Neuroscience (original) (raw)

05 Sep 2024 11:09

Esp. of perception, attention, imagination, memory, reasoning, serial-order behavior. Popular distortions. And psychiatry.

Once all of this was called "neurology," but now neurology is just neural medicine, if not just brain surgery, so we have neuroscience, or the neurosciences (including neurobiology, neurochemistry, neuropharmacology, neuropsychology, neuropsychiatry, neuroendocrinology, neuroimmunology, neuroethology, cognitive neuroscience and even the cognitivie neurosciences, and so on ad neuroseam). One constant in all this is that every single textbook on the brain, at least since William James's 1890Principles of Psychology, declares that most of what we know about the brain has been learned in the last twenty-five years. The truly frightening thing is that this seems to be true.

Neural coding, synchronization and modeling and data-analysis are all important enough for me to deserve their own notebooks. Similarly neural nets, though their relation to real neurons is merely impressionistic.

See also:Cognitive Science;Complex Networks;Emotion;Excitable Media

To see where this is coming from:

• Denis Diderot, D'Alembert's Dream
• Anne Harrington
  • Medicine, Mind and the Double Brain: A Study in Nineteenth Century Thought
  • Reenchanted Science: Holism in German Culture from Wilhelm II to Hitler [Intruiging material on a school of neuroscience now completely, and deservedly, extinct]
• William James, Principles of Psychology [Fascinating stuff on connectionism, and, indeed, almost everything else]
• Marc Jeannerod, The Brain Machine: The Development of Neurophysiological Thought [The French title (Le Cerveau-Machine: Physiologie de la Volonté) is better: not only does it describe the subject more precisely --- Jeannerod is specifically concerned with voluntary motion ---- the English loses the play on La Mettrie.]
• Julian Offray de La Mettrie, Man a Machine
• Charles Sherrington, The Integrative Action of the Nervous System [The view from the beginning of the 20th century.Mini-review]
• W. Grey Walter, The Living Brain [The view from the 1950s]
• J. Z. Young, Doubt and Certainty in Science [Another view from the 1950s]
• Carl Zimmer, Soul Made Flesh: The Discovery of the Brain --- and How It Changed the World To see where this is:
• Michael A. Arbib (ed.), The Handbook of Brain Theory and Neural Networks
• John Bickle, "Understanding Neural Complexity: A Role for Reduction", Minds and Machines 11 (2001): 467--481
• Valentino Braitenberg, Vehicles: Experiments in Synthetic Psychology [Review: Hume on Wheels, or, One Must Imagine Frankenstein Happy]
• Behavioral and Brain Sciences
• William Calvin, The Throwing Madonna [Nice chapter debunking right-brain/left-brain superstitions]
• Calvin and Ojemann, Conversations with Neil's Brain
• Patricia Churchland and Terrence Sejnowski, The Computational Brain
• Antonio Damasio, Descartes' Error
• Karl Friston, "Beyond Phrenology: What Can Neuroimaging Tell Us About Distributed Circuitry?", Annual Review of Neuroscience 25 (2002): 221--250
• Richard Gregory, Eye and Brain
• Dan Hartline, The STG Homepage
• J. A. Henderson and P. A. Robinson, "Geometric Effects on Complex Network Structure in the Cortex", Physical Review Letters 107 (2011): 018102
• Cyril Herry, Stephane Ciocchi, Verena Senn, Lynda Demmou, Christian Müller and Andreas Lüthi, "Switching on and off fear by distinct neuronal circuits", Nature 454 (2008): 600--606
• Nikos K. Logothetis, "What we can do and what we cannot do with fMRI", Nature 453 (2008): 869--878
• A. R. Luria
  • The Man with a Shattered World
  • The Working Brain [described under neuropsychology]
• Mijung Park, Oluwasanmi Koyejo, Joydeep Ghosh, Russell Poldrack, Jonathan Pillow, "Bayesian Structure Learning for Functional Neuroimaging",AIStats 2013
• Russell A. Poldrack, "Is 'efficiency' a useful concept in cognitive neuroscience?", Developmental Cognitive Neuroscience forthcoming (2014)
• Alex Proekt, Vladimir Brezina and Klaudiusz R. Weiss, "Dynamical basis of intentions and expectations in a simple neuronal network",PNAS(2004) 10.1073/pnas.0402002101 [What does a sea-slug's tongue expect to have to do next?]
