Knierim Lab > Publications

Publications

Recent publications (2019-2024)

  1. Branch, A., Monasterio, A., Blair, G., Knierim, J. J., Gallagher, M., & Haberman, R. P. (2019). Aged rats with preserved memory dynamically recruit hippocampal inhibition in a local/global cue mismatch environment. Neurobiology of Aging, 76, 151–161.
  2. Chen, Y., Branch, A., Shuai, C., Gallagher, M., Knierim, J. J. (2023). Object-place-context learning impairment correlates with spatial learning impairment in aged Long-Evans rats. Hippocampus. https://doi.org/10.1002/hipo.23591
  3. GoodSmith, D., Kim, S. H., Puliyadi, V., Ming, G., Song, H., Knierim, J. J., Christian, K. M. (2022). Flexible encoding of objects and space in single cells of the dentate gyrus. Current Biology, 32, 1088-1101.e5.
  4. GoodSmith, D., Lee, H., Neunuebel, J. P., Song, H., Knierim, J. J. (2019). Dentate gyrus mossy cells share a role in pattern separation with dentate granule cells and proximal CA3 pyramidal cells. Journal of Neuroscience, 39, 9570–9584.
  5. Jayakumar, R. P., Madhav, M. S., Savelli, F., Blair, H. T., Cowan, N. J., Knierim, J. J. (2019). Recalibration of path integration in hippocampal place cells. Nature, 566, 533–537.
  6. Kim, S. H., GoodSmith, D., Temme, S. J., Moriya, F., Ming, G., Christian, K. M., Song, H., Knierim, J. J. (2023). Global remapping in granule cells and mossy cells of the mouse dentate gyrus. Cell Reports, 42, 112334.
  7. Lee, H., GoodSmith, D., Knierim, J. J. (2020). Parallel processing streams in the hippocampus. Current Opinion in Neurobiology, 64, 127–134.
  8. Lee, H., Wang, Z., Tillekeratne, A., Lukish, N., Puliyadi, V., Zeger, S., Gallagher, M., Knierim, J. J. (2022). Loss of functional heterogeneity along the CA3 transverse axis in aging. Current Biology: CB, 32, 2681-2693.e4.
  9. Lee, H., Wang, Z., Zeger, S. L., Gallagher, M., Knierim, J. J. (2021). Heterogeneity of Age-Related Neural Hyperactivity along the CA3 Transverse Axis. The Journal of Neuroscience, 41, 663–673.
  10. Madhav, M. S., Jayakumar, R. P., Lashkari, S. G., Savelli, F., Blair, H. T., Knierim, J. J., Cowan, N. J. (2022). The Dome: A virtual reality apparatus for freely locomoting rodents. Journal of Neuroscience Methods, 368, 109336.
  11. Rao, G., Lee, H., Gallagher, M., Knierim, J. J. (2021). Decreased investigatory head scanning during exploration in learning-impaired, aged rats. Neurobiology of Aging, 98, 1–9.
  12. Savelli, F., Knierim, J. J. (2019). Origin and role of path integration in the cognitive representations of the hippocampus: Computational insights into open questions. The Journal of Experimental Biology, 222, 10.1242/jeb.188912.
  13. Wang, C., Chen, X., Knierim, J. J. (2020). Egocentric and allocentric representations of space in the rodent brain. Current Opinion in Neurobiology, 60, 12–20.
  14. Wang, C.-H., Monaco, J. D., Knierim, J. J. (2020). Hippocampal Place Cells Encode Local Surface-Texture Boundaries. Current Biology, 30, 1397-1409.e7.

