入框架 (2025) bioRxiv. DOI: 10.1101/2021.04.09.439242

Praturu, A., Sharpee, T.O. Adaptive data embedding for curved spaces. (2024) iScience. 27(12):111266. DOI: 10.1016/j.isci.2024.111266

Alvarez-Kuglen, M., Ninomiya, K., Qin, H., Rodriguez, D., Fiengo, L., Farhy, C., Hsu, W.M., Kirk, B., Havas, A., Feng, G.S., Roberts, A.J., Anderson, R.M., Serrano, M., Adams, P.D., Sharpee, T.O., Terskikh, A.V. ImAge quantitates aging and rejuvenation. (2024) Nat Aging. DOI: 10.1038/s43587-024-00685-1

Alvarez-Kuglen, M., Rodriguez, D., Qin, H., Ninomiya, K., Fiengo, L., Farhy, C., Hsu, W.M., Havas, A., Feng, G.S., Roberts, A.J., Anderson, R.M., Serrano, M., Adams, P.D., Sharpee, T.O., Terskikh, A.V. Imaging-based chromatin and epigenetic age, ImAge, quantitates aging and rejuvenation. (2023) Res Sq. DOI: 10.21203/rs.3.rs-3479973/v1

Little, J.C., Kaaronen, R.O., Hukkinen, J.I., Xiao, S., Sharpee, T., Farid, A.M., Nilchiani, R., Barton, C.M. Earth Systems to Anthropocene Systems: An Evolutionary, System-of-Systems, Convergence Paradigm for Interdependent Societal Challenges. (2023) Environ Sci Technol. DOI: 10.1021/acs.est.2c06203

Yang, J.Y., O'Connell, T.F., Hsu, W.M., Bauer, M.S., Dylla, K.V., Sharpee, T.O., Hong, E.J. Restructuring of olfactory representations in the fly brain around odor relationships in natural sources. (2023) bioRxiv. DOI: 10.1101/2023.02.15.528627

Zhang, H., Rich, P.D., Lee, A.K., Sharpee, T.O. Hippocampal spatial representations exhibit a hyperbolic geometry that expands with experience. (2022) 自然神经科学. DOI: 10.1038/s41593-022-01212-4

Ghaninia, M., Zhou, Y., Knauer, A.C., Schiestl, F.P., Sharpee, T.O., Smith, B.H. Hyperbolic odorant mixtures as a basis for more efficient signaling between flowering plants and bees. (2022) PLOS One. 17(7):e0270358. DOI: 10.1371/journal.pone.0270358

Zhou, Y., Sharpee, T.O. Using Global t-SNE to Preserve Intercluster Data Structure. (2022) 神经计算.:1-15 DOI: 10.1162/neco_a_01504

Nowotny, T., van Albada, S.J., Fellous, J.M., Haas, J.S., Jolivet, R.B., Metzner, C., Sharpee, T. Editorial: Advances in Computational Neuroscience. (2022) Frontiers in Computational Neuroscience. 15:824899. DOI: 10.3389/fncom.2021.824899

Shadel, G.S., Adams, P.D., Berggren, W.T., Diedrich, J.K., Diffenderfer, K.E., Gage, F.H., Hah, N., Hansen, M., Hetzer, M.W., Molina, A.J.A., Manor, U., Marek, K., O'Keefe, D.D., Pinto, A.F.M., Sacco, A., Sharpee, T.O., Shokriev, M.N., Zambetti, S. The San Diego Nathan Shock Center: tackling the heterogeneity of aging. (2021) Geroscience. DOI: 10.1007/s11357-021-00426-x

Hsu, W.M., Kastner, D.B., Baccus, S.A., Sharpee, T.O. How inhibitory neurons increase information transmission under threshold modulation. (2021) 细胞报告. 35(8):109158. DOI: 10.1016/j.celrep.2021.109158

Zhou, Y., Sharpee, T.O. Hyperbolic geometry of gene expression. (2021) iScience. 24(3):102225. DOI: 10.1016/j.isci.2021.102225

Sharpee, T.O., Berkowitz, J.A. Linking neural responses to behavior with information-preserving population vectors (2019) Current Opinion in Behavioral Sciences. 29:37-44. DOI: https://doi.org/10.1016/j.cobeha.2019.03.004

Amatya, D.N., Linker, S.B., Mendes, A.P.D., Santos, R., Erikson, G., Shokhirev, M.N., Zhou, Y., Sharpee, T., Gage, F.H., Marchetto, M.C., Kim, Y. Dynamical Electrical Complexity Is Reduced during Neuronal Differentiation in Autism Spectrum Disorder. (2019) Stem Cell Reports. DOI: 10.1016/j.stemcr.2019.08.001

