A Survey of Volunteered Open Geo-Knowledge Bases in the Semantic Web

Over the past decade, rapid advances in web technologies, coupled with innovative models of spatial data collection and consumption, have generated a robust growth in geo-referenced information, resulting in spatial information overload. Increasing 'geographic intelligence' in traditional text-based information retrieval has become a prominent approach to respond to this issue and to fulfill users' spatial information needs. Numerous efforts in the Semantic Geospatial Web, Volunteered Geographic Information (VGI), and the Linking Open Data initiative have converged in a constellation of open knowledge bases, freely available online. In this article, we survey these open knowledge bases, focusing on their geospatial dimension. Particular attention is devoted to the crucial issue of the quality of geo-knowledge bases, as well as of crowdsourced data. A new knowledge base, the OpenStreetMap Semantic Network, is outlined as our contribution to this area. Research directions in information integration and Geographic Information Retrieval (GIR) are then reviewed, with a critical discussion of their current limitations and future prospects

A Coherent Unsupervised Model for Toponym Resolution

Toponym Resolution, the task of assigning a location mention in a document to a geographic referent (i.e., latitude/longitude), plays a pivotal role in analyzing location-aware content. However, the ambiguities of natural language and a huge number of possible interpretations for toponyms constitute insurmountable hurdles for this task. In this paper, we study the problem of toponym resolution with no additional information other than a gazetteer and no training data. We demonstrate that a dearth of large enough annotated data makes supervised methods less capable of generalizing. Our proposed method estimates the geographic scope of documents and leverages the connections between nearby place names as evidence to resolve toponyms. We explore the interactions between multiple interpretations of mentions and the relationships between different toponyms in a document to build a model that finds the most coherent resolution. Our model is evaluated on three news corpora, two from the literature and one collected and annotated by us; then, we compare our methods to the state-of-the-art unsupervised and supervised techniques. We also examine three commercial products including Reuters OpenCalais, Yahoo! YQL Placemaker, and Google Cloud Natural Language API. The evaluation shows that our method outperforms the unsupervised technique as well as Reuters OpenCalais and Google Cloud Natural Language API on all three corpora; also, our method shows a performance close to that of the state-of-the-art supervised method and outperforms it when the test data has 40% or more toponyms that are not seen in the training data.Comment: 9 pages (+1 page reference), WWW '18 Proceedings of the 2018 World Wide Web Conferenc

Suomenkielisen geojäsentimen kehittäminen: kuinka hankkia sijaintitietoa jäsentelemättömistä tekstiaineistoista