Research Papers

  1. Knierim JJ, Van Essen DC. Neuronal responses to static texture patterns in area V1 of the alert macaque monkey. J.Neurophysiol. 1992; 67:961-980
  2. Olavarria J, DeYoe EA, Knierim JJ, Fox JM, Van Essen DC. Neural responses to visual texture patterns in the Middle Temporal Area (MT) of the macaque monkey. J. Neurophysiol. 1992; 68:164-181.
  3. Knierim JJ, Kudrimoti HS, McNaughton BL. Place cells, head direction cells, and the learning of landmark stability. J. Neurosci. 1995; 15:1648-1659.
  4.  McNaughton BL, Barnes CA, Gerrard JL, Gothard K, Jung MW, Knierim JJ, Kudrimoti H, Qin Y, Skaggs WE, Suster M, Weaver KL. Deciphering the hippocampal polyglot: The hippocampus as a path integration system. J. Exp. Biol. 1996; 199: 173-185.
  5. Knierim JJ, Kudrimoti HS, McNaughton BL. Interactions between idiothetic cues and external landmarks in the control of place cells and head direction cells. 1998; J. Neurophysiol. 80:425-446.
  6. Knierim JJ, McNaughton BL, Poe GR. Three-dimensional spatial selectivity of hippocampal neurons during space flight. Nature Neurosci. 2000; 3:209-210.
  7. Knierim JJ, McNaughton BL.Hippocampal place cell firing during movement in three-dimensional space. J. Neurophysiol. 2001; 85:105-116.
  8. Knierim JJ. Dynamic interactions between local surface cues, distal landmarks, and intrinsic circuitry in hippocampal place cells. J. Neurosci. 2002; 22:6254-6264
  9. Knierim JJ, Rao G. Distal landmarks and hippocampal place cells: Effects of relative translation vs. rotation. Hippocampus 2003; 13:604-617.
  10. Lee I, Rao G, Knierim JJ. A double dissociation between hippocampal subfield: Differential time course of CA3 and CA1 place cells for processing changed environments. Neuron 2004; 42:803-815.
  11. Lee I, Yoganarasimha D, Rao G, Knierim JJ. Comparison of population coherence of place cells in hippocampal subfields CA1 and CA3. Nature 2004; 430:456-459.
  12. Guzowski JF, Knierim JJ, Moser EI. Ensemble dynamics of hippocampal regions CA3 and CA1. Neuron 2004; 44:581-584.
  13. Yoganarasimha D, Knierim JJ. Coupling between place cells and head direction cells during relative translations and rotations of distal landmarks. Exp. Brain Res. 2005; 160:344-359.
  14. Hargreaves EL, Rao G, Lee I, Knierim JJ. Major dissociation between medial and lateral entorhinal input to dorsal hippocampus. Science 2005; 308:1792-1794.
  15. Yoganarasimha D, Yu X, Knierim JJ. Head direction cell representations maintain internal coherence during conflicting proximal and distal cue rotations : Comparison with hippocampal place cells. J. Neurosci. 2006; 26:622-631.
  16. Yu X, Knierim JJ, Lee I, Shouval HS. Stimulating place field dynamics using spike timing-dependent plasticity. Neurocomputing 2006; 69:1253-1259.
  17. Yu X, Yoganarasimha D, Knierim JJ. Backward shift head direction tuning curves of the anterior thalamus: Comparison with CA1 place fields.Neuron 2006; 52:717-729.
  18. Knierim JJ, Lee I, Hargreaves EL. Hippocampal place cells: Parallel input streams, subregional processing, and implications for episodic memory.Hippocampus 2006; 16:755-764.
  19. Hargreaves EL, Yoganarasimha D, Knierim JJ. Cohesiveness of Spatial and Directional Representations Recorded from Neural Ensembles in the Anterior Thalamus, Parasubiculum, Medial Entorhinal Cortex, and Hippocampus. Hippocampus 2007; 17:826-841.
