scholarly journals Simple but Effective Knowledge-Based Query Reformulations for Precision Medicine Retrieval

Information ◽  
2021 ◽  
Vol 12 (10) ◽  
pp. 402
Author(s):  
Stefano Marchesin ◽  
Giorgio Maria Di Nunzio ◽  
Maristella Agosti

In Information Retrieval (IR), the semantic gap represents the mismatch between users’ queries and how retrieval models answer to these queries. In this paper, we explore how to use external knowledge resources to enhance bag-of-words representations and reduce the effect of the semantic gap between queries and documents. In this regard, we propose several simple but effective knowledge-based query expansion and reduction techniques, and we evaluate them for the medical domain. The query reformulations proposed are used to increase the probability of retrieving relevant documents through the addition to, or the removal from, the original query of highly specific terms. The experimental analyses on different test collections for Precision Medicine IR show the effectiveness of the developed techniques. In particular, a specific subset of query reformulations allow retrieval models to achieve top performing results in all the considered test collections.

2021 ◽  
Vol 55 (1) ◽  
pp. 1-2
Author(s):  
Stefano Marchesin

In this thesis we tackle the semantic gap, a long-standing problem in Information Retrieval (IR). The semantic gap can be described as the mismatch between users' queries and the way retrieval models answer to such queries. Two main lines of work have emerged over the years to bridge the semantic gap: (i) the use of external knowledge resources to enhance the bag-of-words representations used by lexical models, and (ii) the use of semantic models to perform matching between the latent representations of queries and documents. To deal with this issue, we first perform an in-depth evaluation of lexical and semantic models through different analyses [Marchesin et al., 2019]. The objective of this evaluation is to understand what features lexical and semantic models share, if their signals are complementary, and how they can be combined to effectively address the semantic gap. In particular, the evaluation focuses on (semantic) neural models and their critical aspects. Each analysis brings a different perspective in the understanding of semantic models and their relation with lexical models. The outcomes of this evaluation highlight the differences between lexical and semantic signals, and the need to combine them at the early stages of the IR pipeline to effectively address the semantic gap. Then, we build on the insights of this evaluation to develop lexical and semantic models addressing the semantic gap. Specifically, we develop unsupervised models that integrate knowledge from external resources, and we evaluate them for the medical domain - a domain with a high social value, where the semantic gap is prominent, and the large presence of authoritative knowledge resources allows us to explore effective ways to address it. For lexical models, we investigate how - and to what extent - concepts and relations stored within knowledge resources can be integrated in query representations to improve the effectiveness of lexical models. Thus, we propose and evaluate several knowledge-based query expansion and reduction techniques [Agosti et al., 2018, 2019; Di Nunzio et al., 2019]. These query reformulations are used to increase the probability of retrieving relevant documents by adding to or removing from the original query highly specific terms. The experimental analyses on different test collections for Precision Medicine - a particular use case of Clinical Decision Support (CDS) - show the effectiveness of the proposed query reformulations. In particular, a specific subset of query reformulations allow lexical models to achieve top performing results in all the considered collections. Regarding semantic models, we first analyze the limitations of the knowledge-enhanced neural models presented in the literature. Then, to overcome these limitations, we propose SAFIR [Agosti et al., 2020], an unsupervised knowledge-enhanced neural framework for IR. SAFIR integrates external knowledge in the learning process of neural IR models and it does not require labeled data for training. Thus, the representations learned within this framework are optimized for IR and encode linguistic features that are relevant to address the semantic gap. The evaluation on different test collections for CDS demonstrate the effectiveness of SAFIR when used to perform retrieval over the entire document collection or to retrieve documents for Pseudo Relevance Feedback (PRF) methods - that is, when it is used at the early stages of the IR pipeline. In particular, the quantitative and qualitative analyses highlight the ability of SAFIR to retrieve relevant documents affected by the semantic gap, as well as the effectiveness of combining lexical and semantic models at the early stages of the IR pipeline - where the complementary signals they provide can be used to obtain better answers to semantically hard queries.


Author(s):  
Ndengabaganizi Tonny James ◽  
Rajkumar Kannan

It has been long time many people have realized the importance of archiving and finding information. With the advent of computers, it became possible to store large amounts of information; and finding useful information from such collections became a necessity. Over the last forty years, Information Retrieval (IR) has matured considerably. Several IR systems are used on an everyday basis by a wide variety of users. Information retrieval (IR) is generally concerned with the searching and retrieving of knowledge-based information from database. In this paper, we will discuss about the various models and techniques and for information retrieval. We are also providing the overview of traditional IR models.


2018 ◽  
Vol 45 (1) ◽  
pp. 117-135 ◽  
Author(s):  
Amna Sarwar ◽  
Zahid Mehmood ◽  
Tanzila Saba ◽  
Khurram Ashfaq Qazi ◽  
Ahmed Adnan ◽  
...  

