Today, our everyday access to technology permits a health monitoring that can complement the traditional methods in Healthcare and Public Health. In this paper, we present some of this available technology, with a particular focus on disease detection, topological data analysis, and media monitoring tools, made available by the AILAB at the JSI and the ISI Foundation. This technology is ready to be adapted to research and commercial problems in the context of health systems.
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Supporting epidemic intelligence, personalised and public health with advanced computational methods
1. Supporting epidemic intelligence, personalised and public
health with advanced computational methods
Joao Pita Costa, Daniela Paolotti, Flavio Fuart, Primož Škraba,
Evgenia Belayeva, Inna Novalija
joao.pitacosta@ijs.si
Delavnica EM-Zdravje, 12. Oktober 2015
Uporaba naprednih računskih metod za podporo
osebnega in javnega zdravstvenega varstva ter
nadzora izbruhov nalezljivih bolezni
2. ‣ basic and applied research
‣ 30+ years of history
‣ Torino & New York
‣ ~40 researchers
‣ mainly supported by:
• bank foundations
• EU research grants
• industrial partnerships
‣ focus on:
• complex systems science
• network & data science
• computational social science
• epidemiology & public health
ISI Foundation
www. i si . i t
3.
4. ‣ basic and applied research
‣ 17+ years of history
‣ ~40 researchers
‣ mainly supported by:
• national grants
• EU research grants
• industrial partnerships
‣ focus on:
• data analysis on text,
• web and cross-modal data,
• scalable real-time data analysis,
• visualization of complex data,
• semantic technologies,
• language technologies and
• sensor networks.
Artificial Intelligence Lab
ai l ab. i j s. si
5. Artificial Intelligence Lab
14 FP6 projects
28 FP7 projects
4 H2020 projects in 2015
14 on-going EU-funded projects
Top 10 commercial partners
Accenture Labs: enterprise search, visualization
Bloomberg: Web analytics, activity prediction
British Telecom: alarm root cause analysis, failure prediction, anomaly detection
Telefonica: real-time monitoring of brands and competition
Google Labs: opinion detection in Google News
Microsoft Research: product expert detection, complex data visualization, text mining consultancy
New York Times: real time web analytics, trend detection
Siemens: “Enterprise 2.0” consultancy
UN FAO: information integration
Wikipedia: controversial topics opinion detection
6. Artificial Intelligence Lab
Quintelligence: large scale analytics -> New York Times, Bloomberg, British Telecom
Cycorp Europe: semantic technologies -> US government, hospitals, …
LiveNetLife: social computing (web presence) -> Accenture, British Telecom
Modro Oko: complex data visualization -> Accenture, UN FAO
Envigence: environmental intelligence -> Several municipalities in Slovenia and Italy
Spinoffs/Startups
Applications
Collaboration: Accenture , Bloomberg, British Telecom, Microsoft Research, New York Times,
Siemens, UN FAO, Google, Yahoo, Oracle, BT, Telefonica, France Telecom, Wikipedia, Stanford
University, University College London, Jožef Stefan International Postgraduate School,
Quintelligence, Cycorp Europe, LifeNetLive, Modro Oko and Envigence.
Inclusion os National companies in EU projects: Amebis, Hermes Softlab, eParticipacija,
TECOS, Kogast Grosuplje, EMO Celje, Avtomobilski grozd, Orodjarski grozd, Quintelligence,
Valji Štore
Patents: J. Leskovec (MSR), M. Grobelnik & B. Fortuna (BT, in process), D. Mladenic & M.
Jermol & M. Grobelnik (Cycorp, in process), M. Jermol & M. Grobelnik & D. Mladenic & B.
Fortuna (Envigence, in process)
8. Online Influenza Surveillance
Influenzanet providing weekly information on Influenza related topics, the
real-time information on the evolution of the disease at the local level, and
some statistics on the available data.
Influenzanet.eu
9. Real-time Data Analytics
Fluoutlook: activity data and forecasts are updated weekly, based on the
reports of the official influenza surveillance systems in each country. The
data sources also include Influenzanet and Twitter.
fluoutlook.org
10. Computational Epi. Models
GLEAM produces realistic simulations of the global spread of infectious
diseases. It integrates three layers: real-world data on the global
population; real-world data on the mobility of this population; an individual
based stochastic mathematical model of the infection dynamics.
gleamviz.org
11. Health Media Monitoring
3XL News provides instantaneous global news monitoring and analysis
across several languages on-the-go, showing how semantic technologies
are used in a real-world scenario.
ailab.ijs.si/tools/3xl-news/
ailab.ijs.si/tools
12. Social Media Nowcasting
The portal twitterobservatory.net to extract information from Social Media
(Twitter). In this case the query was influenza.
twitterobservatory.net
ailab.ijs.si/tools
13. Cross-lingual Technology
While XLing is a Wikipedia based cross-lingual similarity computation
across 100 languages, NewsFeed is a real-time aggregated stream of
semantically enriched news articles, and EventRegistry is a system for real-
time collection and analysis of news published globally.
ailab.ijs.si/tools
newsfeed.ijs.sixling.ijs.sieventregistry.org
15. The portal searchpoint.ijs.si exhibiting the clustered keywords of a query, after
searching for the keyword influenza. The portal scienceatlas.si exhibiting the
graph of academic collaboration related with the query influenza.