Sharpee, T.O. An argument for hyperbolic geometry in neural circuits. (2019) 当前神经生物学评论. 58:101-104. DOI: 10.1016/j.conb.2019.07.008

Berkowitz, J.A., Sharpee, T.O. Quantifying Information Conveyed by Large Neuronal Populations. (2019) 神经计算.:1-33 DOI: 10.1162/neco_a_01193

Zhou, Y., Smith, B.H., Sharpee, T.O. Hyperbolic geometry of the olfactory space. (2018) 科学进展. 4(8):eaaq1458. DOI: 10.1126/sciadv.aaq1458

Zhang, Y., Kastner, D.B., Baccus, S.A., Sharpee, T.O. Optimal Information Transmission by Overlapping Retinal Cell Mosaics. (2018) Proc Conf Inf Sci Syst. 2018. DOI: 10.1109/ciss.2018.8362310

Sharpee, T.O. (2018) Oxford Research Encyclopedias, Neuroscience.:1-23 DOI: doi.org/10.1093/acrefore/9780190264086.013.110

Atencio, C.A., Sharpee, T.O. Multidimensional receptive field processing by cat primary auditory cortical neurons. (2017) Neuroscience. 359:130-141. DOI: 10.1016/j.neuroscience.2017.07.003

Sharpee, T.O. On texture, form, and fixational eye movements. (2017) 当前神经生物学评论. 46:228-233. DOI: 10.1016/j.conb.2017.09.002

Kaardal, J.T., Theunissen, F.E., Sharpee, T.O. A Low-Rank Method for Characterizing High-Level Neural Computations. (2017) Frontiers in Computational Neuroscience. 11:68. DOI: 10.3389/fncom.2017.00068

Sharpee, T.O. Optimizing Neural Information Capacity through Discretization. (2017) 神经元. 94(5):954-960. DOI: 10.1016/j.neuron.2017.04.044

Rowekamp, R.J., Sharpee, T.O. Cross-orientation suppression in visual area V2. (2017) 自然-通讯. 8:15739. DOI: 10.1038/ncomms15739

Sharpee, T.O. Plasticity to the Rescue. (2016) 神经元. 92(5):935-936. DOI: 10.1016/j.neuron.2016.11.042

Kuczala, A., Sharpee, T.O. Eigenvalue spectra of large correlated random matrices. (2016) Phys Rev E. 94(5-1):050101. DOI: 10.1103/PhysRevE.94.050101

Sharpee, T.O. How Invariant Feature Selectivity Is Achieved in Cortex. (2016) 前突触神经科学. 8:26. DOI: 10.3389/fnsyn.2016.00026

Sharpee, T.O. Taking a close look at electrosensing. (2016) Elife. 5. DOI: 10.7554/eLife.16209

Zhang, Y., Sharpee, T.O. A Robust Feedforward Model of the Olfactory System. (2016) PLOS计算生物学. 12(4):e1004850. DOI: 10.1371/journal.pcbi.1004850

Aljadeff, J., Renfrew, D., Vegué, M., Sharpee, T.O. Low-dimensional dynamics of structured random networks. (2016) Phys Rev E. 93(2):022302. DOI: 10.1103/PhysRevE.93.022302

Hinckley, C.A., Alaynick, W.A., Gallarda, B.W., Hayashi, M., Hilde, K.L., Driscoll, S.P., Dekker, J.D., Tucker, H.O., Sharpee, T.O., Pfaff, S.L. Spinal Locomotor Circuits Develop Using Hierarchical Rules Based on Motorneuron Position and Identity. (2015) 神经元. 87(5):1008-21. DOI: 10.1016/j.neuron.2015.08.005

Calhoun, A.J., Tong, A., Pokala, N., Fitzpatrick, J.A., Sharpee, T.O., Chalasani, S.H. 秀丽隐杆线虫评估环境变异性的神经机制。. (2015) 神经元. 86(2):428-41. DOI: 10.1016/j.neuron.2015.03.026

Aljadeff, J., Stern, M., Sharpee, T. Transition to chaos in random networks with cell-type-specific connectivity. (2015) Phys. Rev. Lett. 114(8):088101. DOI: 10.1103/PhysRevLett.114.088101

Kastner, D.B., Baccus, S.A., Sharpee, T.O. Critical and maximally informative encoding between neural populations in the retina. (2015) 美国国家科学院院刊. 112(8):2533-8. DOI: 10.1073/pnas.1418092112

Calhoun, A.J., Chalasani, S.H., Sharpee, T.O. 秀丽隐杆线虫的最大信息量觅食. (2014) Elife. 3. DOI: 10.7554/eLife.04220

