Erratum to: 36th International Symposium on Intensive Care and Emergency Medicine

[This corrects the article DOI: 10.1186/s13054-016-1208-6.]

Pan-cancer analysis of whole genomes

Cancer is driven by genetic change, and the advent of massively parallel sequencing has enabled systematic documentation of this variation at the whole-genome scale(1-3). Here we report the integrative analysis of 2,658 whole-cancer genomes and their matching normal tissues across 38 tumour types from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). We describe the generation of the PCAWG resource, facilitated by international data sharing using compute clouds. On average, cancer genomes contained 4-5 driver mutations when combining coding and non-coding genomic elements; however, in around 5% of cases no drivers were identified, suggesting that cancer driver discovery is not yet complete. Chromothripsis, in which many clustered structural variants arise in a single catastrophic event, is frequently an early event in tumour evolution; in acral melanoma, for example, these events precede most somatic point mutations and affect several cancer-associated genes simultaneously. Cancers with abnormal telomere maintenance often originate from tissues with low replicative activity and show several mechanisms of preventing telomere attrition to critical levels. Common and rare germline variants affect patterns of somatic mutation, including point mutations, structural variants and somatic retrotransposition. A collection of papers from the PCAWG Consortium describes non-coding mutations that drive cancer beyond those in the TERT promoter(4); identifies new signatures of mutational processes that cause base substitutions, small insertions and deletions and structural variation(5,6); analyses timings and patterns of tumour evolution(7); describes the diverse transcriptional consequences of somatic mutation on splicing, expression levels, fusion genes and promoter activity(8,9); and evaluates a range of more-specialized features of cancer genomes(8,10-18).Peer reviewe

Active Classification of Moving Targets With Learned Control Policies

In this paper, we consider the problem where a drone has to collect semantic information to classify multiple moving targets. In particular, we address the challenge of computing control inputs that move the drone to informative viewpoints, position and orientation, when the information is extracted using a “black-box” classifier, e.g., a deep learning neural network. These algorithms typically lack of analytical relationships between the viewpoints and their associated outputs, preventing their use in information-gathering schemes. To fill this gap, we propose a novel attention-based architecture, trained via Reinforcement Learning (RL), that outputs the next viewpoint for the drone favoring the acquisition of evidence from as many unclassified targets as possible while reasoning about their movement, orientation, and occlusions. Then, we use a low-level MPC controller to move the drone to the desired viewpoint taking into account its actual dynamics. We show that our approach not only outperforms a variety of baselines but also generalizes to scenarios unseen during training. Additionally, we show that the network scales to large numbers of targets and generalizes well to different movement dynamics of the targets.Green Open Access added to TU Delft Institutional Repository 'You share, we take care!' - Taverne project https://www.openaccess.nl/en/you-share-we-take-care Otherwise as indicated in the copyright section: the publisher is the copyright holder of this work and the author uses the Dutch legislation to make this work public.Learning & Autonomous ControlAlgorithmic

Molecular simulation of gas adsorption and diffusion in a breathing MOF using a rigid force field

Simulation of gas adsorption in flexible porous materials is still limited by the slow progress in the development of flexible force fields. Moreover, the high computational cost of such flexible force fields may be a drawback even when they are fully developed. In this work, molecular simulations of gas adsorption and diffusion of carbon dioxide and methane in NH2-MIL-53(Al) are carried out using a linear combination of two crystallographic structures with rigid force fields. Once the interactions of carbon dioxide molecules and the bridging hydroxyls groups of the framework are optimized, an excellent match is found for simulations and experimental data for the adsorption of methane and carbon dioxide, including the stepwise uptake due to the breathing effect. In addition, diffusivities of pure components are calculated. The pore expansion by the breathing effect influences the self-diffusion mechanism and much higher diffusivities are observed at relatively high adsorbate loadings. This work demonstrates that using a rigid force field combined with a minimum number of experiments, reproduces adsorption and simulates diffusion of carbon dioxide and methane in the flexible metal–organic framework NH2-MIL-53(Al).ChemE/Catalysis EngineeringApplied Science

Experimental evidence of negative linear compressibility in the MIL-53 metal–organic framework family

We report a series of powder X-ray diffraction experiments performed on the soft porous crystals MIL-53(Al) and NH2-MIL-53(Al) in a diamond anvil cell under different pressurization media. Systematic refinements of the obtained powder patterns demonstrate that these materials expand along a specific direction while undergoing total volume reduction under an increasing hydrostatic pressure. The results confirm for the first time the negative linear compressibility behaviour of this family of materials, recently predicted from quantum chemical calculations.ChemE/Catalysis EngineeringApplied Science

Sympathetic cooling of a radio-frequency LC circuit to its ground state in an optoelectromechanical system

We present a complete theory for laser cooling of a macroscopic radio-frequency LC electrical circuit by means of an optoelectromechanical system, consisting of an optical cavity dispersively coupled to a nanomechanical oscillator, which is in turn capacitively coupled to the LC circuit of interest. The driven optical cavity cools the mechanical resonator, which in turn sympathetically cools the LC circuit. We determine the optimal parameter regime where the LC resonator can be cooled down to its quantum ground state, which requires a large optomechanical cooperativity, and a larger electromechanical cooperativity. Moreover, comparable optomechanical and electromechanical coupling rates are preferable for reaching the quantum ground state.QN/Groeblacher LabQN/Quantum NanoscienceElectronic Components, Technology and Material