  20. van der Meer MAA, Knierim JJ, Yoganarasimha D, Wood ER, van Rossum MCW. Anticipation in the rodent head direction cell system can be explained by an interaction of head movements and vestibular firing properties. J. Neurophysiol. 2007; 98:1883-1897.
  21. Lee I, Knierim JJ. The relationship between the field-shifting phenomenon and representational coherence of place cells in CA1 and CA3 in a cue-altered environment. Learn. Mem. 2007; 14:807-815.
  22. Siegel JJ, Neunuenbel JP, Rao G, Knierim JJ. Dominance of the proximal coordinate frame in determining the locations of hippocampal place cell activity during navigation. J. Neurophysiol. 2008; 99:60-76.
  23. Yu X, Shouval HS, Knierim JJ.A biophysical model of synaptic plasticity and metaplasticity can account for the dynamics of the backward shift of hippocampal place fields. J. Neurophysiol. 2008; 100:983-992.
  24. Savelli F, Yoganarasimha D, Knierim JJ. Influence of boundary removal on the spatial representations of the medial entorhinal cortex. Hippocampus2008; 18:1270-1282.
  25. Savelli F, Knierim JJ. Hebbian analysis of the transformation of medial entorhinal grid-cell inputs to hippocampal place fields. J. Neurophysiol. (published online March 31, 2010 in J. Neurophysiol Articles in PresS doi:10.1152/jn.00932.2009).
  26. Deshmukh S, Yoganarasimha D, Voicu H, Knierim JJ. Theta modulation in the medial and the lateral entorhinal cortex.  J. Neurophysiol. (published online May 26, 2010 in J. Neurophysiol Articles in PresS doi:10.1152/jn.01141.2009).
  27. Yoganarasimha  D, Rao G, Knierim JJ. Lateral entorhinal neurons are not spatially selective in cue-rich environments. Hippocampus. 2011; 12:1363-1374.
  28. Monaco JD, Knierim JJ, Zhang K. Sensory Feedback, error correction, and remapping in a multiple oscillator model of place-cell activity. Front. Comput. Neurosci. 2011; 5:39.
  29. Deshmukh SS, Knierim JJ. Representation of non-spatial and spatial information in the lateral entorhinal cortex. Front. Behav. Neurosci. 2011; 5:69.
  30. Neunuebel JP, Knierim JJ. Spatial firing correlates of physiologically distinct cell types of the rat dentate gyrus. J Neurosci. 2012 Mar 14;32(11):3848-58.
  31. Roth ED, Yu X, Rao G, Knierim JJ. Functional differences in the backwards shifts of CA1 and CA3 place fields in novel and familiar environments. PLoS One. 2012;7(4):e36035
  32. Deshmukh SS, Johnson JL, Knierim JJ. Perirhinal cortex represents nonspatial, but not spatial, information in rats foraging in the presence of objects: Comparison with lateral entorhinal cortex. Hippocampus 2012; 10:2045-58.
  33. Deshmukh SS, Knierim JJ. Influence of local objects on hippocampal representations: landmark vectors and memory. Hippocampus 2013; 23:253-267.
  34. Neunuebel JP, Yoganarasimha D, Rao G, Knierim JJ. Conflicts between local and global spatial frameworks dissociate neural representations of the lateral and medial entorhinal cortex. J. Neurosci. 2013; 33:9246-9258.
  35. Neunuebel JP, Knierim JJ. CA3 retrieves coherent spatial representations from degraded dentate gyrus input: Direct evidence for pattern completion in CA3 and pattern separation in the dentate gyrus. Neuron2014; 81:416-427.