• J. D. Ramsey, S. J. Hanson, C. Hanson, Y. O. Halchenko, R. A. Poldrack and C. Glymour, "Six Problems for Causal Inference from fMRI" [Thanks to Prof. Glymour for a preprint]
• Tim Shallice, From Neuropsychology to Mental Structure
• Tim Shallice and Richard P. Cooper, The Organisation of Mind
• Gordon Shephard, Neurobiology
• Tal Yarkoni, "Functional MRI in Health Psychology and beyond: A call for caution", European Health Psychologist 13 (2011): 61--64 [The problems Yarkoni correctly points out here have nothing to do with health psychology specifically] To read, philosophical and popular:
• Ira Black, Information in the Brain
• Changeux
  • Conversations on Minds, Mathematics and Machines
  • Neuronal Man
  • The Physiology of Truth: Neuroscience and Human Knowledge
• Churchland and Churchland, On the Contrary
• Corballis, The Lopsided Ape
• Carl F. Craver, Explaining the Brain
• Stanislas Dehaene (ed.), The Cognitive Neuroscience of Consciousness
• Michael S. Gazzaniga, The Mind's Past
• R. L. Gregory, The Intelligent Eye
• Richard L. Gregory (ed.), The Oxford Companion to the Mind
• Joseph B. Hellige, Hemispheric Asymmetry: What's Right and What's Left
• Gregory Hickok, The Myth of Mirror Neurons: The Real Neuroscience of Communication and Cognition[Positive review by Patricia Churchland in Nature]
• Philip J. Hilts, Memory's Ghost: The Strangle Tale of Mr. M and the Nature of Memory [More "neurography"]
• Hobson
  • Chemistry of Conscious States
  • The Dreaming Mind
• Hubel, Eye, Brain and Vision [Hubel is one of the discoverers of arrays of cells dedicated to looking for very specific visual features --- lines at certain angles, moving dark patches, etc.]
• Paolo Legrenzi and Carlo Umiltà, Neuromania: On the Limits of Brain Science[Favorable review in Science]
• V. S. Ramachandran and Andra Blakslee, Phantoms in the Brain
• Roger N. Shepard, Mind Sights: Original Visual Illusions, Ambiguities and Other Anomalies, with a Commentary on the Play of Mind in Perception and Art
• Snyder, Drugs and the Brain
• Catherine E. Stinson, Cognitive Mechanisms and Computational Models: Explanation in Cognitive Neuroscience [Ph.D. Thesis, Philosophy Dept., University of Pittsburgh, 2013; thanks to Dr. Stinson for a copy]
• David Johnson Thornton, Brain Culture: Neuroscience and Popular Media [Review/exposition in The Atlantic]
• J. Z. Young, A Model of the Brain
• Semir Zeki
  • Inner Vision
  • A Vision of the Brain To read, historical:
• Brazier, A History of Neurophysiology
• Robert B. Campenot, Animal Electricity: How We Learned That the Body and Brain Are Electric Machines
• Benjamin Ehrlich, The Brain in Search of Itself: Santiago Ramón y Cajal and the Story of the Neuron [Favorable review in Nature]
• Finger, Origins of Neuroscience
• Mitchell Glickstein, Neuroscience: A Historical Introduction
• R. L. Gregory, Mind in Science: A History of Explanation in Psychology
• Gross, Brain, Vision and Memory: Tales in the History of Neuroscience
• Marshall and Magoun, Discoveries in the Human Brain
• S. Weir Mitchell
• Jonathan D. Moreno, Mind Wars: Brain Research and National Defense
• Sidney Ochs, A History of Nerve Functions: From Animal Spirits to Molecular Mechanisms
• Wilder Penfield, The Excitable Cortex in Conscious Man
• Santiago Ramon y Cajal, Recollections of My Life
• Edward S. Reed, From Soul to Mind: The Emergence of Psychology from Erasmus Darwin to William James
• Gordon Shepherd,
• Foundations of the Neuron Doctrine
