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International evaluation of an AI system for breast cancer screening 期刊论文
NATURE, 2020, 577 (7788) : 89-+
作者:  McKinney, Scott Mayer;  Sieniek, Marcin;  Godbole, Varun;  Godwin, Jonathan;  Antropova, Natasha;  Ashrafian, Hutan;  Back, Trevor;  Chesus, Mary;  Corrado, Greg C.;  Darzi, Ara;  Etemadi, Mozziyar;  Garcia-Vicente, Florencia;  Gilbert, Fiona J.;  Halling-Brown, Mark;  Hassabis, Demis;  Jansen, Sunny;  Karthikesalingam, Alan;  Kelly, Christopher J.;  King, Dominic;  Ledsam, Joseph R.;  Melnick, David;  Mostofi, Hormuz;  Peng, Lily;  Reicher, Joshua Jay;  Romera-Paredes, Bernardino;  Sidebottom, Richard;  Suleyman, Mustafa;  Tse, Daniel;  Young, Kenneth C.;  De Fauw, Jeffrey;  Shetty, Shravya
收藏  |  浏览/下载:16/0  |  提交时间:2020/07/03

Screening mammography aims to identify breast cancer at earlier stages of the disease, when treatment can be more successful(1). Despite the existence of screening programmes worldwide, the interpretation of mammograms is affected by high rates of false positives and false negatives(2). Here we present an artificial intelligence (AI) system that is capable of surpassing human experts in breast cancer prediction. To assess its performance in the clinical setting, we curated a large representative dataset from the UK and a large enriched dataset from the USA. We show an absolute reduction of 5.7% and 1.2% (USA and UK) in false positives and 9.4% and 2.7% in false negatives. We provide evidence of the ability of the system to generalize from the UK to the USA. In an independent study of six radiologists, the AI system outperformed all of the human readers: the area under the receiver operating characteristic curve (AUC-ROC) for the AI system was greater than the AUC-ROC for the average radiologist by an absolute margin of 11.5%. We ran a simulation in which the AI system participated in the double-reading process that is used in the UK, and found that the AI system maintained non-inferior performance and reduced the workload of the second reader by 88%. This robust assessment of the AI system paves the way for clinical trials to improve the accuracy and efficiency of breast cancer screening.


  
A Galactic-scale gas wave in the solar neighbourhood 期刊论文
NATURE, 2020, 578 (7794) : 237-+
作者:  Alves, Joao;  Zucker, Catherine;  Goodman, Alyssa A.;  Speagle, Joshua S.;  Meingast, Stefan;  Robitaille, Thomas;  Finkbeiner, Douglas P.;  Schlafly, Edward F.;  Green, Gregory M.
收藏  |  浏览/下载:14/0  |  提交时间:2020/07/03

The three-dimensional structure of all cloud complexes in the solar neighbourhood is revealed, showing a narrow and coherent 2.7-kpc arrangement of dense gas, in disagreement with the Gould Belt model.


For the past 150 years, the prevailing view of the local interstellar medium has been based on a peculiarity known as the Gould Belt(1-4), an expanding ring of young stars, gas and dust, tilted about 20 degrees to the Galactic plane. However, the physical relationship between local gas clouds has remained unknown because the accuracy in distance measurements to such clouds is of the same order as, or larger than, their sizes(5-7). With the advent of large photometric surveys(8) and the astrometric survey(9), this situation has changed(10). Here we reveal the three-dimensional structure of all local cloud complexes. We find a narrow and coherent 2.7-kiloparsec arrangement of dense gas in the solar neighbourhood that contains many of the clouds thought to be associated with the Gould Belt. This finding is inconsistent with the notion that these clouds are part of a ring, bringing the Gould Belt model into question. The structure comprises the majority of nearby star-forming regions, has an aspect ratio of about 1:20 and contains about three million solar masses of gas. Remarkably, this structure appears to be undulating, and its three-dimensional shape is well described by a damped sinusoidal wave on the plane of the Milky Way with an average period of about 2 kiloparsecs and a maximum amplitude of about 160 parsecs.


