A decision support system for automating document retrieval and citation screening

The systematic literature review (SLR) process includes several steps to collect secondary data and analyze it to answer research questions. In this context, the document retrieval and primary study selection steps are heavily intertwined and known for their repetitiveness, high human workload, and difficulty identifying all relevant literature. This study aims to reduce human workload and error of the document retrieval and primary study selection processes using a decision support system (DSS). An open-source DSS is proposed that supports the document retrieval step, dataset preprocessing, and citation classification. The DSS is domain-independent, as it has proven to carefully select an article's relevance based solely on the title and abstract. These features can be consistently retrieved from scientific database APIs. Additionally, the DSS is designed to run in the cloud without any required programming knowledge for reviewers. A Multi-Channel CNN architecture is implemented to support the citation screening process. With the provided DSS, reviewers can fill in their search strategy and manually label only a subset of the citations. The remaining unlabeled citations are automatically classified and sorted based on probability. It was shown that for four out of five review datasets, the DSS's use achieved significant workload savings of at least 10%. The cross-validation results show that the system provides consistent results up to 88.3% of work saved during citation screening. In two cases, our model yielded a better performance over the benchmark review datasets. As such, the proposed approach can assist the development of systematic literature reviews independent of the domain. The proposed DSS is effective and can substantially decrease the document retrieval and citation screening steps' workload and error rate. 2021 The Author(s)Open Access funding provided by the Qatar National Library.Scopus2-s2.0-8510767361

Measuring scientific impact beyond academia:An assessment of existing impact metrics and proposed improvements

How does scientific research affect the world around us? Being able to answer this question is of great importance in order to appropriately channel efforts and resources in science. The impact by scientists in academia is currently measured by citation based metrics such as h-index, i-index and citation counts. These academic metrics aim to represent the dissemination of knowledge among scientists rather than the impact of the research on the wider world. In this work we are interested in measuring scientific impact beyond academia, on the economy, society, health and legislation (comprehensive impact). Indeed scientists are asked to demonstrate evidence of such comprehensive impact by authoring case studies in the context of the Research Excellence Framework (REF). We first investigate the extent to which existing citation based metrics can be indicative of comprehensive impact. We have collected all recent REF impact case studies from 2014 and we have linked these to papers in citation networks that we constructed and derived from CiteSeerX, arXiv and PubMed Central using a number of text processing and information retrieval techniques. We have demonstrated that existing citation-based metrics for impact measurement do not correlate well with REF impact results. We also consider metrics of online attention surrounding scientific works, such as those provided by the Altmetric API. We argue that in order to be able to evaluate wider non-academic impact we need to mine information from a much wider set of resources, including social media posts, press releases, news articles and political debates stemming from academic work. We also provide our data as a free and reusable collection for further analysis, including the PubMed citation network and the correspondence between REF case studies, grant applications and the academic literature

A probabilistic approach for cluster based polyrepresentative information retrieval

A thesis submitted to the University of Bedfordshire in partial ful lment of the requirements for the degree of Doctor of PhilosophyDocument clustering in information retrieval (IR) is considered an alternative to rank-based retrieval approaches, because of its potential to support user interactions beyond just typing in queries. Similarly, the Principle of Polyrepresentation (multi-evidence: combining multiple cognitively and/or functionally diff erent information need or information object representations for improving an IR system's performance) is an established approach in cognitive IR with plausible applicability in the domain of information seeking and retrieval. The combination of these two approaches can assimilate their respective individual strengths in order to further improve the performance of IR systems. The main goal of this study is to combine cognitive and cluster-based IR approaches for improving the eff ectiveness of (interactive) information retrieval systems. In order to achieve this goal, polyrepresentative information retrieval strategies for cluster browsing and retrieval have been designed, focusing on the evaluation aspect of such strategies. This thesis addresses the challenge of designing and evaluating an Optimum Clustering Framework (OCF) based model, implementing probabilistic document clustering for interactive IR. Thus, polyrepresentative cluster browsing strategies have been devised. With these strategies a simulated user based method has been adopted for evaluating the polyrepresentative cluster browsing and searching strategies. The proposed approaches are evaluated for information need based polyrepresentative clustering as well as document based polyrepresentation and the combination thereof. For document-based polyrepresentation, the notion of citation context is exploited, which has special applications in scientometrics and bibliometrics for science literature modelling. The information need polyrepresentation, on the other hand, utilizes the various aspects of user information need, which is crucial for enhancing the retrieval performance. Besides describing a probabilistic framework for polyrepresentative document clustering, one of the main fi ndings of this work is that the proposed combination of the Principle of Polyrepresentation with document clustering has the potential of enhancing the user interactions with an IR system, provided that the various representations of information need and information objects are utilized. The thesis also explores interactive IR approaches in the context of polyrepresentative interactive information retrieval when it is combined with document clustering methods. Experiments suggest there is a potential in the proposed cluster-based polyrepresentation approach, since statistically signifi cant improvements were found when comparing the approach to a BM25-based baseline in an ideal scenario. Further marginal improvements were observed when cluster-based re-ranking and cluster-ranking based comparisons were made. The performance of the approach depends on the underlying information object and information need representations used, which confi rms fi ndings of previous studies where the Principle of Polyrepresentation was applied in diff erent ways

