Apolo: Making Sense of Large Network Data by Combining Rich User Interaction and Machine Learning
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Facing the Future: European Research Infrastructures for the Humanities and Social Sciences
Facing the Future: European Research Infrastructures for the Humanities and Social Sciences Adrian Duşa, Dietrich Nelle, Günter Stock, and Gert G. Wagner (Eds.) Facing the Future: European Research Infrastructures for the Humanities and Social Sciences E d i t o r s : Adrian Duşa (SCI-SWG), Dietrich Nelle (BMBF), Günter Stock (ALLEA), and Gert. G. Wagner (RatSWD) ISBN 978-3-944417-03-5 1st edition © 2014 SCIVERO Verlag, Berlin SCIVERO is a trademark of GWI Verwaltungsgesellschaft für Wissenschaftspoli- tik und Infrastrukturentwicklung Berlin UG (haftungsbeschränkt). This book documents the results of the conference Facing the Future: European Research Infrastructure for Humanities and Social Sciences (November 21/22 2013, Berlin), initiated by the Social and Cultural Innovation Strategy Work- ing Group of ESFRI (SCI-SWG) and the German Federal Ministry of Education and Research (BMBF), and hosted by the European Federation of Academies of Sciences and Humanities (ALLEA) and the German Data Forum (RatSWD). Thanks and appreciation are due to all authors, speakers and participants of the conference, and all involved institutions, in particular the German Federal Ministry of Education and Research (BMBF). The ministry funded the conference and this subsequent publication as part of the Union of the German Academies of Sciences and Humanities’ project “Survey and Analysis of Basic Humanities and Social Science Research at the Science Academies Related Research Insti- tutes of Europe”. The views expressed in this publication are exclusively the opinions of the authors and not those of the German Federal Ministry of Education and Research. Editing: Dominik Adrian, Camilla Leathem, Thomas Runge, Simon Wolff Layout and graphic design: Thomas Runge Contents Preface . -
Extracting Insights from Differences: Analyzing Node-Aligned Social
Extracting Insights from Differences: Analyzing Node-aligned Social Graphs by Srayan Datta A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy (Computer Science and Engineering) in The University of Michigan 2019 Doctoral Committee: Associate Professor Eytan Adar, Chair Associate Professor Mike Cafarella Assistant Professor Danai Koutra Associate Professor Clifford Lampe Srayan Datta [email protected] ORCID iD: 0000-0002-5800-830X c Srayan Datta 2019 To my family and friends ii ACKNOWLEDGEMENTS There are several people who made this dissertation possible, first among this long list is my adviser, Eytan Adar. Pursuing a doctoral program after just finishing un- dergraduate studies can be a daunting task but Eytan made it easy with his patience, kindness, and guidance. I learned a lot from our collaborations and idle conversations and I am very grateful for that. I would like to extend my thanks to the rest of my thesis committee, Mike Ca- farella, Danai Koutra and Cliff Lampe for their suggestions and constructive feed- back. I would also like to thank the following faculty members, Daniel Romero, Ceren Budak, Eric Gilbert and David Jurgens for their long insightful conversations and suggestions about some of my projects. I would like to thank all of friends and colleagues who helped (as a co-author or through critique) or supported me through this process. This is an enormous list but I am especially thankful to Chanda Phelan, Eshwar Chandrasekharan, Sam Carton, Cristina Garbacea, Shiyan Yan, Hari Subramonyam, Bikash Kanungo, and Ram Srivatasa. I would like to thank my parents for their unwavering support and faith in me. -
Network Analysis with Nodexl