  
Protein-structure prediction gets real 期刊论文
NATURE, 2020, 577 (7792) : 627-628
作者:  Pillai, Arvind S.;  Chandler, Shane A.;  Liu, Yang;  Signor, Anthony, V;  Cortez-Romero, Carlos R.;  Benesch, Justin L. P.;  Laganowsky, Arthur;  Storz, Jay F.;  Hochberg, Georg K. A.;  Thornton, Joseph W.
收藏  |  浏览/下载:11/0  |  提交时间:2020/07/03

Two threads of research in the quest for methods that predict the 3D structures of proteins from their amino-acid sequences have become fully intertwined. The result is a leap forward in the accuracy of predictions.


  
Internal state dynamics shape brainwide activity and foraging behaviour 期刊论文
NATURE, 2020, 577 (7789) : 239-+
作者:  Marques, Joao C.;  Li, Meng;  Schaak, Diane;  Robson, Drew N.;  Li, Jennifer M.
收藏  |  浏览/下载:6/0  |  提交时间:2020/07/03

The brain has persistent internal states that can modulate every aspect of an animal'  s mental experience(1-4). In complex tasks such as foraging, the internal state is dynamic(5-8). Caenorhabditis elegans alternate between local search and global dispersal(5). Rodents and primates exhibit trade-offs between exploitation and exploration(6,7). However, fundamental questions remain about how persistent states are maintained in the brain, which upstream networks drive state transitions and how state-encoding neurons exert neuromodulatory effects on sensory perception and decision-making to govern appropriate behaviour. Here, using tracking microscopy to monitor whole-brain neuronal activity at cellular resolution in freely moving zebrafish larvae(9), we show that zebrafish spontaneously alternate between two persistent internal states during foraging for live prey (Paramecia). In the exploitation state, the animal inhibits locomotion and promotes hunting, generating small, localized trajectories. In the exploration state, the animal promotes locomotion and suppresses hunting, generating long-ranging trajectories that enhance spatial dispersion. We uncover a dorsal raphe subpopulation with persistent activity that robustly encodes the exploitation state. The exploitation-state-encoding neurons, together with a multimodal trigger network that is associated with state transitions, form a stochastically activated nonlinear dynamical system. The activity of this oscillatory network correlates with a global retuning of sensorimotor transformations during foraging that leads to marked changes in both the motivation to hunt for prey and the accuracy of motor sequences during hunting. This work reveals an important hidden variable that shapes the temporal structure of motivation and decision-making.


  
Fundamental bounds on the fidelity of sensory cortical coding 期刊论文
NATURE, 2020
作者:  Rempel, S.;  Gati, C.;  Nijland, M.;  Thangaratnarajah, C.;  Karyolaimos, A.;  de Gier, J. W.;  Guskov, A.;  Slotboom, D. J.
收藏  |  浏览/下载:17/0  |  提交时间:2020/07/03

How the brain processes information accurately despite stochastic neural activity is a longstanding question(1). For instance, perception is fundamentally limited by the information that the brain can extract from the noisy dynamics of sensory neurons. Seminal experiments(2,3) suggest that correlated noise in sensory cortical neural ensembles is what limits their coding accuracy(4-6), although how correlated noise affects neural codes remains debated(7-11). Recent theoretical work proposes that how a neural ensemble'  s sensory tuning properties relate statistically to its correlated noise patterns is a greater determinant of coding accuracy than is absolute noise strength(12-14). However, without simultaneous recordings from thousands of cortical neurons with shared sensory inputs, it is unknown whether correlated noise limits coding fidelity. Here we present a 16-beam, two-photon microscope to monitor activity across the mouse primary visual cortex, along with analyses to quantify the information conveyed by large neural ensembles. We found that, in the visual cortex, correlated noise constrained signalling for ensembles with 800-1,300 neurons. Several noise components of the ensemble dynamics grew proportionally to the ensemble size and the encoded visual signals, revealing the predicted information-limiting correlations(12-14). Notably, visual signals were perpendicular to the largest noise mode, which therefore did not limit coding fidelity. The information-limiting noise modes were approximately ten times smaller and concordant with mouse visual acuity(15). Therefore, cortical design principles appear to enhance coding accuracy by restricting around 90% of noise fluctuations to modes that do not limit signalling fidelity, whereas much weaker correlated noise modes inherently bound sensory discrimination.


