Semantic Modelling of Citation Contexts for Context-Aware Citation Recommendation

Contents The four CSV files are the data used for the evaluation in: Saier T., Färber M. (2020) Semantic Modelling of Citation Contexts for Context-Aware Citation Recommendation. In: Advances in Information Retrieval. ECIR 2020. Lecture Notes in Computer Science, vol 12035. DOI: 10.1007/978-3-030-45439-5_15 Code: github.com/IllDepence/ecir2020 The evaluation was conducted in a citation re-prediction setting. CSV Format 7 columns divided by \u241E cited document ID for *_nomarker.csv: citation marker position ambiguous for *_withmarker.csv: citation marker position at 'MAINCIT' in citation context adjacent cited document IDs only given in citrec_unarxive_*.csv divided by \u241F order matches 'CIT' markers in citation context citing document ID citation context MAG field of study IDs divided by \u241F predicate:argument tuples generated based on PredPatt JSON noun phrases for *_nomarker.csv: divided by \u241F for *_withmarker.csv: divided by \u241D into noun phrases noun phrase directly preceding citation marker Data Sources citrec_unarxive_cs_withmarker.csv data set unarXive Paper DOI: 10.1007/s11192-020-03382-z Data DOI: 10.5281/zenodo.2553522 filter citing doc from computer science cited doc is cited at least 5 times citrec_mag_cs_en.csv data set Microsoft Academic Graph (MAG) Paper DOI: 10.1145/2740908.2742839 filter citing doc from computer science and in English citing doc abstract in MAG given cited doc is cited at least 50 times citrec_refseer.csv data set RefSeer Paper URL: ojs.aaai.org/index.php/AAAI/article/view/9528 Data URL: psu.app.box.com/v/refseer filter for citing and cited docs title, venue, venuetype, abstract, and year not NULL citrec_acl-arc_withmarker.csv data set ACL ARC Paper URL: aclanthology.org/L08-1005 Data URL: acl-arc.comp.nus.edu.sg/ filter cited doc has a DBLP ID Paper Citation @inproceedings{Saier2020ECIR, author = {Tarek Saier and Michael F{\"{a}}rber}, title = {{Semantic Modelling of Citation Contexts for Context-aware Citation Recommendation}}, booktitle = {Proceedings of the 42nd European Conference on Information Retrieval}, pages = {220--233}, year = {2020}, month = apr, doi = {10.1007/978-3-030-45439-5_15},

Domain-independent Extraction of Scientific Concepts from Research Articles

We examine the novel task of domain-independent scientific concept extraction from abstracts of scholarly articles and present two contributions. First, we suggest a set of generic scientific concepts that have been identified in a systematic annotation process. This set of concepts is utilised to annotate a corpus of scientific abstracts from 10 domains of Science, Technology and Medicine at the phrasal level in a joint effort with domain experts. The resulting dataset is used in a set of benchmark experiments to (a) provide baseline performance for this task, (b) examine the transferability of concepts between domains. Second, we present two deep learning systems as baselines. In particular, we propose active learning to deal with different domains in our task. The experimental results show that (1) a substantial agreement is achievable by non-experts after consultation with domain experts, (2) the baseline system achieves a fairly high F1 score, (3) active learning enables us to nearly halve the amount of required training data.Comment: Accepted for publishing in 42nd European Conference on IR Research, ECIR 202

Reproducibility of experiments in recommender systems evaluation

© IFIP International Federation for Information Processing 2018 Published by Springer International Publishing AG 2018. All Rights Reserved. Recommender systems evaluation is usually based on predictive accuracy metrics with better scores meaning recommendations of higher quality. However, the comparison of results is becoming increasingly difficult, since there are different recommendation frameworks and different settings in the design and implementation of the experiments. Furthermore, there might be minor differences on algorithm implementation among the different frameworks. In this paper, we compare well known recommendation algorithms, using the same dataset, metrics and overall settings, the results of which point to result differences across frameworks with the exact same settings. Hence, we propose the use of standards that should be followed as guidelines to ensure the replication of experiments and the reproducibility of the results

The Rural Digital Economy

Retailers in remote rural areas face competition from online retailers that can offer superior product availability and variety. This paper explores the issues stores in Scottish small island communities face due to the residents’ increased opportunities for ‘virtual mobility’, and highlights strategies for their economically sustainable operation. Eight semi-structured interviews were conducted with shop owners on seven islands in the council areas of Orkney, Argyll and Bute, and Highland. The research has found that while online retailers are frequently used by the islanders, the small shops on the islands are vital for the communities, particularly for elderly residents. Their close connection with the community enables shop owners to flexibly respond to demand, but elevated transport cost and lack of economies of scale lead to high prices. Shops stay competitive by offering additional services to the community, for example, they frequently incorporate the post office. Local produce is available in many shops, but is not distributed beyond the island community, as none of the retailers sell via the Internet. There is very little evidence of cooperation with other businesses, despite an acknowledged opportunity to create valuable economies of scale to cut transport cost. Any attempt to tackle this issue will have to focus primarily on the creation of trust amongst local businesses

Immune profiling in Puerto Rican injection drug users with and without HIV-1 infection