Social data: Advanced Methods – Social (Media) Network Analysis with NodeXL A project from the Social Media Research Foundation: http://www.smrfoundation.org About Me Introductions Marc A. Smith Chief Social Scientist Connected Action Consulting Group [email protected] http://www.connectedaction.net http://www.codeplex.com/nodexl http://www.twitter.com/marc_smith http://delicious.com/marc_smith/Paper http://www.flickr.com/photos/marc_smith http://www.facebook.com/marc.smith.sociologist http://www.linkedin.com/in/marcasmith http://www.slideshare.net/Marc_A_Smith http://www.smrfoundation.org http://www.flickr.com/photos/library_of_congress/3295494976/sizes/o/in/photostream/ http://www.flickr.com/photos/amycgx/3119640267/ Collaboration networks are social networks SNA 101 • Node A – “actor” on which relationships act; 1-mode versus 2-mode networks • Edge B – Relationship connecting nodes; can be directional C • Cohesive Sub-Group – Well-connected group; clique; cluster A B D E • Key Metrics – Centrality (group or individual measure) D • Number of direct connections that individuals have with others in the group (usually look at incoming connections only) E • Measure at the individual node or group level – Cohesion (group measure) • Ease with which a network can connect • Aggregate measure of shortest path between each node pair at network level reflects average distance – Density (group measure) • Robustness of the network • Number of connections that exist in the group out of 100% possible – Betweenness (individual measure) F G • -
Evolution Leads to Emergence: an Analysis of Protein
bioRxiv preprint doi: https://doi.org/10.1101/2020.05.03.074419; this version posted May 3, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 2 3 Evolution leads to emergence: An analysis of protein interactomes 4 across the tree of life 5 6 7 8 Erik Hoel1*, Brennan Klein2,3, Anshuman Swain4, Ross Grebenow5, Michael Levin1 9 10 1 Allen Discovery Center at Tufts University, Medford, MA, USA 11 2 Network Science Institute, Northeastern University, Boston, MA, USA 12 3 Laboratory for the Modeling of Biological & Sociotechnical Systems, Northeastern University, 13 Boston, USA 14 4 Department of Biology, University of Maryland, College Park, MD, USA 15 5 Drexel University, Philadelphia, PA, USA 16 17 * Author for Correspondence: 18 200 Boston Ave., Suite 4600 19 Medford, MA 02155 20 e-mail: [email protected] 21 22 Running title: Evolution leads to higher scales 23 24 Keywords: emergence, information, networks, protein, interactomes, evolution 25 26 27 bioRxiv preprint doi: https://doi.org/10.1101/2020.05.03.074419; this version posted May 3, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 2 28 Abstract 29 30 The internal workings of biological systems are notoriously difficult to understand. -
(2020) Small Worlds and Clustering in Spatial Networks
PHYSICAL REVIEW RESEARCH 2, 023040 (2020) Small worlds and clustering in spatial networks Marián Boguñá ,1,2,* Dmitri Krioukov,3,4,† Pedro Almagro ,1,2 and M. Ángeles Serrano1,2,5,‡ 1Departament de Física de la Matèria Condensada, Universitat de Barcelona, Martí i Franquès 1, E-08028 Barcelona, Spain 2Universitat de Barcelona Institute of Complex Systems (UBICS), Universitat de Barcelona, Barcelona, Spain 3Network Science Institute, Northeastern University, 177 Huntington avenue, Boston, Massachusetts 022115, USA 4Department of Physics, Department of Mathematics, Department of Electrical & Computer Engineering, Northeastern University, 110 Forsyth Street, 111 Dana Research Center, Boston, Massachusetts 02115, USA 5Institució Catalana de Recerca i Estudis Avançats (ICREA), Passeig Lluís Companys 23, E-08010 Barcelona, Spain (Received 20 August 2019; accepted 12 March 2020; published 14 April 2020) Networks with underlying metric spaces attract increasing research attention in network science, statistical physics, applied mathematics, computer science, sociology, and other fields. This attention is further amplified by the current surge of activity in graph embedding. In the vast realm of spatial network models, only a few repro- duce even the most basic properties of real-world networks. Here, we focus on three such properties—sparsity, small worldness, and clustering—and identify the general subclass of spatial homogeneous and heterogeneous network models that are sparse small worlds and that have nonzero clustering in the thermodynamic -
Quick Notes on Nodexl
