Collaborating Authors

Artificial Intelligence or Artificial Expectations?


In this blog, I look at a recent review that suggests brain computations being done at a scale finer than the neuron might mean we are far from the computational, power both quantitatively and qualitatively. The review is by Roger Penrose (Oxford) and Stuart Hameroff (University of Arizona) on their journey through almost three decades of investigating the role of potential quantum aspects in neurons' microtubules. As a graduate student in 1989, I was intrigued when Penrose, a well-known mathematical physicist, published the book, "The Emperor's New Mind", outlining a hypothesis that consciousness derived from quantum physics effects during the transition from a superposition and entanglement of quantum states into a more classical configuration (the collapse or reduction of the wavefunction). He further suggested that this process, which has baffled generations of scientists, might occur only when a condition, based on the differences of gravitational energies of the possible outcomes, is met (i.e., Objective Reduction or OR). He then went another step in suggesting that the brain takes advantage of the this process to perform computations in parallel, with some intrinsic indeterminacy (non-computability), and over a larger integrated range by maintaining the quantum mix of microtubule configurations separated from the noisy warm environment until this reduction condition was met (i.e., Orchestrated Objective Reduction or Orch OR).

Roger Penrose On Why Consciousness Does Not Compute - Issue 47: Consciousness


Once you start poking around in the muck of consciousness studies, you will soon encounter the specter of Sir Roger Penrose, the renowned Oxford physicist with an audacious--and quite possibly crackpot--theory about the quantum origins of consciousness. He believes we must go beyond neuroscience and into the mysterious world of quantum mechanics to explain our rich mental life. No one quite knows what to make of this theory, developed with the American anesthesiologist Stuart Hameroff, but conventional wisdom goes something like this: Their theory is almost certainly wrong, but since Penrose is so brilliant ("One of the very few people I've met in my life who, without reservation, I call a genius," physicist Lee Smolin has said), we'd be foolish to dismiss their theory out of hand. Penrose, 85, is a mathematical physicist who made his name decades ago with groundbreaking work in general relativity and then, working with Stephen Hawking, helped conceptualize black holes and gravitational singularities, a point of infinite density out of which the universe may have formed. He also invented "twistor theory," a new way to connect quantum mechanics with the structure of spacetime. His discovery of certain geometric forms known as "Penrose tiles"--an ingenious design of non-repeating patterns--led to new directions of study in mathematics and crystallography. The breadth of Penrose's interests is extraordinary, which is evident in his recent book Fashion, Faith and Fantasy in the New Physics of the Universe--a dense 500-page tome that challenges some of the trendiest but still unproven theories in physics, from the multiple dimensions of string theory to cosmic inflation in the first moment of the Big Bang.

Enhancing high-content imaging for studying microtubule networks at large-scale Machine Learning

Given the crucial role of microtubules for cell survival, many researchers have found success using microtubule-targeting agents in the search for effective cancer therapeutics. Understanding microtubule responses to targeted interventions requires that the microtubule network within cells can be consistently observed across a large sample of images. However, fluorescence noise sources captured simultaneously with biological signals while using wide-field microscopes can obfuscate fine microtubule structures. Such requirements are particularly challenging for high-throughput imaging, where researchers must make decisions related to the tradeoff between imaging quality and speed. Here, we propose a computational framework to enhance the quality of high-throughput imaging data to achieve fast speed and high quality simultaneously. Using CycleGAN, we learn an image model from low-throughput, high-resolution images to enhance features, such as microtubule networks in high-throughput low-resolution images. We show that CycleGAN is effective in identifying microtubules with 0.93 AUC-ROC and that these results are robust to different kinds of image noise. We further apply CycleGAN to quantify the changes in microtubule density as a result of the application of drug compounds, and show that the quantified responses correspond well with known drug effects.

Is Consciousness Fractal? - Issue 47: Consciousness


In one way, Jackson Pollock's mathematics was ahead of its time. When the reclusive artist poured paint from cans onto vast canvases laid out across the floor of his barn in the late 1940s and early 1950s, he created splatters of paint that seemed completely random. Some interpretations saw them as a statement about the futility of World War II, others as a commentary on art as experience rather than representation. As Pollock refined his technique over the years, critics became increasingly receptive to his work, launching him into the public eye. "We have a deliberate disorder of hypothetical hidden orders," one critic wrote, "or'multiple labyrinths.' " In 1999, Richard Taylor, a physicist at the University of Oregon, expressed the "hidden orders" of Pollock's work in a very different way.

The mechanics of severing microtubules


Microtubules are stiff protein polymers that play an important role in many dynamic cellular processes. Forming and maintaining complex arrays of microtubules requires a suite of enzymes, including those that sever microtubules. Microtubule-severing enzymes belong to the large family of AAA adenosine triphosphatase (ATPase) proteins, which transduce the energy from ATP hydrolysis into mechanical force. Recent structural studies have provided insight into the inner workings of this enzyme family. Zehr et al. add to these studies by reporting the x-ray structure of a monomeric AAA domain from the microtubule-severing protein katenin and cryo-electron microscopy reconstructions of the hexamer in two conformations.