  36. Monaco JD, Rao G, Roth ED, Knierim JJ. Attentive scanning behavior drives one-trial potentiation of hippocampal place fields. Nature Neurosci.2014; 17:725-731.
  37. Lee H, Kang E, GoodSmith D, Yoon do Y, Song H, Knierim JJ, Ming GL, Christian KM. DISC1-mediated dysregulation of adult hippocampal neurogenesis in rats. Front Syst Neurosci. 2015 Jun 25;9:93.
  38. Lee H, Wang C, Deshmukh SS, Knierim JJ. Neural Population Evidence of Functional Heterogeneity along the CA3 Transverse Axis: Pattern Completion versus Pattern Separation. Neuron. 2015 Sep 2;87(5):1093-105.
  39. Savelli F, Luck J, Knierim JJ. Framing of grid cells within and beyond navigation boundaries. Bhalla US, ed. eLife. 2017; 6:e21354.
  40. Goodsmith D, Chen X, Wang C, Kim SH, Burgalossi A, Christian KM, Knierim JJ. Spatial Representations of Granule Cells and Mossy Cells of the Dentate Gyrus. Neuron. 2017; Feb 8;93(3):677-690.e5.
  41. Tsao A, Sugar J, Lu L, Wang C, Knierim JJ, Moser M-B, Moser EI. Integrating time from experience in lateral entorhinal cortex. Nature 2018; 561:57-62.
  42. Wang C, Chen X, Lee H, Deshmukh SS, Yoganarasimha D, Savelli F, Knierim JJ. Egocentric coding of external items in the lateral entorhinal cortex. Science 2018; 362:945-949.
  43. Branch A, Monasterio A, Blair G, Knierim JJ, Gallagher M, Haberman RP. Aged rats with preserved memory dynamically recruit hippocampal inhibition in a local/global cue mismatch environment. Neurobiol Aging 2019; 76:151-161..
  44. Jayakumar RP, Madhav MS, Savelli F, Blair HT, Cowan NJ, Knierim JJ. Recalibration of path integration in hippocampal place cells.. Nature 2019; 566:533-537.
  45. GoodSmith D, Lee H, Neunuebel JP, Song H, Knierim JJ. Dentate gyrus mossy cells share a role in pattern separation with dentate granule cells and proximal CA3 pyramidal cells. Neurosci. 2019; 39:9570-9584.
  46. Wang C.-H., Monaco J. D., & Knierim J. J. (2020). Hippocampal Place Cells Encode Local Surface-Texture Boundaries. Current Biology, 30(8), 1397-1409.e7.
  47. Rao G, Lee H, Gallagher M, Knierim JJ. Decreased investigatory head scanning during exploration in learning-impaired, aged rats. Neurobiol. Aging 2020; 98.
  48. Lee H, Wang Z, Zeger SL, Gallagher M, Knierim JJ. Heterogeneity of Age-Related Neural Hyperactivity along the CA3 Transverse Axis. J. Neurosci. 2021; 41:663-673.
  49. Vagvolgyi BP, Jayakumar RP, Madhav, MS, Knierim JJ, & Cowan, NJ. Wide-angle, monocular head tracking using passive markers (2022). J. Neurosci. Meth. 2022; 368:109336.
  50. Madhav MS, Jayakumar RP, Lashkari SG, Savelli F, Blair HT, Knierim JJ, & Cowan, NJ. The Dome: A virtual reality apparatus for freely locomoting rodents. J. Neurosci. Meth. 2022; 368:109453.
  51. Lee H, Wang Z, Tillekeratne A, Lukish, N, Puliyadi, V, Zeger, S, Gallagher, M, & Knierim JJ. Loss of functional heterogeneity along the CA3 transverse axis in aging. Current Biology 2022: S0960-9822(22)00713-8.
  52. GoodSmith D, Kim SH, Puliyadi V, Ming G, Song H, Knierim, JJ & Christian, KM. (2022). Flexible encoding of objects and space in single cells of the dentate gyrus. Current Biology 32(5) p1088–1101.e5
  53. Wang, C., Lee, H., Rao, G., Doreswamy, Y., Savelli, F., & Knierim, J. J. (2023). Superficial-layer versus deep-layer lateral entorhinal cortex: Coding of allocentric space, egocentric space, speed, boundaries, and corners. Hippocampus, 33, 448–464.