Quick notes on NodeXL Programme organisation, 3 components: • NodeXL command ‘ribbon’ – access with menu-like item at top of the screen, contains all network data functions • Data sheets – 5 separate sheets for edges, vertices, metrics etc, switching between them using tabs on the bottom. NB because the screen gets quite crowded the sheet titles sometimes disappear off to one side so use the small arrows (bottom left) to scroll across the tabs if something seems to have gone missing. • Graph viewer – separate window pane labelled ‘Document Actions’ with graphical layout functions. Can be closed while working with data – to open it again click the ‘Show Graph’ button near the left-hand side of the ribbon. Working with data, basic process: 1. Start in ‘Edges’ data sheet (leftmost tab at the bottom); each row represents one connection of the form A links to B (directed graph) OR A and B are linked (undirected). (Directed/Undirected changed in ‘Type’ option on ribbon. In directed graph this sheet might include one row for A->B and one for B->A; in an undirected graph this would be tautologous.) No other data in this sheet is required, although optionally: • Could include text under ‘label’ if the visible label on graphs should be different from the name used in columns A or B. NB These might be overwritten when using ‘autofill columns’. • Could add an extra column at column L to identify weight of links if (as is the case with IssueCrawler data) each connection might represent more than 1 actually existing link between two vertices, hence inclusion of ‘Edge Weight’ in blogs data. -
Livro De Resumos EDITORA DA UNIVERSIDADE FEDERAL DE SERGIPE
Organizadores: Carlos Alexandre Borges Garcia Marcus Eugênio Oliveira Lima Livro de Resumos EDITORA DA UNIVERSIDADE FEDERAL DE SERGIPE COORDENADORA DO PROGRAMA EDITORIAL Messiluce da Rocha Hansen COORDENADOR GRÁFICO DA EDITORA UFS Germana Gonçalves de Araújo PROJETO GRÁFICO E EDITORAÇÃO ELETRÔNICA Alisson Vitório de Lima FOTOGRAFIAS Disponibilizadas sob licença Creative Commons, ou de domínio público. Adilson Andrade - Foto da página X; FICHA CATALOGRÁFICA ELABORADA PELA BIBLIOTECA CENTRAL UNIVERSIDADE FEDERAL DE SERGIPE Encontro de Pós-Graduação (8. : 2016 : São Cristóvão, SE) Livro de resumos [recurso eletrônico] : VIII Encontro de Pós-Graduação / organizadores: Carlos Alexandre Borges Garcia, Marcus Eugênio Oliveira Lima. – São Cristóvão : Editora UFS : Universidade E56l Federal de Sergipe, Programa de Pós-Graduação, 2016. 353 p. ISBN 978-85-7822-550-6 1. Pós-graduação – Congresso. I. Universidade Federal de Sergipe. II. Garcia, Carlos Alexandre Borges. III. Lima, Marcus Eugênio Oliveira. CDU 378.046-021.68 Cidade Universitária “Prof. José Aloísio de Campos” CEP 49.100-000 – São Cristóvão - SE. Telefone: 3194 - 6922/6923. e-mail: [email protected] http://livraria.ufs.br/ Este portfólio, ou parte dele, não pode ser reproduzido por qualquer meio sem autorização escrita da Editora. Organizadores: Carlos Alexandre Borges Garcia Marcus Eugênio Oliveira Lima Livro de Resumos UFS São Cristóvão/SE - 2016 Ciências Agrárias A (des)realização da estratégia democrático-popular: Uma análise a partir da realidade do movimento dos trabalhadores rurais sem terra (MST) e do Partido dos Trabalhadores (PT) Autor: SOUSA, Ronilson Barboza de. Orientador: RAMOS FILHO, Eraldo da Silva. A referente tese de doutorado, que vem sendo desenvolvida, tem como objetivo analisar o processo de realização da estratégia democrático-popular, adotada pelo Movimento dos Trabalhadores Rurais Sem Terra (MST) e pelo Partido dos Trabalhadores (PT), especial- mente na luta pela terra e pela reforma agrária. -
NODEXL for Beginners Nasri Messarra, 2013‐2014
NODEXL for Beginners Nasri Messarra, 2013‐2014 http://nasri.messarra.com Why do we study social networks? Definition from: http://en.wikipedia.org/wiki/Social_network: A social network is a social structure made up of a set of social actors (such as individuals or organizations) and a set of the dyadic ties between these actors. Social networks and the analysis of them is an inherently interdisciplinary academic field which emerged from social psychology, sociology, statistics, and graph theory. From http://en.wikipedia.org/wiki/Sociometry: "Sociometric explorations reveal the hidden structures that give a group its form: the alliances, the