Learning scalable and efficient communication policies for multi-robot collision avoidance

Decentralized multi-robot systems typically perform coordinated motion planning by constantly broadcasting their intentions to avoid collisions. However, the risk of collision between robots varies as they move and communication may not always be needed. This paper presents an efficient communication method that addresses the problem of “when” and “with whom” to communicate in multi-robot collision avoidance scenarios. In this approach, each robot learns to reason about other robots’ states and considers the risk of future collisions before asking for the trajectory plans of other robots. We introduce a new neural architecture for the learned communication policy which allows our method to be scalable. We evaluate and verify the proposed communication strategy in simulation with up to twelve quadrotors, and present results on the zero-shot generalization/robustness capabilities of the policy in different scenarios. We demonstrate that our policy (learned in a simulated environment) can be successfully transferred to real robots.Learning & Autonomous ControlAlgorithmic

Distributed multi-target tracking and active perception with mobile camera networks

Smart cameras are an essential component in surveillance and monitoring applications, and they have been typically deployed in networks of fixed camera locations. The addition of mobile cameras, mounted on robots, can overcome some of the limitations of static networks such as blind spots or back-lightning, allowing the system to gather the best information at each time by active positioning. This work presents a hybrid camera system, with static and mobile cameras, where all the cameras collaborate to observe people moving freely in the environment and efficiently visualize certain attributes from each person. Our solution combines a multi-camera distributed tracking system, to localize with precision all the people, with a control scheme that moves the mobile cameras to the best viewpoints for a specific classification task. The main contribution of this paper is a novel framework that exploits the synergies that result from the cooperation of the tracking and the control modules, obtaining a system closer to the real-world application and capable of high-level scene understanding. The static camera network provides global awareness of the control scheme to move the robots. In exchange, the mobile cameras onboard the robots provide enhanced information about the people on the scene. We perform a thorough analysis of the people monitoring application performance under different conditions thanks to the use of a photo-realistic simulation environment. Our experiments demonstrate the benefits of collaborative mobile cameras with respect to static or individual camera setups.Learning & Autonomous ControlAlgorithmic

Extracting Learning Performance Indicators from Digital Learning Environments

In the last decades, there has been a steady adoption of digital online platforms as learning environments applied to all levels of education. This increasing adoption forces a transition in educational resources which has further been accelerated by the recent pandemic, leading to an almost complete online-only learning environment in some cases. The aim of this paper is to outline the methodology involved in setting up a framework for mapping course-specific data based on student activity to standard learning indicators, which will serve as an input to performance prediction algorithms. The process involves systematically surveying, capturing, and categorising the vast range of data available in digital learning platforms. The data are collected from two sample courses and distilled into five dimensions represented by the generic learning indicators: prior knowledge, preparation, participation, interaction, and performance. The data is weighted based on course development and teaching member’s perspectives to account for course-wise variations. The framework established will allow portability of prediction algorithms between courses and provide a means for meaningful and directed learner formative feedback. Two courses, both bachelor-level and worth 5 European Credits (ECs), that use several online learning platforms in their teaching tools have been chosen in this study to explore the nature and range of student interaction data available, accessible, and usable in a course. The first course is Electromagnetics II at Eindhoven University of Technology, and the second course is Electronics at Delft University of Technology. Both Universities are located in the Netherlands. This work is in the scope of a broader study to use such learning indicators with predictive algorithms to provide a prognosis on individual student performance. The findings in this paper will enable the realization of student performance prediction at a very early stage in the course.Green Open Access added to TU Delft Institutional Repository 'You share, we take care!' - Taverne project https://www.openaccess.nl/en/you-share-we-take-care Otherwise as indicated in the copyright section: the publisher is the copyright holder of this work and the author uses the Dutch legislation to make this work public.Electronic

A Framework for Fast Prototyping of Photo-realistic Environments with Multiple Pedestrians

Robotic applications involving people often require advanced perception systems to better understand complex real-world scenarios. To address this challenge, photo-realistic and physics simulators are gaining popularity as a means of generating accurate data labeling and designing scenarios for evaluating generalization capabilities, e.g., lighting changes, camera movements or different weather conditions. We develop a photo-realistic framework built on Unreal Engine and AirSim to generate easily scenarios with pedestrians and mobile robots. The framework is capable to generate random and customized trajectories for each person and provides up to 50 ready-to-use people models along with an API for their metadata retrieval. We demonstrate the usefulness of the proposed framework with a use case of multi-target tracking, a popular problem in real pedestrian scenarios. The notable feature variability in the obtained perception data is presented and evaluated.Green Open Access added to TU Delft Institutional Repository 'You share, we take care!' - Taverne project https://www.openaccess.nl/en/you-share-we-take-care Otherwise as indicated in the copyright section: the publisher is the copyright holder of this work and the author uses the Dutch legislation to make this work public.Learning & Autonomous Contro