A microscopy system that enables simultaneous recording from hundreds of neurons in the mouse visual cortex reveals that the brain enhances its coding capacity by representing visual inputs in dimensions perpendicular to correlated noise.


  
Accuracy of six years of operational statistical seasonal forecasts of rainfall in Western Australia (2013 to 2018) 期刊论文
ATMOSPHERIC RESEARCH, 2020, 233
作者:  Evans, Fiona H.;  Guthrie, Meredith M.;  Foster, Ian
收藏  |  浏览/下载:8/0  |  提交时间:2020/07/02
South-West Western Australia  Seasonal rainfall  Statistical seasonal forecast  Forecast validation  Forecast verification  Forecast accuracy  Partial least squares regression  
Limits on gas impermeability of graphene 期刊论文
NATURE, 2020, 579 (7798) : 229-+
作者:  Pagano, Justin K.;  Xie, Jing;  Erickson, Karla A.;  Cope, Stephen K.;  Scott, Brian L.;  Wu, Ruilian;  Waterman, Rory;  Morris, David E.;  Yang, Ping;  Gagliardi, Laura;  Kiplinger, Jaqueline L.
收藏  |  浏览/下载:28/0  |  提交时间:2020/07/03

Despite being only one-atom thick, defect-free graphene is considered to be completely impermeable to all gases and liquids(1-10). This conclusion is based on theory(3-8) and supported by experiments(1,9,10) that could not detect gas permeation through micrometre-size membranes within a detection limit of 10(5) to 10(6) atoms per second. Here, using small monocrystalline containers tightly sealed with graphene, we show that defect-free graphene is impermeable with an accuracy of eight to nine orders of magnitude higher than in the previous experiments. We are capable of discerning (but did not observe) permeation of just a few helium atoms per hour, and this detection limit is also valid for all other gases tested (neon, nitrogen, oxygen, argon, krypton and xenon), except for hydrogen. Hydrogen shows noticeable permeation, even though its molecule is larger than helium and should experience a higher energy barrier. This puzzling observation is attributed to a two-stage process that involves dissociation of molecular hydrogen at catalytically active graphene ripples, followed by adsorbed atoms flipping to the other side of the graphene sheet with a relatively low activation energy of about 1.0 electronvolt, a value close to that previously reported for proton transport(11,12). Our work provides a key reference for the impermeability of two-dimensional materials and is important from a fundamental perspective and for their potential applications.


  
Classification with a disordered dopantatom network in silicon 期刊论文
NATURE, 2020, 577 (7790) : 341-+
作者:  Vagnozzi, Ronald J.;  Maillet, Marjorie;  Sargent, Michelle A.;  Khalil, Hadi;  Johansen, Anne Katrine Z.;  Schwanekamp, Jennifer A.;  York, Allen J.;  Huang, Vincent;  Nahrendorf, Matthias;  Sadayappan, Sakthivel;  Molkentin, Jeffery D.
收藏  |  浏览/下载:24/0  |  提交时间:2020/07/03

Classification is an important task at which both biological and artificial neural networks excel(1,2). In machine learning, nonlinear projection into a high-dimensional feature space can make data linearly separable(3,4), simplifying the classification of complex features. Such nonlinear projections are computationally expensive in conventional computers. A promising approach is to exploit physical materials systems that perform this nonlinear projection intrinsically, because of their high computational density(5), inherent parallelism and energy efficiency(6,7). However, existing approaches either rely on the systems'  time dynamics, which requires sequential data processing and therefore hinders parallel computation(5,6,8), or employ large materials systems that are difficult to scale up(7). Here we use a parallel, nanoscale approach inspired by filters in the brain(1) and artificial neural networks(2) to perform nonlinear classification and feature extraction. We exploit the nonlinearity of hopping conduction(9-11) through an electrically tunable network of boron dopant atoms in silicon, reconfiguring the network through artificial evolution to realize different computational functions. We first solve the canonical two-input binary classification problem, realizing all Boolean logic gates(12) up to room temperature, demonstrating nonlinear classification with the nanomaterial system. We then evolve our dopant network to realize feature filters(2) that can perform four-input binary classification on the Modified National Institute of Standards and Technology handwritten digit database. Implementation of our material-based filters substantially improves the classification accuracy over that of a linear classifier directly applied to the original data(13). Our results establish a paradigm of silicon-based electronics for smallfootprint and energy-efficient computation(14).