subgroups, the hidden beliefs, the forbidden agendas, the ideological agreements, the ‘stars’ of the show". In social networks (like Facebook and Twitter), sociometry can help us understand the diffusion of information and how word‐of‐mouth works (virality). Installing NODEXL (Microsoft Excel required) NodeXL Template 2014 ‐ Visit http://nodexl.codeplex.com ‐ Download the latest version of NodeXL ‐ Double‐click, follow the instructions The SocialNetImporter extends the capabilities of NodeXL mainly with extracting data from the Facebook network. To install: ‐ Download the latest version of the social importer plugins from http://socialnetimporter.codeplex.com ‐ Open the Zip file and save the files into a directory you choose, e.g. c:\social ‐ Open the NodeXL template (you can click on the Windows Start button and type its name to search for it) ‐ Open the NodeXL tab, Import, Import Options (see screenshot below) 1 | Page ‐ In the import dialog, type or browse for the directory where you saved your social importer files (screenshot below): ‐ Close and open NodeXL again For older Versions: ‐ Visit http://nodexl.codeplex.com ‐ Download the latest version of NodeXL ‐ Unzip the files to a temporary folder ‐ Close Excel if it’s open ‐ Run setup.exe ‐ Visit http://socialnetimporter.codeplex.com ‐ Download the latest version of the socialnetimporter plug in 2 | Page ‐ Extract the files and copy them to the NodeXL plugin direction. -
Comm 645 Handout – Nodexl Basics
COMM 645 HANDOUT – NODEXL BASICS NodeXL: Network Overview, Discovery and Exploration for Excel. Download from nodexl.codeplex.com Plugin for social media/Facebook import: socialnetimporter.codeplex.com Plugin for Microsoft Exchange import: exchangespigot.codeplex.com Plugin for Voson hyperlink network import: voson.anu.edu.au/node/13#VOSON-NodeXL Note that NodeXL requires MS Office 2007 or 2010. If your system does not support those (or you do not have them installed), try using one of the computers in the PhD office. Major sections within NodeXL: • Edges Tab: Edge list (Vertex 1 = source, Vertex 2 = destination) and attributes (Fig.1→1a) • Vertices Tab: Nodes and attribute (nodes can be imported from the edge list) (Fig.1→1b) • Groups Tab: Groups of nodes defined by attribute, clusters, or components (Fig.1→1c) • Groups Vertices Tab: Nodes belonging to each group (Fig.1→1d) • Overall Metrics Tab: Network and node measures & graphs (Fig.1→1e) Figure 1: The NodeXL Interface 3 6 8 2 7 9 13 14 5 12 4 10 11 1 1a 1b 1c 1d 1e Download more network handouts at www.kateto.net / www.ognyanova.net 1 After you install the NodeXL template, a new NodeXL tab will appear in your Excel interface. The following features will be available in it: Fig.1 → 1: Switch between different data tabs. The most important two tabs are "Edges" and "Vertices". Fig.1 → 2: Import data into NodeXL. The formats you can use include GraphML, UCINET DL files, and Pajek .net files, among others. You can also import data from social media: Flickr, YouTube, Twitter, Facebook (requires a plugin), or a hyperlink networks (requires a plugin). -
The Work of Microsoft Research Connections in the Region
• To tell you more about Microsoft Research Connections • Global • EMEA • PhD Programme • Other engagements • • • Microsoft Research Connections Work broadly with the academic and research community to speed research, improve education, foster innovation and improve lives around the world. Accelerate university Support university research and research through education through collaborative technology partnerships investments Inspire the next Drive awareness generation of of Microsoft researchers and contributions scientists to research Engagement and Collaboration Focus Core Computer Natural User Earth Education and Health and Science Interface Energy Scholarly Wellbeing Environment Communication Research Accelerators Global Partnerships People • • • • • • • • • • • • • • Investment Focus Education & Earth, Energy, Health & Computer Science Scholarly and Environment Wellbeing Communication Programming, Natural User WW Telescope, Academic Search, MS Biology Tools, Mobile Interfaces Climate Change Digital Humanities, Foundation & Tools Earth Sciences Publishing Judith Bishop Kris Tolle Dan Fay Lee Dirks Simon Mercer Regional Outreach/Engagements EMEA: Fabrizio Gagliardi LATAM: Jaime Puente India: Vidya Natampally Asia: Lolan Song America/Aus/NZ: Harold Javid Engineering High-quality and high-impact software release and community adoption Derick Campbell CMIC EMIC ILDC • • . New member of MSR family • • • . Telecoms, Security, Online services and Entertainment Microsoft Confidential Regional Collaborations at Joint Institutes INRIA, FRANCE -