Antiretroviral therapy has been effective in suppressing HIV viral load and enabling people living with HIV to experience longer, more conventional lives. However, as people living with HIV are living longer, they are developing aging-related diseases prematurely and are more susceptible to comorbidities that have been linked to chronic inflammation. Coincident with HIV infection and aging, drug abuse has also been independently associated with gut dysbiosis, microbial translocation, and inflammation. Here, we hypothesized that injection drug use would exacerbate HIV-induced immune activation and inflammation, thereby intensifying immune dysfunction. We recruited 50 individuals not using injection drugs (36/50 HIV+) and 47 people who inject drugs (PWID, 12/47 HIV+). All but 3 of the HIV+ subjects were on antiretroviral therapy. Plasma immune profiles were characterized by immunoproteomics, and cellular immunophenotypes were assessed using mass cytometry. The immune profiles of HIV+/PWID−, HIV−/PWID+, and HIV+/PWID+ were each significantly different from controls; however, few differences between these groups were detected, and only 3 inflammatory mediators and 2 immune cell populations demonstrated a combinatorial effect of injection drug use and HIV infection. In conclusion, a comprehensive analysis of inflammatory mediators and cell immunophenotypes revealed remarkably similar patterns of immune dysfunction in HIV-infected individuals and in people who inject drugs with and without HIV-1 infection

Requirements Analysis for an Open Research Knowledge Graph

Current science communication has a number of drawbacks and bottlenecks which have been subject of discussion lately: Among others, the rising number of published articles makes it nearly impossible to get an overview of the state of the art in a certain field, or reproducibility is hampered by fixed-length, document-based publications which normally cannot cover all details of a research work. Recently, several initiatives have proposed knowledge graphs (KGs) for organising scientific information as a solution to many of the current issues. The focus of these proposals is, however, usually restricted to very specific use cases. In this paper, we aim to transcend this limited perspective by presenting a comprehensive analysis of requirements for an Open Research Knowledge Graph (ORKG) by (a) collecting daily core tasks of a scientist, (b) establishing their consequential requirements for a KG-based system, (c) identifying overlaps and specificities, and their coverage in current solutions. As a result, we map necessary and desirable requirements for successful KG-based science communication, derive implications and outline possible solutions.Comment: Accepted for publishing in 24th International Conference on Theory and Practice of Digital Libraries, TPDL 202

Passive breath monitoring of livestock: using factor analysis to deconvolve the cattle shed

Respiratory and metabolic diseases in livestock cost the agriculture sector billions each year, with delayed diagnosis a key exacerbating factor. Previous studies have shown the potential for breath analysis to successfully identify incidence of disease in a range of livestock. However, these techniques typically involve animal handling, the use of nasal swabs or fixing a mask to individual animals to obtain a sample of breath. Using a cohort of 26 cattle as an example, we show how the breath of individual animals within a herd can be monitored using a passive sampling system, where no such handling is required. These benefits come at the cost of the desired breath samples unavoidably mixed with the complex cocktail of odours that are present within the cattle shed. Data were analysed using positive matrix factorisation (PMF) to identify and remove non-breath related sources of VOC. In total three breath factors were identified (endogenous-, non-endogenous breath and rumen) and seven factors related to other sources within and around the cattle shed (e.g. foodcattle feed, traffic, urine and faeces). Simulation of a respiratory disease within the herd showed that the abnormal change in breath composition were captured in the residuals of the 10 factor PMF solution, highlighting the importance of their inclusion as part of the breath fraction. Increasing the number of PMF factors to 17 saw the identification of a "diseased" factor, which coincided with the visits of the three "diseased" cattle to the breath monitor platform. This work highlights the important role that factor analysis techniques can play in analysing passive breath monitoring data

Substrate docking to γ-secretase allows access of γ-secretase modulators to an allosteric site

γ-Secretase generates the peptides of Alzheimer's disease, Aβ40 and Aβ42, by cleaving the amyloid precursor protein within its transmembrane domain. γ-Secretase also cleaves numerous other substrates, raising concerns about γ-secretase inhibitor off-target effects. Another important class of drugs, γ-secretase modulators, alter the cleavage site of γ-secretase on amyloid precursor protein, changing the Aβ42/Aβ40 ratio, and are thus a promising therapeutic approach for Alzheimer's disease. However, the target for γ-secretase modulators is uncertain, with some data suggesting that they function on γ-secretase, whereas others support their binding to the amyloid precursor. In this paper we address this controversy by using a fluorescence resonance energy transfer-based assay to examine whether γ-secretase modulators alter Presenilin-1/γ-secretase conformation in intact cells in the absence of its natural substrates such as amyloid precursor protein and Notch. We report that the γ-secretase allosteric site is located within the γ-secretase complex, but substrate docking is needed for γ-secretase modulators to access this site

Elite City-Deals For Economic Growth? Cardiff Capital Region, Devolution and the Positioning of Civil Society Actors

The concept of localism and spatial delineation of the ‘city region’ have seen a renaissance as the de facto spatial political units of governance for economic development. One articulation of this has seen the creation of Cardiff Capital Region (CCR) to potentially enhance Wales’s poor economic performance and secure democratic forms of social cohesion. City regions have been vaunted as the ‘spatial imaginary’ for engendering economic development, but there are considerable state spatial restructuring tensions. The paper discusses these by following the development of city-regionalism in Wales and specifically the unfolding of the ‘elite-led’ CCR City-Deal