  
Coherent laser spectroscopy of highly charged ions using quantum logic 期刊论文
NATURE, 2020, 578 (7793) : 60-+
作者:  Oh, Myoung Hwan;  Cho, Min Gee;  Chung, Dong Young;  Park, Inchul;  Kwon, Youngwook Paul;  Ophus, Colin;  Kim, Dokyoon;  Kim, Min Gyu;  Jeong, Beomgyun;  Gu, X. Wendy;  Jo, Jinwoung;  Yoo, Ji Mun;  Hong, Jaeyoung;  McMains, Sara;  Kang, Kisuk;  Sung, Yung-Eun;  Alivisatos, A. Paul;  Hyeon, Taeghwan
收藏  |  浏览/下载:53/0  |  提交时间:2020/07/03

Precision spectroscopy of atomic systems(1) is an invaluable tool for the study of fundamental interactions and symmetries(2). Recently, highly charged ions have been proposed to enable sensitive tests of physics beyond the standard model(2-5) and the realization of high-accuracy atomic clocks(3,5), owing to their high sensitivity to fundamental physics and insensitivity to external perturbations, which result from the high binding energies of their outer electrons. However, the implementation of these ideas has been hindered by the low spectroscopic accuracies (of the order of parts per million) achieved so far(6-8). Here we cool trapped, highly charged argon ions to the lowest temperature reported so far, and study them using coherent laser spectroscopy, achieving an increase in precision of eight orders of magnitude. We use quantum logic spectroscopy(9,10) to probe the forbidden optical transition in Ar-40(13+) at a wavelength of 441 nanometres and measure its excited-state lifetime and g-factor. Our work unlocks the potential of highly charged ions as ubiquitous atomic systems for use in quantum information processing, as frequency standards and in highly sensitive tests of fundamental physics, such as searches for dark-matter candidates(11) or violations of fundamental symmetries(2).


The precision of laser spectroscopy of highly charged ions is improved by eight orders of magnitude by cooling trapped, highly charged ions and using quantum logic spectroscopy, thereby enabling tests of fundamental physics.


  
Cell stress in cortical organoids impairs molecular subtype specification 期刊论文
NATURE, 2020, 578 (7793) : 142-+
作者:  Chen, Tao;  van Gelder, Jeroen;  van de Ven, Bram;  Amitonov, Sergey V.;  de Wilde, Bram;  Euler, Hans-Christian Ruiz;  Broersma, Hajo;  Bobbert, Peter A.;  Zwanenburg, Floris A.;  van der Wiel, Wilfred G.
收藏  |  浏览/下载:21/0  |  提交时间:2020/07/03

Cortical organoids are self-organizing three-dimensional cultures that model features of the developing human cerebral cortex(1,2). However, the fidelity of organoid models remains unclear(3-5). Here we analyse the transcriptomes of individual primary human cortical cells from different developmental periods and cortical areas. We find that cortical development is characterized by progenitor maturation trajectories, the emergence of diverse cell subtypes and areal specification of newborn neurons. By contrast, organoids contain broad cell classes, but do not recapitulate distinct cellular subtype identities and appropriate progenitor maturation. Although the molecular signatures of cortical areas emerge in organoid neurons, they are not spatially segregated. Organoids also ectopically activate cellular stress pathways, which impairs cell-type specification. However, organoid stress and subtype defects are alleviated by transplantation into the mouse cortex. Together, these datasets and analytical tools provide a framework for evaluating and improving the accuracy of cortical organoids as models of human brain development.


Single-cell RNA sequencing clarifies the development and specification of neurons in the human cortex and shows that cell stress impairs this process in cortical organoids.