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Corrigendum to "Dissecting the genetic heterogeneity of gastric cancer"

EBioMedicine 2023年 94卷 104709页

作者： Timo Hess Carlo Maj Jan Gehlen Oleg Borisov Stephan L Haas Ines Gockel Michael Vieth Guillaume Piessen Hakan Alakus Yogesh Vashist Carina Pereira Michael Knapp Vitalia Schüller Alexander Quaas Heike I Grabsch Jessica Trautmann Ewa Malecka-Wojciesko Anna Mokrowiecka Jan Speller Andreas Mayr Julia Schröder Axel M Hillmer Dominik Heider Florian Lordick Ángeles Pérez-Aísa Rafael Campo Jesús Espinel Fernando Geijo Concha Thomson Luis Bujanda Federico Sopeña Ángel Lanas María Pellisé Claudia Pauligk Thorsten Oliver Goetze Carolin Zelck Julian Reingruber Emadeldin Hassanin Peter Elbe Sandra Alsabeah Mats Lindblad Magnus Nilsson Nicole Kreuser René Thieme Francesca Tavano Roberta Pastorino Dario Arzani Roberto Persiani Jin-On Jung Henrik Nienhüser Katja Ott Ralf R Schumann Oliver Kumpf Susen Burock Volker Arndt Anna Jakubowska Małgorzta Ławniczak Victor Moreno Vicente Martín Manolis Kogevinas Marina Pollán Justyna Dąbrowska Antonio Salas Olivier Cussenot Anne Boland-Auge Delphine Daian Jean-Francois Deleuze Erika Salvi Maris Teder-Laving Gianluca Tomasello Margherita Ratti Chiara Senti Valli De Re Agostino Steffan Arnulf H Hölscher Katharina Messerle Christiane Josephine Bruns Armands Sīviņš Inga Bogdanova Jurgita Skieceviciene Justina Arstikyte Markus Moehler Hauke Lang Peter P Grimminger Martin Kruschewski Nikolaos Vassos Claus Schildberg Philipp Lingohr Karsten Ridwelski Hans Lippert Nadine Fricker Peter Krawitz Per Hoffmann Markus M Nöthen Lothar Veits Jakob R Izbicki Adrianna Mostowska Federico Martinón-Torres Daniele Cusi Rolf Adolfsson Geraldine Cancel-Tassin Aksana Höblinger Ernst Rodermann Monika Ludwig Gisela Keller Andres Metspalu Hermann Brenner Joerg Heller Markus Neef Michael Schepke Franz Ludwig Dumoulin Lutz Hamann Renato Cannizzaro Michele Ghidini Dominik Plaßmann Michael Geppert Peter Malfertheiner Olivier Glehen Tomasz Skoczylas Marek Majewski Jan Lubiński Orazio Palmieri Stefania Boccia Anna Latiano Nuria Aragones Thomas Schmidt Mário Dinis-Ribeiro Rui Medeiros Salah-Eddin Al-Batran Mārcis Leja Juozas Institute of Human Genetics University of Marburg Marburg Germany Institute of Human Genetics University of Bonn School of Medicine & University Hospital Bonn Bonn Germany. Institute for Genomic Statistics and Bioinformatics Medical Faculty University of Bonn Bonn Germany. Institute of Human Genetics University of Marburg Marburg Germany. Department of Upper GI Diseases Karolinska University Hospital and Unit of Gastroenterology and Rheumatology Karolinska Institutet Stockholm Sweden. Department of Visceral Transplant Thoracic and Vascular Surgery University Hospital Leipzig Leipzig Germany. Institute for Pathology Friedrich-Alexander-University Erlangen-Nuernberg Klinikum Bayreuth Bayreuth Germany. Department of Digestive and Oncological Surgery Claude Huriez Hospital CHU Lille Lille France. Department of General Visceral Cancer and Transplant Surgery University of Cologne Cologne Germany. Department of General Visceral and Thoracic Surgery University Medical Center Hamburg-Eppendorf University of Hamburg Hamburg Germany Centre for Surgical Oncology Medias Klinikum Burghausen Burghausen Germany. Molecular Oncology and Viral Pathology Group IPO Porto Research Center (CI-IPOP) Portuguese Institute of Oncology of Porto (IPO Porto) 4200-072 Porto Portugal Porto Comprehensive Cancer Center & RISE @ CI-IPO University of Porto 4200-450 Porto Portugal. Institute of Medical Biometrics Informatics and Epidemiology (IMBIE) Medical Faculty University of Bonn Bonn Germany. Institute of Pathology University Hospital Cologne Medical Faculty University of Cologne Germany. Department of Pathology GROW School for Oncology and Developmental Biology Maastricht University Medical Center Maastricht the Netherlands Pathology and Data Analytics Leeds Institute of Medical Research at St James's University of Leeds Leeds United Kingdom. Department of Digestive Tract Diseases Medical University of Lodz Lodz Poland. Department of Mathematics and Computer Science Unive