• Sherrington, Man on his Nature
• Roger Smith, Inhibition: History and Meaning in the Sciences of Mind and Brain
• Elliot S. Valenstein, The War of the Soups and the Sparks: The Discovery of Neurotransmitters and the Dispute over How Nerves Communicate
• Robert M. Young, Mind, Brain and Adaptation in the 19th Century To read, technical:
• Aidley, Physiology of Excitable Cells
• Daniel Amit, The Hebbian Paradigm Reintegerated: Local Reverberations as Internal Representations
• Michael L. Anderson, "Neural reuse: A fundamental organizational principle of the brain", Behavioral and Brain Sciences 33 (2010): 245--313 [+ commentary and rejoinder. PDF via Prof. Anderson]
• Arbib, Erdi and Szentagothai, Neural Organization: Structure, Function, and Dynamics
• Yuri I. Arshavsky, "Cellular and network properties in the functioning of the nervous system: from central pattern generators to cognition," Brain Research Reviews 41 (2003): 229--267
• Abigail A. Baird, Mary Kathryn Colvin, John D. VanHorn, Souheil Inati and Michael S. Gazzaniga, "Functional Connectivity: Integrating Behavioral, Diffusion Tensor Imaging, and Functional Magnetic Resonance Imaging data sets", Journal of Cognitive Neuroscience 17 (2005): 687--693[Full-text free on line as a teaser for the journal]
• William Bialek
  • "Thinking about the brain,"physics/0205030
  • Biophysics: Searching for Principles
• Richard J. Bodnar, Kathryn Commons, and Donald W. Pfaff, Central Neural States Relating Sex and Pain [Inexplicably not subtitled "Neural foundations of BDSM"]
• Valentino Braitenberg, On the Texture of Brains: An Introduction to Neuroanatomy for the Cybernetically Minded
• Kevin L. Briggman, H. D. I. Abarbanel and William B. Kristan, Jr., "Optimal Imaging of Neuronal Populations During Decision-Making",Science 307 (2005): 896--901
• Kevin L. Briggman and William B. Kristan, Jr., "Imaging Dedicated and Multifunctional Neural Circuits Generating Distinct Behaviors", The Journal of Neuroscience 26 (2006): 10925--10933
• Timothy J. Buschman and Earl K. Miller, "Top-Down Versus Bottom-Up Control of Attention in the Prefrontal and Posterior Parietal Cortices", Science 315(2007): 1860--1862
• Richard B. Buxton, Introduction to Functional Magnetic Resonance Imaging: Principles and Techniques
• John Cacioppo (ed.), Foundations of Social Neuroscience
• Thomas J. Carew, Behavioral Neurobiology: The Cellular Organization Of Natural Behavior
• B. Cessac and M. Samuelides, "From Neuron to Neural Network Dynamics", nlin.AO/0609038
• Lucie Charles, Jean-Rémi King and Stanislas Dehaene, "Decoding the Dynamics of Action, Intention, and Error Detection for Conscious and Subliminal Stimuli", Journal of Neuroscience 34 (2014): 1158--1170
• Mario Chavez, Miguel Valencia, Vito Latora, Jacques Martinerie, "Complex networks: new trends for the analysis of brain connectivity", arxiv:1002.0697
• J. S. Damoiseaux, S. A. R. B. Rombouts, F. Barkhof, C. J. Stam, S. M. Smith and C. F. Beckmann, "Consistent resting-state networks across healthy subjects", Proceedings of the National Academy of Sciences (USA) 103 (2006): 13848--13853
• Nima Dehghani, Nicholas G. Hatsopoulos, Zach D. Haga, Rebecca A. Parker, Bradley Greger, Eric Halgren, Sydney S. Cash, Alain Destexhe, "Avalanche analysis from multi-electrode ensemble recordings in cat, monkey and human cerebral cortex during wakefulness and sleep", arxiv:1203.0738 [Ummm, we explain why you can't use R2R^2R2 that way in the paper you cite...]