Review Articles and Commentaries

  1. Knierim JJ, Van Essen DC. Visual cortex: Cartography, connectivity, and concurrent processing. Curr. Opin. Neurobiol. 1992; 2:150-155.
  2. Knierim JJ, McNaughton BL. Commentary on “Processing the head direction signal: A review and commentary.” by Taube et at., Brain Res. Bull. 1996; 40:484-485.
  3. Knierim JJ. LTP takes route in the hippocampus. Neuron 2000; 25:504-506.
  4. Knierim JJ. Hippocampus and memory: Can we have our place and fear it too? Neuron 2003; 37:372-374.
  5. Knierim JJ. How to avoid going bump in the night: Object and place representations in the hippocampus. J. Gen. Physiol. 2004; 124:3-6.
  6. Knierim JJ. Neural representations of location outside the hippocampus.Learn. Mem. 2006; 13:405-415.
  7. Knierim JJ. Grid cells: The brain’s graph paper, and then some. Scientific American.com Mind Matters, Jan. 23, 2007. (Reprinted as Knierim, JJ. The matrix in your head. Scientific American Mind, June /July 2007.)
  8. Knierim JJ. Imagining the possibilities: Ripples, routes, and reactivation.Neuron 2009; 63:421-423.
  9. Knierim JJ, Hamilton DA. Framing spatial cognition: Neural representations of proximal and distal frames of reference and their roles in navigation. Physiol. Rev. 2011; 4:1245-1279.
  10. Savelli F, Knierim JJ. Coming up: In search of the vertical dimension in the brain. Nature Neurosci. 2011; 14:1102-1103.
  11. Foster D, Knierim JJ. Sequence Learning and the Role of the Hippocampus in Rodent Navigation. Curr. Opin. Neurobiol. 2012 Apr;22(2):294-300.
  12. Knierim JJ, Zhang K. Attractor dynamics of spatially correlated neural activity in the limbic system. Annu Rev Neurosci. 2012;35:267-85.
  13. Deshmukh SS, Knierim JJ. Hippocampus. WIREs Cogn. Sci. 2012; 3:231-251 (doi:  10.1002/wcs.1164).
  14. Savelli F, Knierim JJ. The problem of conflicting reference frames when investigating 3D space in surface-dwelling animals. 2013; Behav. Brain Sci. 36:564-565.
  15. Knierim JJ, Neunuebel JP, Deshmukh SS. Functional correlates of the lateral and medial entorhinal cortex: Objects, path integration, and local-global reference frames. Phil. Trans. Royal. Soc. Lond. B. 2013; 369:  doi:10.1098/rstb.2013.0369.
  16. Knierim JJ. From the GPS to HM: Place cells, grid cells, and memory. Hippocampus. 2015 Jun; 25(6):719-25.
  17. Knierim JJ, Neunuebel JP. Tracking the flow of hippocampal computation: Pattern separation, pattern completion, and attractor dynamics. Neurobiol Learn Mem. 2015 Oct 26. pii: S1074-7427(15)00188-4.
  18. Knierim JJ. The Hippocampus. Current Biology. 2015 Dec 7. Volume 25, Issue 23: R1116-R1121.
  19. Knierim JJ, Neunuebel JP. Tracking the flow of hippocampal computation: Pattern separation, pattern completion, and attractor dynamics. Neurobiol. Learn. Mem. 2016; 129:38-49.
  20. Connor CE, Knierim JJ. Integration of objects and space in perception and memory. Nature Neurosci. 2017; 20:1493-1503.
  21. Savelli F, Knierim JJ. AI mimics brain codes for navigation. (News & Views). Nature 2018; 557:313-314.
  22. Chen X, Knierim JJ. It’s about time: Temporal dynamics of dentate gyrus pattern separation. 2018; Neuron 98:681-683.
  23. Savelli F, Knierim JJ. Origin and role of path integration in the cognitive representations of the hippocampus: computational insights into open questions. J. Exp. Biol. 2019; 222: jeb188912; doi: 10.1242/jeb.188912.
  24. Wang C, Chen X, Knierim JJ. Egocentric and allocentric representations of space in the rodent brain. Curr. Opin. Neurobiol. 2019; 60:12-20.
  25. Lee, H, GoodSmith D, Knierim JJ. Parallel processing streams in the hippocampus. Curr. Opin. Neurobiol. 2020; 64:127-134.

Books

  1. Derdikman D, Knierim JJ (Eds.) Space, Time and Memory in the Hippocampal Formation. Springer-Verlag: Vienna, Austria (in press).