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The Temporal Bin Packing Problem: An Application to Workload Management in data Centres

The Temporal Bin Packing Problem: An Application to Workload...

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International Conference on Tools for Artificial Intelligence (ICTAI)

作者： Milan De Cauwer Deepak Mehta Barry O'Sullivan Department of Computer Science Insight Centre for Data Analytics Cork Ireland

ISBN: (纸本)9781509044603

This paper formalises a packing problem that emerges as a core sub-problem for managing workload consolidation in data centres. As a generalisation of the Bin Packing (BP) problem, it considers a set of tasks (items) to be assigned to a set of machines (bins) under capacity constraints (CPU usage) on each machine. Unlike classic BP settings, items have a lifespan. We define the cost of using a bin as the product of the bin's capacity and the time for which it is used. This problem will be referred to as the Temporal Bin Packing problem (TBP). We formalise the problem and present optimisation models using Mixed Integer Programming (MIP) and Constraint Programming (CP) for two contrasting but equivalent perspectives on the problem. The Packing model (PA) extends traditional BP models while the Temporal model (TP) explicitly models time with a sequence of packing problems. In addition, symmetry breaking techniques are developed. Finally, we introduce both a lower bound and an upper bound on the objective function. Our empirical results suggest that the TBP is a rather challenging problem for complete solvers to prove optimality. While breaking symmetry considerably reduces the computational effort for both PA and TP models, the Packing model using CP should be considered for larger instances.

关键词： Linear programming Computational modeling Cloud computing Resource management Biological system modeling Programming Upper bound

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Easy navigation through instructional videos using automatically generated table of content 21

Easy navigation through instructional videos using automatic...

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21st International Conference on Intelligent User Interfaces Companion, IUI 2016 Companion

作者： Gandhi, Ankit Biswas, Arijit Shrivastava, Kundan Kumar, Ranjeet Loomba, Sahil Deshmukh, Om Data Analytics Lab Xerox Research Centre India Bangalore India Software Labs Xerox Research Centre India Bangalore India Computer Science Department Indian Institute of Technology Delhi India

ISBN: (纸本)9781450341400

The amount of instructional videos available online, already in tens of thousands of hours, is growing steadily. A major bottleneck in their wide spread usage is the lack of tools for easy consumption of these videos. In this demonstration, we present MMToC: Multimodal Method for Table of Content, a technique that automatically generates a table of content for a given instructional video and enables textbook-like efficient navigation through the video. MMToC quantifies word saliency for visual words extracted from the slides and spoken words obtained from the lecture transcript. These saliency scores are combined using a dynamic programming based segmentation algorithm to identify likely points in the video where the topic has changed. MMToC is a web-based modular solution that can be used as a stand alone video navigation solution or can be integrated with any e-platform for multimedia content management. MMToC can be seen in action on a sample video at http://104.130.241.45:8080/TopicTransitionV2/***.

关键词： User interfaces

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Authorship Correction: International Changes in COVID-19 Clinical Trajectories Across 315 Hospitals and 6 Countries: Retrospective Cohort Study

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Journal of medical Internet research 2021年第11期23卷 e34625页