• Coralie de Hemptinne, Sylvie Nozaradan, Quentin Duvivier, Philippe Lefevre, and Marcus Missal, "How Do Primates Anticipate Uncertain Future Events?",Journal of Neuroscience 27 (2007): 4334--4341
• Richard L. Doty, The Great Pheromone Myth
• Tobias Egner and Joy Hirsch, "Cognitive control mechanisms resolve conflict through cortical amplification of task-relevant information",Nature Neuroscience 8 (2005): 1784--1790
• Neural Networks and Animal Behavior
• Dean Falk and Kathleen R. Gibson (eds.), Evolutionary Anatomy of the Primate Cerebral Cortex
• Chrisantha Fernando, Richard Goldstein, Eörs Szathmáry, "The Neuronal Replicator Hypothesis",Neural Computation 22 (2010): 2809--2857
• Leonardo Fogassi, Pier Francesco Ferrari, Benno Gesierich, Stefano Rozzi, Fabian Chersi, and Giacomo Rizzolatti, "Parietal Lobe: From Action Organization to Intention Understanding", Science 308 (2005): 662--667
• Kevin Fox, Barrel Cortex
• Jonathan Fritz, Shihab Shamma, Mounya Elhilali and David Klein, "Rapid task-related plasticity of spectrotemporal receptive fields in primary auditory cortex", Nature Neuroscience 6 (2003): 1216--1223
• Robert F. Goldberg, Charles A. Perfetti, Julie A. Fiez and Walter Schneider, "Selective Retrieval of Abstract Semantic Knowledge in Left Prefrontal Cortex", The Journal of Neuroscience 27 (2007): 3790--3798
• Ralph J. Greenspan, An Introduction to Nervous Systems [Review by Danny Yee]
• Sten Grillner and Ann M. Graybiel (eds.), Microcircuits: The Interface between Neuros and Global Brain Function
• Jin-Hee Han, Steven A. Kushner, Adelaide P. Yiu, Christy J. Cole, Anna Matynia, Robert A. Brown, Rachael L. Neve, John F. Guzowski, Alcino J. Silva, Sheena A. Josselyn, "Neuronal Competition and Selection During Memory Formation", Science 316 (2007): 457--460
• Christian Hlscher and Matthias Munk (eds.), Information Processing by Neuronal Populations
• D. Huber, D. A. Gutnisky, S. Peron, D. H. O'Connor, J. S. Wiegert, L. Tian, T. G. Oertner, L. L. Looger and K. Svoboda, "Multiple dynamic representations in the motor cortex during sensorimotor learning", Nature 484 (2012): 473--478
• Wilfrid Jänig, Integrative Action of the Autonomic Nervous System: Neurobiology of Homeostasis
• Marcus Kaiser and Claus C. Hilgetag, "Nonoptimal Component Placement, but Short Processing Paths, due to Long-Distance Projections in Neural Systems", q-bio.NC/0607034 =PLoS Computational Biology 2 (2006): e95
• Christof Koch, Biophysics of Computation: Information Processing in Single Neurons
• Dharshan Kumaran and Eleanor A. Maguire, "The Human Hippocampus: Cognitive Maps or Relational Memory?", The Journal of Neuroscience 25 (2005): 7254--7259
• Laberge, Attentional Processing: The Brain's Art of Mindfulness
• Peter E. Latham and Sheila Nirenberg, "Computing and Stability in Cortical Networks", Neural Computation 16 (2004): 1385--1412
• R. Levinson, "A Computer Model of Prefrontal Cortex Function," in Jordan Grafman, Keith J. Holyoak, and Francois Boller (eds.), Structure and Functions of the Human Prefrontal Cortex, Annals of the New York Academy of Sciences, Vol. 769 (1995)
• Tiago V. Maia and Axel Cleeremans, "Consciousness: converging insights from connectionist modeling and neuroscience", Trends in Cognitive Sciences 9 (2005): 397--404
• Steven A. Marchette, Arnold Bakker, and Amy L. Shelton, "Cognitive Mappers to Creatures of Habit: Differential Engagement of Place and Response Learning Mechanisms Predicts Human Navigational Behavior", Journal of Neuroscience 26 (2011): 15264--15268
• Malia F. Mason, Michael I. Norton, John D. Van Horn, Daniel M. Wegner, Scott T. Grafton and C. Neil Macra, "Wandering Minds: The Default Network and Stimulus-Independent Thought", Science 315(2007): 393--395
• Yasushi Miyashita, "Cognitive Memory: Cellular and Network Machineries and Their Top-Down Control", Science 306 (2004): 435--440
• Albert Newen, Andreas Bartels, and Eva-Maria Jung (eds.), Knowledge and Representation
• Bruno A. Olshausen and David J. Field, "How Close Are We to Understanding V1?", Neural Computation 17 (2005): 1665--1699
• Shane O'Mara, Why Torture Doesn't Work: The Neuroscience of Interrogation
• Raja Parasuraman (ed.), The Attentive Brain
• R. A. Poldrack, J. Clark, E. J. Paré-Blagoev, D. Shohamy, J. Creso Moyano, C. Myers and M. A. Gluck, "Interactive memory systems in the human brain," Nature 414 (2001): 546--550