APPLICATION of GROUP TESTING for ANALYZING NOISY NETWORKS Vladimir Ufimtsev
University of Nebraska at Omaha DigitalCommons@UNO Student Work 7-2016 APPLICATION OF GROUP TESTING FOR ANALYZING NOISY NETWORKS Vladimir Ufimtsev Follow this and additional works at: https://digitalcommons.unomaha.edu/studentwork Part of the Computer Sciences Commons APPLICATION OF GROUP TESTING FOR ANALYZING NOISY NETWORKS By Vladimir Ufimtsev A DISSERTATION Presented to the Faculty of The Graduate College at the University of Nebraska In Partial Fulfillment of Requirements For the Degree of Doctor of Philosophy Major: Information Technology Under the Supervision of Dr. Sanjukta Bhowmick Omaha, Nebraska July, 2016 Supervisory Committee Dr. Hesham Ali Dr. Prithviraj Dasgupta Dr. Lotfollah Najjar Dr. Vyacheslav Rykov ProQuest Number: 10143681 All rights reserved INFORMATION TO ALL USERS The quality of this reproduction is dependent upon the quality of the copy submitted. In the unlikely event that the author did not send a complete manuscript and there are missing pages, these will be noted. Also, if material had to be removed, a note will indicate the deletion. ProQuest 10143681 Published by ProQuest LLC (2016). Copyright of the Dissertation is held by the Author. All rights reserved. This work is protected against unauthorized copying under Title 17, United States Code Microform Edition © ProQuest LLC. ProQuest LLC. 789 East Eisenhower Parkway P.O. Box 1346 Ann Arbor, MI 48106 - 1346 Abstract Application of Group Testing for Analyzing Noisy Networks Vladimir Ufimtsev, Ph.D. University of Nebraska, 2016 Advisor: Dr. Sanjukta Bhowmick My dissertation focuses on developing scalable algorithms for analyzing large complex networks and evaluating how the results alter with changes to the network. Network analysis has become a ubiquitous and very effective tool in big data analysis, particularly for understanding the mechanisms of complex systems that arise in diverse disciplines such as cybersecurity [83], biology [15], sociology [5], and epidemiology [7]. -
Modularity and Dynamics on Complex Networks
Modularity AND Dynamics ON CompleX Networks Cambridge Elements DOI: 10.xxxx/xxxxxxxx (do NOT change) First PUBLISHED online: MMM DD YYYY (do NOT change) Renaud Lambiotte University OF OxforD Michael T. Schaub RWTH Aachen University Abstract: CompleX NETWORKS ARE TYPICALLY NOT homogeneous, AS THEY TEND TO DISPLAY AN ARRAY OF STRUCTURES AT DIffERENT scales. A FEATURE THAT HAS ATTRACTED A LOT OF RESEARCH IS THEIR MODULAR ORganisation, i.e., NETWORKS MAY OFTEN BE CONSIDERED AS BEING COMPOSED OF CERTAIN BUILDING blocks, OR modules. IN THIS book, WE DISCUSS A NUMBER OF WAYS IN WHICH THIS IDEA OF MODULARITY CAN BE conceptualised, FOCUSING SPECIfiCALLY ON THE INTERPLAY BETWEEN MODULAR NETWORK STRUCTURE AND DYNAMICS TAKING PLACE ON A network. WE discuss, IN particular, HOW MODULAR STRUCTURE AND SYMMETRIES MAY IMPACT ON NETWORK DYNAMICS and, VICE versa, HOW OBSERVATIONS OF SUCH DYNAMICS MAY BE USED TO INFER THE MODULAR STRUCTURe. WE ALSO REVISIT SEVERAL OTHER NOTIONS OF MODULARITY THAT HAVE BEEN PROPOSED FOR COMPLEX NETWORKS AND SHOW HOW THESE CAN BE RELATED TO AND INTERPRETED FROM THE POINT OF VIEW OF DYNAMICAL PROCESSES ON networks. SeVERAL REFERENCES AND POINTERS FOR FURTHER DISCUSSION AND FUTURE WORK SHOULD INFORM PRACTITIONERS AND RESEARchers, AND MAY MOTIVATE FURTHER STUDIES IN THIS AREA AT THE CORE OF Network Science. KeYWORds: Network Science; modularity; dynamics; COMMUNITY detection; BLOCK models; NETWORK clustering; GRAPH PARTITIONS JEL CLASSIfications: A12, B34, C56, D78, E90 © Renaud Lambiotte, Michael T. Schaub, 2021 ISBNs: xxxxxxxxxxxxx(PB)