作者： Griffin M Weber Harrison G Zhang Sehi L'Yi Clara-Lea Bonzel Chuan Hong Paul Avillach Alba Gutiérrez-Sacristán Nathan P Palmer Amelia Li Min Tan Xuan Wang William Yuan Nils Gehlenborg Anna Alloni Danilo F Amendola Antonio Bellasi Riccardo Bellazzi Michele Beraghi Mauro Bucalo Luca Chiovato Kelly Cho Arianna Dagliati Hossein Estiri Robert W Follett Noelia García Barrio David A Hanauer Darren W Henderson Yuk-Lam Ho John H Holmes Meghan R Hutch Ramakanth Kavuluru Katie Kirchoff Jeffrey G Klann Ashok K Krishnamurthy Trang T Le Molei Liu Ne Hooi Will Loh Sara Lozano-Zahonero Yuan Luo Sarah Maidlow Adeline Makoudjou Alberto Malovini Marcelo Roberto Martins Bertrand Moal Michele Morris Danielle L Mowery Shawn N Murphy Antoine Neuraz Kee Yuan Ngiam Marina P Okoshi Gilbert S Omenn Lav P Patel Miguel Pedrera Jiménez Robson A Prudente Malarkodi Jebathilagam Samayamuthu Fernando J Sanz Vidorreta Emily R Schriver Petra Schubert Pablo Serrano Balazote Byorn Wl Tan Suzana E Tanni Valentina Tibollo Shyam Visweswaran Kavishwar B Wagholikar Zongqi Xia Daniela Zöller Isaac S Kohane Tianxi Cai Andrew M South Gabriel A Brat Department of Biomedical Informatics Harvard Medical School Boston MA United States. BIOMERIS (BIOMedical Research Informatics Solutions) Pavia Italy. Clinical Research Unit Botucatu Medical School São Paulo State University Botucatu Brazil. Division of Nephrology Department of Medicine Ente Ospedaliero Cantonale Lugano Switzerland. Department of Electrical Computer and Biomedical Engineering University of Pavia Pavia Italy. Information Technology Department Azienda Socio-Sanitaria Territoriale di Pavia Pavia Italy. Unit of Internal Medicine and Endocrinology Istituti Clinici Scientifici Maugeri SpA SB IRCCS Pavia Italy. Massachusetts Veterans Epidemiology Research and Information Center Veterans Affairs Boston Healthcare System Boston MA United States. Department of Electrical Computer and Biomedical Engineering University of Pavia Pavia Italy. Department of Medicine Massachusetts General Hospital Boston MA United States. Department of Medicine David Geffen School of Medicine University of California Los Angeles Los Angeles CA United States. Health Informatics Hospital Universitario 12 de Octubre Madrid Spain. Department of Learning Health Sciences University of Michigan Medical School Ann Arbor MI United States. Department of Biomedical Informatics University of Kentucky Lexington KY United States. Department of Biostatistics Epidemiology and Informatics University of Pennsylvania Perelman School of Medicine Philadelphia PA United States. Institute for Biomedical Informatics University of Pennsylvania Perelman School of Medicine Philadelphia PA United States. Department of Preventive Medicine Northwestern University Chicago IL United States. Institute for Biomedical Informatics University of Kentucky Lexington KY United States. Medical University of South Carolina Charleston SC United States. Department of Computer Science Renaissance Computing Institute University of North Carolina at Chapel Hill Chapel Hill NC United States. Departm

[This corrects the article DOI: 10.2196/31400.].

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Bayesian model selection for the latent position cluster model for Social Networks

arXiv

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arXiv 2017年

作者： Ryan, Caitríona Wyse, Jason Friel, Nial Department of Mathematics and Statistics University of Limerick Limerick Ireland Discipline of Statistics School of Computer Science and Statistics Trinity College Dublin College Green Dublin 2 Ireland School of Mathematics and Statistics and Insight National Centre for Big Data Analytics University College Dublin Belfield Dublin 4 Ireland

The latent position cluster model is a popular model for the statistical analysis of network data. This model assumes that there is an underlying latent space in which the actors follow a finite mixture distribution. Moreover, actors which are close in this latent space are more likely to be tied by an edge. This is an appealing approach since it allows the model to cluster actors which consequently provides the practitioner with useful qualitative information. However, exploring the uncertainty in the number of underlying latent components in the mixture distribution is a complex task. The current state-of-the-art is to use an approximate form of BIC for this purpose, where an approximation of the log-likelihood is used instead of the true log-likelihood which is unavailable. The main contribution of this paper is to show that through the use of conjugate prior distributions it is possible to analytically integrate out almost all of the model parameters, leaving a posterior distribution which depends on the allocation vector of the mixture model. This enables posterior inference over the number of components in the latent mixture distribution without using trans-dimensional MCMC algorithms such as reversible jump MCMC. Our approach is compared with the state-of-the-art latentnet (Krivitsky & Handcock 2015) and VBLPCM (Salter-Townshend & Murphy 2013) packages. Copyright © 2017, The Authors. All rights reserved.