Visualization of Complex Data
searchpoint.ijs.si scienceatlas.si
ailab.ijs.si/tools
16. Topological Data Analysis applies the qualitative methods of topology to
problems of machine learning, data mining and computer vision.
Persistent homology identifies a global structure by inferring high-
dimensional structure from low-dimensional representations and studying
properties of a (often) continuous space by the analysis of a discrete
sample of it, assembling discrete points into global structure. It has
important applications in Medicine including Cancer research.
InfluenzaLab.org
Topological Data Analysis
Tumor Detection
18. A/C Respiratory Diseases
ailab.ijs.si
Number of self-reported illness from a survey in Portugal 2011-2013
ASTHMA + COPD + ALLERGIC RHINITIS
prevalence of asthma in adults and
children is between 1 and 18% [WHO]
61+ million Europeans affected
by allergic rhinitis
susceptibility of immigrants and
refugees to pulmonary diseases
The nr. of people aged 60+ (COPD target gr.)
is now increasing by about 2 million per year
The Portuguese Influenzanet
19. ailab.ijs.si
Big Health Data
cross-modal big data fusion
microbione profiling of sputum samples
swabbing of inline volunteers
micro-environmental exposure sensor signals
small RNA profiling peripheral blood samples
Influenza net real time data
feature extraction
semantic representation, correlation, and alignment
indexing and retrieval
nowcasting of social media
topological data analysis
Laplacian eigenmaps
canonical correlation analysis
Bayesian networks for large scale prediction
Monte Carlo simulation on gene expression data
Auto regression and Gaussian models
correlation preserving mappings
generalised multi-view analysis
multidimensional scaling
report on real-time data
reliance on self-reported data
20. Health Platforms & Gadgets
Apple Health Microsoft HealthVault Google HealthIBM Watson Health
FitBit Runtastic Samsung Digital Health Telefonica
24. Computational Topology Data Visualization Gripenet
Social Media Mining Medical Data Analysis Persistent Homology
Python Influenza Like Diseases AI Lab Big Data Analytics
TDA Epidemic Intelligence Digital Disease Detection
ISI Foundation Artificial Intelligence Data visualization
AI Lab Respiratory Diseases Computational Algebra
HVALA
25. 2003 2004 2005 2006 2007 2008 2009 2010 2011 2012
BE
NL
PT
IT
UK
FR
SE
ES
Influenzanet
Europe-wideparticipatorysurveillance
influenzanet.eu
D.Paolotti et al.,
Clinical MicrobiologyandInfection,20(1),17(2014)
28. Artificial Intelligence Lab
SensorLab
Cross-departmental lab for
wireless sensor networks
AILab
Department of
Communication
Systems
Centre for Knowledge
Transfer in Information
Technologies
Goal: combine technologies for sensor data acquisition, communication between sensor devices,
statistical real-time data analysis, semantic technologies, and to enable a wide range of research and
development in different application areas (energy, ecology, health, transport, security, logistics).
Hinweis der Redaktion
----- Meeting Notes (11/10/15 11:21) -----
I am JPC representing researchers in the ISI Foundation, in Torino, and in AILab at the JSI, Ljubljana. Thank the organizers.
----- Meeting Notes (11/10/15 11:21) -----
Digital Epidemiology and Complex Systems with D. Paolotti, and TDA with F. Vaccarino
The intersections between these areas of research provide fruitful topics including computational topology and public health
The lab of Marko Groblenik and Dunja Mladenić focusing web-based cross-lingual technologies permitting sensor integration
The AILab is experienced with EU and National projects, including many important comercial partners …
…spinoffs and applications towards industry and patents
We shall look at the already available tools starting by Influenzanet
It is a epidemiology surveillance system considering online volunteers that fill in intake profile questionnaires/weekly questionnaires
This permits real-time data analytics and visualization
Feeding a computational epidemiological model developed during the project Epiwork
At the AILab we have been developing media monitoring technology that can be adapted to focus specific health topics
… and that can be complemented by information extracted from social media such as twitter.
The cross-lingual web-based technology provides us with a global view
… that was able to detect the Ebola outbreak of 2014 before it was first reported
----- Meeting Notes (11/10/15 11:21) -----
-> with Influenzanet we can also capture information about the cases of cronic respiratory diseases. this is a clear extension of the influenzanet system
----- Meeting Notes (11/10/15 11:21) -----
At the JSI we already have, as mentioned, several ready to use tools for health professionals and patients. We intend to focus this potential towards a common aim with public health and healthcare.