• Mikhail I. Rabinovich, Pablo Varona, Allen I. Selverston, and Henry D. I. Abarbanel, "Dynamical principles in neuroscience", Reviews of Modern Physics 78 (2006): 1213
• Rajkumar Vasudeva Raju, J. Swaroop Guntupalli, Guangyao Zhou, Carter Wendelken, Miguel Lázaro-Gredilla, and Dileep George, "Space is a latent sequence: A theory of the hippocampus", Science Advances 10:31 (2024)
• K. Richard Ridderinkhof, Markus Ullsperger, Eveline A. Crone and Sander Niewenhuis, "The Role of the Medial Frontal Cortex in Cognitive Control", Science 306 (2004): 443--447
• Yasser Roudi and Peter E. Latham, "A balanced memory network",arxiv:0704.3005
• Patrick T. Sadtler, Kristin M. Quick, Matthew D. Golub, Steven M. Chase, Stephen I. Ryu, Elizabeth C. Tyler-Kabara, Byron M. Yu and Aaron P. Batista, "Neural constraints on learning", Nature 512 (2014): 423--426
• Elad Schneidman, Michael J. Berry II, Ronen Segev and William Bialek, "Weak pairwise correlations imply strongly correlated network states in a neural population", Nature 440(2006): 1007--1012
• Aleen I. Selverston and Maurice Moulins (eds.), The Crustacean Stomatogastric System [scanned PDFs]
• Reza Shadmehr and Sandro Mussa-Ivaldi, Biological Learning and Control: How the Brain Builds Representations, Predicts Events, and Makes Decisions
• Gordon Shepherd (ed.), The Synaptic Organization of the Brain
• Stewart Shipp, "The brain circuitry of attention", Trends in Cognitive Sciences 8 (2004): 223--230
• Alcino J. Silva, Anthony Landreth, and John Bickle, Engineering the Next Revolution in Neuroscience: The New Science of Experiment Planning
• John Smythies, The Dynamic Neuron ["a comprehensive account of our current knowledge of the neurochemical basis of synaptic plasticity"]
• Ivan Sltesz, Diversity in the Neuronal Machine: Order and Variability in Interneuronal Microcircuits
• Olaf Sporns, Networks of the Brain
• Greg J. Stephens, Leslie C. Osborne, William Bialek, "Searching for simplicity: Approaches to the analysis of neurons and behavior", arxiv:1012.3896
• Peter Sterling and Simon Laughlin, Principles of Neural Design
• Joan Stiles, The Fundamentals of Brain Development: Integrating Nature and Nurture
• Georg F. Striedter
  • "Precis of Principles of Brain Evolution",Behavioral and Brain Sciences 29 (2006): 1--12 [With extensive peer commentary following]
  • Principles of Brain Evolution
• Michael N. Tombu, Christopher L. Asplund, Paul E. Dux, Douglass Godwin, Justin W. Martin, and René Marois, "A Unified attentional bottleneck in the human brain", Proceedings of the National Academy of Sciences (USA) 108 (2011): 13426--13431 [I am, admittedly without reading it, dubious of the value of fMRI here. Either they have behavioral experiments were the two kinds of tasks interfere with each other, which shows that there is a single psychological bottleneck (which might be _anatomically_distributed); or they do not, in which case all they have is two functional bottlenecks which happen to reside near each other. But I should really read this.]
• Roger D. Traub and Richard Miles, Neuronal Networks of the Hippocampus
• Nicholas B. Turk-Browne, Brian J. Scholl, Marvin M. Chun, and Marcia K. Johnson, "Neural Evidence of Statistical Learning; Efficient Detection of Visual Regularities Without Awareness", Journal of Cognitive Neuroscience 21 (2009): 1934--1945
• Frank van der Velde and Marc de Kamps, "Neural blackboard architectures of combinatorial structures in cognition", Behavioral and Brain Sciences 29 (2006): 37--70 [+ peer commentary]
• Edward K. Vogel, Andrew W. McColough and Maro G. Machizawa, "Neural measures reveal individual differences in controlling access to working memory", Nature 438 (2005): 500--503
• Joshua T. Vogelstein, R. Jacob Vogelstein, Carey E. Priebe, "Are mental properties supervenient on brain properties?", arxiv:0912.1672 [The philosophy here seems _deeply_confused to me, since "supervenes on" just means "is a function of"]
• Ajai Vyas, Seon-Kyeong Kim, Nicholas Giacomini, John C. Boothroyd, and Robert M. Sapolsky, "Behavioral changes induced by _Toxoplasma_infection of rodents are highly specific to aversion of cat odors", Proceedings of the National Academy of Sciences (USA)104 (2007): 6442--6447
• Bruce E. Wexler, Brain And Culture: Neurobiology, Ideology, and Social Change
• Elizabeth A. Wilson, Psychosomatic: Feminism and the Neurological Body