Sharpee, T.O. Toward functional classification of neuronal types. (2014) 神经元. 83(6):1329-34. DOI: 10.1016/j.neuron.2014.08.040

Sharpee, T.O. Function determines structure in complex neural networks. (2014) 美国国家科学院院刊. 111(23):8327-8. DOI: 10.1073/pnas.1407198111

Sharpee, T.O., Calhoun, A.J., Chalasani, S.H. 神经元、行为和情绪适应的信息理论。. (2014) 当前神经生物学评论. 25:47-53. DOI: 10.1016/j.conb.2013.11.007

Morris, R., Sancho-Martinez, I., Sharpee, T.O., Izpisua Belmonte, J.C. Mathematical approaches to modeling development and reprogramming. (2014) 美国国家科学院院刊. 111(14):5076-82. DOI: 10.1073/pnas.1317150111

Aljadeff, J., Segev, R., Berry, M.J., Sharpee, T.O. Spike triggered covariance in strongly correlated gaussian stimuli. (2013) PLOS计算生物学. 9(9):e1003206. DOI: 10.1371/journal.pcbi.1003206

Sharpee, T.O. Computational identification of receptive fields. (2013) 神经科学年度评论》。. 36:103-20. DOI: 10.1146/annurev-neuro-062012-170253

Sharpee, T.O., Kouh, M., Reynolds, J.H. Trade-off between curvature tuning and position invariance in visual area V4. (2013) 美国国家科学院院刊. 110(28):11618-23. DOI: 10.1073/pnas.1217479110

Kaardal, J., Fitzgerald, J.D., Berry, M.J., Sharpee, T.O. Identifying functional bases for multidimensional neural computations. (2013) 神经计算. 25(7):1870-90. DOI: 10.1162/NECO_a_00465

Nandy, A.S., Sharpee, T.O., Reynolds, J.H., Mitchell, J.F. The fine structure of shape tuning in area V4. (2013) 神经元. 78(6):1102-15. DOI: 10.1016/j.neuron.2013.04.016

Saremi, S., Sejnowski, T.J., Sharpee, T.O. Double-gabor filters are independent components of small translation-invariant image patches. (2013) 神经计算. 25(4):922-39. DOI: 10.1162/NECO_a_00418

Jeanne, J.M., Sharpee, T.O., Gentner, T.Q. Associative learning enhances population coding by inverting interneuronal correlation patterns. (2013) 神经元. 78(2):352-63. DOI: 10.1016/j.neuron.2013.02.023

Eickenberg, M., Rowekamp, R.J., Kouh, M., Sharpee, T.O. Characterizing responses of translation-invariant neurons to natural stimuli: maximally informative invariant dimensions. (2012) 神经计算. 24(9):2384-421. DOI: 10.1162/NECO_a_00330

Atencio, C.A., Sharpee, T.O., Schreiner, C.E. Receptive field dimensionality increases from the auditory midbrain to cortex. (2012) Journal of Neurophysiology. 107(10):2594-603. DOI: 10.1152/jn.01025.2011

Sharpee, T.O. Adaptive switches in midbrain circuits. (2012) 神经元. 73(1):6-7. DOI: 10.1016/j.neuron.2011.12.017

Fitzgerald, J.D., Rowekamp, R.J., Sincich, L.C., Sharpee, T.O. Second order dimensionality reduction using minimum and maximum mutual information models. (2011) PLOS计算生物学. 7(10):e1002249. DOI: 10.1371/journal.pcbi.1002249

Sharpee, T.O., Nagel, K.I., Doupe, A.J. Two-dimensional adaptation in the auditory forebrain. (2011) Journal of Neurophysiology. 106(4):1841-61. DOI: 10.1152/jn.00905.2010

Sharpee, T.O., Atencio, C.A., Schreiner, C.E. Hierarchical representations in the auditory cortex. (2011) 当前神经生物学评论. 21(5):761-7. DOI: 10.1016/j.conb.2011.05.027

Rowekamp, R.J., Sharpee, T.O. Analyzing multicomponent receptive fields from neural responses to natural stimuli. (2011) Network. 22(1-4):45-73. DOI: 10.3109/0954898X.2011.566303

Fitzgerald, J.D., Sincich, L.C., Sharpee, T.O. Minimal models of multidimensional computations. (2011) PLOS计算生物学. 7(3):e1001111. DOI: 10.1371/journal.pcbi.1001111

Jeanne, J.M., Thompson, J.V., Sharpee, T.O., Gentner, T.Q. Emergence of learned categorical representations within an auditory forebrain circuit. (2011) 神经科学杂志. 31(7):2595-606. DOI: 10.1523/JNEUROSCI.3930-10.2011