Alati enemmän aineistoa tuotetaan ja jaetaan internetin kautta. Aineistot ovat vaihtelevia muodoiltaan, kuten verkkoartikkelien ja sosiaalisen media julkaisujen kaltaiset digitaaliset tekstit, ja niillä on usein spatiaalinen ulottuvuus. Teksteissä geospatiaalisuutta ilmaistaan paikannimien kautta, mutta tavanomaisilla paikkatietomenetelmillä ei kyetä käsittelemään tietoa epätäsmällisessä kielellisessä asussaan. Tämä on luonut tarpeen muuntaa tekstimuotoisen sijaintitiedon näkyvään muotoon, koordinaateiksi. Ongelmaa ratkaisemaan on kehitetty geojäsentimiä, jotka tunnistavat ja paikantavat paikannimet vapaista teksteistä, ja jotka oikein toimiessaan voisivat toimia paikkatiedon lähteenä maantieteellisessä tutkimuksessa. Geojäsentämistä onkin sovellettu katastrofihallinnasta kirjallisuudentutkimukseen. Merkittävässä osassa geojäsentämisen tutkimusta tutkimusaineiston kielenä on ollut englanti ja geojäsentimetkin ovat kielikohtaisia – tämä jättää pimentoon paitsi geojäsentimien kehitykseen vaikuttavat havainnot pienemmistä kielistä myös kyseisten kielten puhujien näkemykset. Maisterintutkielmassani pyrin vastaamaan kolmeen tutkimuskysymykseen: Mitkä ovat edistyneimmät geojäsentämismenetelmät? Mitkä kielelliset ja maantieteelliset monitulkintaisuudet vaikeuttavat tämän monitahoisen ongelman ratkaisua? Ja miten arvioida geojäsentimien luotettavuutta ja käytettävyyttä? Tutkielman soveltavassa osuudessa esittelen Fingerin, geojäsentimen suomen kielelle, ja kuvaan sen kehitystä sekä suorituskyvyn arviointia. Arviointia varten loin kaksi testiaineistoa, joista toinen koostuu Twitter-julkaisuista ja toinen uutisartikkeleista. Finger-geojäsennin, testiaineistot ja relevantit ohjelmakoodit jaetaan avoimesti. Geojäsentäminen voidaan jakaa kahteen alitehtävään: paikannimien tunnistamiseen tekstivirrasta ja paikannimien ratkaisemiseen oikeaan koordinaattipisteeseen mahdollisesti useasta kandidaatista. Molemmissa vaiheissa uusimmat metodit nojaavat syväoppimismalleihin ja -menetelmiin, joiden syötteinä ovat sanaupotusten kaltaiset vektorit. Geojäsentimien suoriutumista testataan aineistoilla, joissa paikannimet ja niiden koordinaatit tiedetään. Mittatikkuna tunnistamisessa on vastaavuus ja ratkaisemisessa etäisyys oikeasta sijainnista. Finger käyttää paikannimitunnistinta, joka hyödyntää suomenkielistä BERT-kielimallia, ja suoraviivaista tietokantahakua paikannimien ratkaisemiseen. Ohjelmisto tuottaa taulukkomuotoiseksi jäsenneltyä paikkatietoa, joka sisältää syötetekstit ja niistä mahdollisesti tunnistetut paikannimet koordinaattisijainteineen. Testiaineistot eroavat aihepiireiltään, mutta Finger suoriutuu niillä likipitäen samoin, ja suoriutuu englanninkielisillä aineistoilla tehtyihin arviointeihin suhteutettuna kelvollisesti. Virheanalyysi paljastaa useita virhelähteitä, jotka johtuvat kielten tai maantieteellisen todellisuuden luontaisesta epäselvyydestä tai ovat prosessoinnin aiheuttamia, kuten perusmuotoistamisvirheet. Kaikkia osia Fingerissä voidaan parantaa, muun muassa kehittämällä kielellistä käsittelyä pidemmälle ja luomalla kattavampia testiaineistoja. Samoin tulevaisuuden geojäsentimien tulee kyetä käsittelemään monimutkaisempia kielellisiä ja maantieteellisiä kuvaustapoja kuin pelkät paikannimet ja koordinaattipisteet. Finger ei nykymuodossaan tuota valmista paikkatietoa, jota kannattaisi kritiikittä käyttää. Se on kuitenkin lupaava ensiaskel suomen kielen geojäsentimille ja astinlauta vastaisuuden soveltavalle tutkimukselle.Ever more data is available and shared through the internet. The big data masses often have a spatial dimension and can take many forms, one of which are digital texts, such as articles or social media posts. The geospatial links in these texts are made through place names, also called toponyms, but traditional GIS methods are unable to deal with the fuzzy linguistic information. This creates the need to transform the linguistic location information to an explicit coordinate form. Several geoparsers have been developed to recognize and locate toponyms in free-form texts: the task of these systems is to be a reliable source of location information. Geoparsers have been applied to topics ranging from disaster management to literary studies. Major language of study in geoparser research has been English and geoparsers tend to be language-specific, which threatens to leave the experiences provided by studying and expressed in smaller languages unexplored. This thesis seeks to answer three research questions related to geoparsing: What are the most advanced geoparsing methods? What linguistic and geographical features complicate this multi-faceted problem? And how to evaluate the reliability and usability of geoparsers? The major contributions of this work are an open-source geoparser for Finnish texts, Finger, and two test datasets, or corpora, for testing Finnish geoparsers. One of the datasets consists of tweets and the other of news articles. All of these resources, including the relevant code for acquiring the test data and evaluating the geoparser, are shared openly. Geoparsing can be divided into two sub-tasks: recognizing toponyms amid text flows and resolving them to the correct coordinate location. Both tasks have seen a recent turn to deep learning methods and models, where the input texts are encoded as, for example, word embeddings. Geoparsers are evaluated against gold standard datasets where toponyms and their coordinates are marked. Performance is measured on equivalence and distance-based metrics for toponym recognition and resolution respectively. Finger uses a toponym recognition classifier built on a Finnish BERT model and a simple gazetteer query to resolve the toponyms to coordinate points. The program outputs structured geodata, with input texts and the recognized toponyms and coordinate locations. While the datasets represent different text types in terms of formality and topics, there is little difference in performance when evaluating Finger against them. The overall performance is comparable to the performance of geoparsers of English texts. Error analysis reveals multiple error sources, caused either by the inherent ambiguousness of the studied language and the geographical world or are caused by the processing itself, for example by the lemmatizer. Finger can be improved in multiple ways, such as refining how it analyzes texts and creating more comprehensive evaluation datasets. Similarly, the geoparsing task should move towards more complex linguistic and geographical descriptions than just toponyms and coordinate points. Finger is not, in its current state, a ready source of geodata. However, the system has potential to be the first step for geoparsers for Finnish and it can be a steppingstone for future applied research