The Closer the Better: Similarity of Publication Pairs at Different Co-Citation Levels

We investigate the similarities of pairs of articles which are co-cited at the different co-citation levels of the journal, article, section, paragraph, sentence and bracket. Our results indicate that textual similarity, intellectual overlap (shared references), author overlap (shared authors), proximity in publication time all rise monotonically as the co-citation level gets lower (from journal to bracket). While the main gain in similarity happens when moving from journal to article co-citation, all level changes entail an increase in similarity, especially section to paragraph and paragraph to sentence/bracket levels. We compare results from four journals over the years 2010-2015: Cell, the European Journal of Operational Research, Physics Letters B and Research Policy, with consistent general outcomes and some interesting differences. Our findings motivate the use of granular co-citation information as defined by meaningful units of text, with implications for, among others, the elaboration of maps of science and the retrieval of scholarly literature

In search of the right literature search engine(s)

*Background*
Collecting scientific publications related to a specific topic is crucial for different phases of research, health care and ‘effective text mining’. Available bio-literature search engines vary in their ability to scan different sections of articles, for the user-provided search terms and/or phrases. Since a thorough scientific analysis of all major bibliographic tools has not been done, their selection has often remained subjective. We have considered most of the existing bio-literature search engines (http://www.shodhaka.com/startbioinfo/LitSearch.html) and performed an extensive analysis of 18 literature search engines, over a period of about 3 years. Eight different topics were taken and about 50 searches were performed using the selected search engines. The relevance of retrieved citations was carefully assessed after every search, to estimate the citation retrieval efficiency. Different other features of the search tools were also compared using a semi-quantitative method.
*Results*
The study provides the first tangible comparative account of relative retrieval efficiency, input and output features, resource coverage and a few other utilities of the bio-literature search tools. The results show that using a single search tool can lead to loss of up to 75% relevant citations in some cases. Hence, use of multiple search tools is recommended. But, it would also not be practical to use all or too many search engines. The detailed observations made in the study can assist researchers and health professionals in making a more objective selection among the search engines. A corollary study revealed relative advantages and disadvantages of the full-text scanning tools.
*Conclusion*
While many studies have attempted to compare literature search engines, important questions remained unanswered till date. Following are some of those questions, along with answers provided by the current study:
a)	Which tools should be used to get the maximum number of relevant citations with a reasonable effort? ANSWER: _Using PubMed, Scopus, Google Scholar and HighWire Press individually, and then compiling the hits into a union list is the best option. Citation-Compiler (http://www.shodhaka.com/compiler) can help to compile the results from each of the recommended tool._
b)	What is the approximate percentage of relevant citations expected to be lost if only one search engine is used? ANSWER: _About 39% of the total relevant citations were lost in searches across 4 topics; 49% hits were lost while using PubMed or HighWire Press, while 37% and 20% loss was noticed while using Google Scholar and Scopus, respectively._ 
c)	Which full text search engines can be recommended in general? ANSWER: _HighWire Press and Google Scholar._
d)	Among the mostly used search engines, which one can be recommended for best precision? ANSWER: _EBIMed._
e)	Among the mostly used search engines, which one can be recommended for best recall? ANSWER: _Depending on the type of query used, best recall could be obtained by HighWire Press or Scopus.

Contextualizing Citations for Scientific Summarization using Word Embeddings and Domain Knowledge

Citation texts are sometimes not very informative or in some cases inaccurate by themselves; they need the appropriate context from the referenced paper to reflect its exact contributions. To address this problem, we propose an unsupervised model that uses distributed representation of words as well as domain knowledge to extract the appropriate context from the reference paper. Evaluation results show the effectiveness of our model by significantly outperforming the state-of-the-art. We furthermore demonstrate how an effective contextualization method results in improving citation-based summarization of the scientific articles.Comment: SIGIR 201

Teaching and learning in information retrieval

A literature review of pedagogical methods for teaching and learning information retrieval is presented. From the analysis of the literature a taxonomy was built and it is used to structure the paper. Information Retrieval (IR) is presented from different points of view: technical levels, educational goals, teaching and learning methods, assessment and curricula. The review is organized around two levels of abstraction which form a taxonomy that deals with the different aspects of pedagogy as applied to information retrieval. The first level looks at the technical level of delivering information retrieval concepts, and at the educational goals as articulated by the two main subject domains where IR is delivered: computer science (CS) and library and information science (LIS). The second level focuses on pedagogical issues, such as teaching and learning methods, delivery modes (classroom, online or e-learning), use of IR systems for teaching, assessment and feedback, and curricula design. The survey, and its bibliography, provides an overview of the pedagogical research carried out in the field of IR. It also provides a guide for educators on approaches that can be applied to improving the student learning experiences