Imaizumi, K., Priebe, N.J., Sharpee, T.O., Cheung, S.W., Schreiner, C.E. Encoding of temporal information by timing, rate, and place in cat auditory cortex. (2010) PLOS One. 5(7):e11531. DOI: 10.1371/journal.pone.0011531

Gallarda, B.W., Sharpee, T.O., Pfaff, S.L., Alaynick, W.A. Defining rhythmic locomotor burst patterns using a continuous wavelet transform. (2010) Ann. N. Y. Acad. Sci. 1198:133-9. DOI: 10.1111/j.1749-6632.2010.05437.x

Atencio, C.A., Sharpee, T.O., Schreiner, C.E. Hierarchical computation in the canonical auditory cortical circuit. (2009) 美国国家科学院院刊. 106(51):21894-9. DOI: 10.1073/pnas.0908383106

Fitzgerald, J.D., Sharpee, T.O. Maximally informative pairwise interactions in networks. (2009) Phys Rev E Stat Nonlin Soft Matter Phys. 80(3 Pt 1):031914. DOI: 10.1103/PhysRevE.80.031914

Liu, Y.S., Stevens, C.F., Sharpee, T.O. Predictable irregularities in retinal receptive fields. (2009) 美国国家科学院院刊. 106(38):16499-504. DOI: 10.1073/pnas.0908926106

Sincich, L.C., Horton, J.C., Sharpee, T.O. Preserving information in neural transmission. (2009) 神经科学杂志. 29(19):6207-16. DOI: 10.1523/JNEUROSCI.3701-08.2009

Sharpee, T.O., Victor, J.D. Contextual modulation of V1 receptive fields depends on their spatial symmetry. (2009) Journal of Computational Neuroscience. 26(2):203-18. DOI: 10.1007/s10827-008-0107-5

Kouh, M., Sharpee, T.O. Estimating linear-nonlinear models using Renyi divergences. (2009) Network. 20(2):49-68. DOI: 10.1080/09548980902950891

Atencio, C.A., Sharpee, T.O., Schreiner, C.E. Cooperative nonlinearities in auditory cortical neurons. (2008) 神经元. 58(6):956-66. DOI: 10.1016/j.neuron.2008.04.026

Sharpee, T.O., Miller, K.D., Stryker, M.P. On the importance of static nonlinearity in estimating spatiotemporal neural filters with natural stimuli. (2008) Journal of Neurophysiology. 99(5):2496-509. DOI: 10.1152/jn.01397.2007

Clifford, C.W., Webster, M.A., Stanley, G.B., Stocker, A.A., Kohn, A., Sharpee, T.O., Schwartz, O. Visual adaptation: neural, psychological and computational aspects. (2007) Vision Research. 47(25):3125-31. DOI: 10.1016/j.visres.2007.08.023

Sharpee, T.O. Comparison of information and variance maximization strategies for characterizing neural feature selectivity. (2007) Stat Med. 26(21):4009-31. DOI: 10.1002/sim.2931

Sharpee, T., Bialek, W. Neural decision boundaries for maximal information transmission. (2007) PLOS One. 2(7):e646. DOI: 10.1371/journal.pone.0000646

Sharpee, T.O., Sugihara, H., Kurgansky, A.V., Rebrik, S.P., Stryker, M.P., Miller, K.D. Adaptive filtering enhances information transmission in visual cortex. (2006) 自然. 439(7079):936-42. DOI: 10.1038/nature04519

Victor, J.D., Mechler, F., Repucci, M.A., Purpura, K.P., Sharpee, T. Responses of V1 neurons to two-dimensional hermite functions. (2006) Journal of Neurophysiology. 95(1):379-400. DOI: 10.1152/jn.00498.2005

Sharpee, T., Sugihara, H., Kurgansky, A.V., Rebrik, S., Stryker, M.P., Miller, K.D. Probing feature selectivity of neurons in primary visual cortex with natural stimuli. (2004) Proc SPIE Int Soc Opt Eng.(5467):212-222

Sharpee, T., Rust, N.C., Bialek, W. Analyzing neural responses to natural signals: maximally informative dimensions. (2004) 神经计算. 16(2):223-50. DOI: 10.1162/089976604322742010

Dykman, M.I., Sharpee, T., Platzman, P.M. Enhancement of tunneling from a correlated 2D electron system by a many-electron Mössbauer-type recoil in a magnetic field. (2001) Phys. Rev. Lett. 86(11):2408-11. DOI: 10.1103/PhysRevLett.86.2408

Barabash-Sharpee, T., Dykman, M.I., Platzman, P.M. Tunneling transverse to a magnetic field and its occurrence in correlated 2D electron systems. (2000) Phys. Rev. Lett. 84(10):2227-30. DOI: 10.1103/PhysRevLett.84.2227