Biomedical Information Extraction Pipelines for Public Health in the Age of Deep Learning

abstract: Unstructured texts containing biomedical information from sources such as electronic health records, scientific literature, discussion forums, and social media offer an opportunity to extract information for a wide range of applications in biomedical informatics. Building scalable and efficient pipelines for natural language processing and extraction of biomedical information plays an important role in the implementation and adoption of applications in areas such as public health. Advancements in machine learning and deep learning techniques have enabled rapid development of such pipelines. This dissertation presents entity extraction pipelines for two public health applications: virus phylogeography and pharmacovigilance. For virus phylogeography, geographical locations are extracted from biomedical scientific texts for metadata enrichment in the GenBank database containing 2.9 million virus nucleotide sequences. For pharmacovigilance, tools are developed to extract adverse drug reactions from social media posts to open avenues for post-market drug surveillance from non-traditional sources. Across these pipelines, high variance is observed in extraction performance among the entities of interest while using state-of-the-art neural network architectures. To explain the variation, linguistic measures are proposed to serve as indicators for entity extraction performance and to provide deeper insight into the domain complexity and the challenges associated with entity extraction. For both the phylogeography and pharmacovigilance pipelines presented in this work the annotated datasets and applications are open source and freely available to the public to foster further research in public health.Dissertation/ThesisDoctoral Dissertation Biomedical Informatics 201

Extracting locations from sport and exercise-related social media messages using a neural network-based bilingual toponym recognition model

Sport and exercise contribute to health and well-being in cities. While previous research has mainly focused on activities at specific locations such as sport facilities, "informal sport" that occur at arbitrary locations across the city have been largely neglected. Such activities are more challenging to observe, but this challenge may be addressed using data collected from social media platforms, because social media users regularly generate content related to sports and exercise at given locations. This allows studying all sport, including those "informal sport" which are at arbitrary locations, to better understand sports and exercise-related activities in cities. However, user-generated geographical information available on social media platforms is becoming scarcer and coarser. This places increased emphasis on extracting location information from free-form text content on social media, which is complicated by multilingualism and informal language. To support this effort, this article presents an end-to-end deep learning-based bilingual toponym recognition model for extracting location information from social media content related to sports and exercise. We show that our approach outperforms five state-of-the-art deep learning and machine learning models. We further demonstrate how our model can be deployed in a geoparsing framework to support city planners in promoting healthy and active lifestyles.Peer reviewe