关键词： Bayesian networks

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Learning multiple views with orthogonal denoising autoencoders 22nd

Learning multiple views with orthogonal denoising autoencode...

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22nd International Conference on MultiMedia Modeling, MMM 2016

作者： Ye, TengQi Wang, Tianchun McGuinness, Kevin Guo, Yu Gurrin, Cathal Insight Centre for Data Analytics Dublin City University Dublin Ireland School of Software TNList Tsinghua University Beijing China Department of Computer Science City University of Hong Kong Hong Kong Hong Kong

ISBN: (纸本)9783319276700

Multi-view learning techniques are necessary when data is described by multiple distinct feature sets because single-view learning algorithms tend to overfit on these high-dimensional data. Prior successful approaches followed either consensus or complementary principles. Recent work has focused on learning both the shared and private latent spaces of views in order to take advantage of both principles. However, these methods can not ensure that the latent spaces are strictly independent through encouraging the orthogonality in their objective functions. Also little work has explored representation learning techniques for multiview learning. In this paper, we use the denoising autoencoder to learn shared and private latent spaces, with orthogonal constraints — disconnecting every private latent space from the remaining views. Instead of computationally expensive optimization, we adapt the backpropagation algorithm to train our model. © Springer International Publishing Switzerland 2016.

关键词： Learning algorithms

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Scalable Parallel Algorithms for Shared Nearest Neighbor Clustering

Scalable Parallel Algorithms for Shared Nearest Neighbor Clu...

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International Conference on High Performance Computing

作者： Sonal Kumari Saurabh Maurya Poonam Goyal Sundar S Balasubramaniam Navneet Goyal Department of Computer Science & Information Systems Advanced Data Analytics & Parallel Technologies Laboratory INDIA

ISBN: (纸本)9781509054121

Clustering is a popular data mining technique which discovers structure in unlabeled data by grouping objects together on the basis of a similarity criterion. Traditional similarity measures lose their meaning as the number of dimensions increases and as a consequence, distance or density based clustering algorithms become less meaningful. Shared Nearest Neighbor (SNN) is a solution to clustering high-dimensional data with the ability to find clusters of varying density. SNN assigns objects to a cluster, which share a large number of their nearest neighbors. However, SNN is compute and memory intensive for data of large size and/or dimensionality. Nearest neighbor queries are responsible for a major proportion of computations in SNN, resulting in lower efficiency for higher value of number of nearest neighbors (k). The main motivation of this work is to improve the efficiency of SNN and to parallelize it so that it can be used for clustering large high-dimensional datasets and for large values of k. Existing SNN algorithms become inefficient in these situations. In this paper, we present a new sequential SNN algorithm, R-SNN, which uses R-tree for executing neighborhood queries efficiently and exploiting spatial locality to minimize memory usage. R-SNN is benchmarked against the best available implementation of SNN and is found up to 77 times faster when tested on various real datasets. R-SNN is parallelized for distributed memory, shared memory, and hybrid systems. Significant speedup and scalability achieved can be attributed to parallelization and good load balancing strategies and also to exploitation of spatial locality. Experimental results demonstrate the same for datasets of varying dimensionality and size. The maximum speedup achieved for shared, distributed, and hybrid models are 427.19 using 48 threads, 394.24 using 32 processes, and 1380.69 on 32 nodes (with each node spawning 4 threads), respectively. Super-linear speedup for some datasets is attributed

关键词： Clustering algorithms Algorithm design and analysis Time complexity Spatial databases Parallel algorithms Memory management Density measurement

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Semantic indexing of wearable camera images: Kids'Cam concepts

Semantic indexing of wearable camera images: Kids'Cam concep...