Book Chapters

  1. Van Essen DC, DeYoe EA, Olavarria JF, Knierim JJ, Fox JM, Sagi D, Julesz B. Neural responses to static and moving texture patterns in visual cortex of the macaque monkey. In Neural Mechanisms of Visual Perception (DM-K Lam, C Gilbert, eds.) Portfolio Publishing: Woodlands TX., pp. 137-154, 1989.
  2. Van Essen DC, Felleman DJ, DeYoe EA, Olavarria J, Knierim J. Modular and hierarchal organization of extrastriate visual cortex in macaque monkey. Cold Spring Harbor Symp. Quant. Biol. 1990; 55: 679-696.
  3. Van Essen DC, Felleman DJ, DeYoe EA, Knierim JJ. Probing the primate visual cortex: Pathways and perspective. In From Pigments to Perception(A Valberg, BB Lee, Eds.) Plenum: New York, pp. 227-237, 1991.
  4. McNaughton BL, Knierim JJ, Wilson MA. Vector encoding and the vestibular foundations of spatial cognition: Neurophysiological and computational mechanisms. In The Cognitive Neurosciences (M Gazzaniga, Ed.) MIT Press: Boston, pp. 585-595, 1994.
  5. Skaggs WE, Knierim JJ, Kudrimoti HS, McNaughton BL. A model of the neural basis of the rat’s sense of direction. In Advances in Neural Information Processing Systems, Vol. 7 (DS Touretzky, G Tesauro, TK Leen, Eds.) MIT Press: Cambridge, pp. 173-180, 1995.
  6. Knierim JJ, Kudrimoti HS, McNaughton BL. Neuronal mechanisms underlying the interaction between visual cues and path integration in the rat. In Proceedings of the Third Workshop on Neural Networks: From Biology to High Energy Physics (DJ Amit, P del Guidice, B Denby, ET Rolls, A Treves, Eds.) Int. J. of Neural Systems, Suppl., 95-100, 1995.
  7. Kudrimoti HS, Knierim JJ, McNaughton BL. Dynamics of visual cue control over head direction cells. In New Directions in Vestibular Research, (SM highstein, B Cohen, JA Buttner-Ennever, Eds.) New York Academy of Sciences: New York, pp. 642-644, 1996.
  8. Knierim JJ, Skaggs WE, Kudrimoti HS, McNaughton BL. Vestibular and visual cues in navigation: A tale of two cities. In New Directions in Vestibular Research,  (SM Highstein, B Cohen, JA Buutner-Ennever, Eds. ) New York Academy of Sciences: New York, pp. 399-406, 1996.
  9. Knierim JJ, Kudrimoti HS, Skaggs WE, McNaughton BL. The interaction between vestibular cues and visual landmark learning in spatial navigation. In Perception, Memory, and Emotion (T Ono, B McNaughton, S Molotchnikoff, E Rolls, H. Nishijo, Eds.) Pergamon: Oxford, pp. 343-357, 1996.
  10. Knierim JJ. The path integratino properties of hippocampal place cells. In The Neural Basis of Navigation: Evidence from Single Cell Recording (P Sharp , Ed.) Kluwer: New York, pp. 41-58, 2001.
  11. Knierim JJ. Decoding single neuron activity. In Encyclopedia of Cognitive Science (L Nadel, Ed.) Macmillan: London, pp. 923-926, 2002.
  12. Knierim JJ, McNaughton BL, and Poe GR. Measurement of place cell firing in the hippocampus in space. In The Neurolab Spacelab Mission: Neuroscience Research in Space (JC Buckley, JL Homick, Eds.). NASA: Washington, D.C., pp. 63-68, 2003.
  13. Knierim JJ, McNaughton BL, Stengel C, Poe GR. Measurement of place cell firing in the hippocampus in space. In The Neurolab Spacelab Mission: Neuroscience Research in Space (JC Buckley, JL Homick, Eds.). NASA: Washington D.C., pp. 245-247, 2003.
  14. Knierim JJ. Hippocampal remapping: Implications for spatial learning and memory. In The Neurobiology of Spatial Behaviour (K Jeffery, Ed.) Oxford University Press: Oxford, pp. 226-239, 2003.
  15. Knierim JJ. Coupling between head direction cells and place cells: Influences and landmarks, self-motion, and intrinsic circuitry. In Head Direction Cells and the Neural Mechanisms of Spatial Orientation (SI Wiener, JS Taube, Eds.) MIT Press: Cambridge, MA, pp. 163-185, 2005.
  16. Lee I, Kesner R, Knierim JJ. The roles of hippocampal subfields in processing spatial contexts of events: Behavioral and neurophysiological analyses. In Hippocampal Place Fields: Relevance to Learning and Memory (S. Mizumori, Ed.) Oxford University Press: Oxford, pp. 82-106, 2008.
  17. Knierim JJ. Synaptic Plasticity and place cell formation. Encyclopedia of Neuroscience (LR Squire, Ed.) Academic Press: Oxford, pp. 735-740, 2008.
  18. Knierim JJ. Information processing in neural networks. In From Molecules to Networks (2nd edition) (JH Byrne, JL Roberts, Eds.) Elsevier: New York, pp. 513-537, 2009.Deshmukh SS, Knierim JJ. Hippocampus. Wiley Interdisciplinary Reviews: Cognitive Science (in press).