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2016 ACM Workshop on Vision and Language Integration Meets Multimedia Fusion, Iv and L-MM 2016

作者： Smeaton, Alan F. McGuinness, Kevin Gurrin, Cathal Zhou, Jiang O'Connor, Noel E. Wang, Peng Davis, Brian Azevedo, Lucas Freitas, Andre Signal, Louise Smith, Moira Stanley, James Barr, Michelle Chambers, Tim Mhurchu, Cliona Ní Insight Centre for Data Analytics Dublin City University Glasnevin Dublin 9 Ireland Dept. of Computer Science and Technology Tsinghua University Beijing100084 China Insight Centre for Data Analytics National University of Ireland Galway Ireland Department of Computer Science and Mathematics Unversity of Passau Passau Germany Health Promotion and Policy Research Unit University of Otago Wellington New Zealand National Institute for Health Innovation University of Auckland Auckland New Zealand

ISBN: (纸本)9781450345194

In order to provide content-based search on image media, including images and video, they are typically accessed based on manual or automatically assigned concepts or tags, or sometimes based on image-image similarity depending on the use case. While great progress has been made in very recent years in automatic concept detection using machine learning, we are still left with a mis-match between the se mantics of the concepts we can automatically detect, and the semantics of the words used in a user's query, for example. In this paper we report on a large collection of images from wearable cameras gathered as part of the Kids'Cam project, which have been both manually annotated from a vocabulary of 83 concepts, and automatically annotated from a vocabulary of 1,000 concepts. This collection allows us to explore issues around how language, in the form of two distinct concept vocabularies or spaces, one manually assigned and thus forming a ground-truth, is used to represent images, in our case taken using wearable cameras. It also allows us to discuss, in general terms, issues around mis-match of concepts in visual media, which derive from language mismatches. We report the data processing we have completed on this collection and some of our initial experimentation in mapping across the two language vocabularies. © 2016 ACM.

关键词： Cams

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A compositional-distributional semantic model for searching complex entity categories 5

A compositional-distributional semantic model for searching ...

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5th Joint Conference on Lexical and Computational Semantics, *SEM 2016

作者： Sales, Juliano Efson Freitas, Andre Davis, Brian Handschuh, Siegfried Department of Computer Science and Mathematics University of Passau Innstrasse 43 ITZ-110 Passau94032 Germany Insight Centre for Data Analytics National University of Ireland Galway IDA Business Park Lower Dangan Galway Ireland

ISBN: (纸本)9781941643921

Users combine attributes and types to describe and classify entities into categories. These categories are fundamental for organising knowledge in a decentralised way acting as tags and predicates. When searching for entities, categories frequently describes the search query. Considering that users do not know in which terms the categories are expressed, they might query the same concept by a paraphrase. While some categories are composed of simple expressions (e.g. Presidents of Ireland), others have more complex compositional patterns (e.g. French Senators Of The Second Empire). This work proposes a hybrid semantic model based on syntactic analysis, distributional semantics and named entity recognition to recognise paraphrases of entity categories. Our results show that the proposed model outperformed the comparative baseline, in terms of recall and mean reciprocal rank, thus being suitable for addressing the vocabulary gap between user queries and entity categories.

关键词： Syntactics

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Social media enabled human sensing for smart cities

Social media enabled human sensing for smart cities

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作者： Doran, Derek Severin, Karl Gokhale, Swapna Dagnino, Aldo Department of Computer Science and Engineering Kno.e.sis Research Center Wright State University DaytonOH45435 United States Department of Computer Science and Engineering University of Connecticut StorrsCT United States Industrial Software Systems Data Analytics Group ABB Corporate Research RaleighNC United States

Smart city initiatives rely on real-time measurements and data collected by a large number of heterogenous physical sensors deployed throughout a city. Physical sensors, however, are fraught with interoperability, dependability, management and political challenges. Furthermore, these sensors are unable to sense the opinions and emotional reactions of citizens that invariably impact smart city initiatives. Yet everyday, millions of dwellers and visitors of a city share their observations, thoughts, feelings and experiences, or in other words, their perceptions about their city through social media updates. This paper reasons why human sensors, namely, citizens that share information about their surroundings via social media can supplement, complement, or even replace the information measured by physical sensors. We present a methodology based on probabilistic language modeling to extract and visualize such perceptions that may be relevant to smart cities from social media updates. Using more than six million geo-tagged tweets collected over regions that feature widely varying geographical, social, cultural and political characteristics and tweet densities, we illustrate the potential of social media enabled human sensing to address diverse smart city challenges. © 2016 - IOS Press and the authors. All rights reserved.

关键词： Social networking (online)

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