The advancements in the multimedia technologies result in the growth of the image databases. To retrieve images from such image databases using visual attributes of the images is a challenging task due to the close visual appearance among the visual attributes of these images, which also introduces the issue of the semantic gap. In this article, we recommend a novel method established on the bag-of-words (BoW) model, which perform visual words integration of the local intensity order pattern (LIOP) feature and local binary pattern variance (LBPV) feature to reduce the issue of the semantic gap and enhance the performance of the content-based image retrieval (CBIR). The recommended method uses LIOP and LBPV features to build two smaller size visual vocabularies (one from each feature), which are integrated together to build a larger size of the visual vocabulary, which also contains complementary features of both descriptors. Because for efficient CBIR, the smaller size of the visual vocabulary improves the recall, while the bigger size of the visual vocabulary improves the precision or accuracy of the CBIR. The comparative analysis of the recommended method is performed on three image databases, namely, WANG-1K, WANG-1.5K and Holidays. The experimental analysis of the recommended method on these image databases proves its robust performance as compared with the recent CBIR methods.


Author(s):  
Lisa J. Burnell ◽  
John W. Priest ◽  
John R. Durrett

An effective knowledge-based organization is one that correctly captures, shares, applies and maintains its knowledge resources to achieve its goals. Knowledge Management Systems (KMS) enable such resources and business processes to be automated and are especially important for environments with dynamic and complex domains. This chapter discusses the appropriate tools, methods, architectural issues and development processes for KMS, including the application of Organizational Theory, knowledge-representation methods and agent architectures. Details for systems development of KMS are provided and illustrated with a case study from the domain of university advising.


2011 ◽  
pp. 571-592
Author(s):  
Lisa J. Burnell ◽  
John W. Priest ◽  
John R. Durrett

An effective knowledge-based organization is one that correctly captures, shares, applies and maintains its knowledge resources to achieve its goals. Knowledge Management Systems (KMS) enable such resources and business processes to be automated and are especially important for environments with dynamic and complex domains. This chapter discusses the appropriate tools, methods, architectural issues and development processes for KMS, including the application of Organizational Theory, knowledge-representation methods and agent architectures. Details for systems development of KMS are provided and illustrated with a case study from the domain of university advising.


Author(s):  
Clyde W. Holsapple ◽  
Kiku Jones

Knowledge-based organizations (Holsapple & Whinston, 1987; Paradice & Courtney, 1989; Bennet & Bennet, 2003) are intentionally concerned with making the best use of their knowledge resources and knowledge-processing skills in the interest of enhancing their productivity, agility, reputation, and innovation (Holsapple & Singh, 2001). A key question that confronts every knowledge-based organization is concerned with how to approach the task of forming a KM strategy. Beyond aligning KM strategy with an organization’s vision and overall strategy for achieving its mission, how does the creator of a KM strategy proceed? How is the created (or adopted) KM strategy communicated and evaluated? What can be done to avoid blind spots, gaps, and flaws in the strategy?


Author(s):  
Min Pan ◽  
Yue Zhang ◽  
Qiang Zhu ◽  
Bo Sun ◽  
Tingting He ◽  
...  

Abstract Background In order to better help doctors make decision in the clinical setting, research is necessary to connect electronic health record (EHR) with the biomedical literature. Pseudo Relevance Feedback (PRF) is a kind of classical query modification technique that has shown to be effective in many retrieval models and thus suitable for handling terse language and clinical jargons in EHR. Previous work has introduced a set of constraints (axioms) of traditional PRF model. However, in the feedback document, the importance degree of candidate term and the co-occurrence relationship between a candidate term and a query term. Most methods do not consider both of these factors. Intuitively, terms that have higher co-occurrence degree with a query term are more likely to be related to the query topic. Methods In this paper, we incorporate original HAL model into the Rocchio’s model, and propose a new concept of term proximity feedback weight. A HAL-based Rocchio’s model in the query expansion, called HRoc, is proposed. Meanwhile, we design three normalization methods to better incorporate proximity information to query expansion. Finally, we introduce an adaptive parameter to replace the length of sliding window of HAL model, and it can select window size according to document length. Results Based on 2016 TREC Clinical Support medicine dataset, experimental results demonstrate that the proposed HRoc and HRoc_AP models superior to other advanced models, such as PRoc2 and TF-PRF methods on various evaluation metrics. Among them, compared with the Proc2 and TF-PRF models, the MAP of our model is increased by 8.5% and 12.24% respectively, while the F1 score of our model is increased by 7.86% and 9.88% respectively. Conclusions The proposed HRoc model can effectively enhance the precision and the recall rate of Information Retrieval and gets a more precise result than other models. Furthermore, after introducing self-adaptive parameter, the advanced HRoc_AP model uses less hyper-parameters than other models while enjoys an equivalent performance, which greatly improves the efficiency and applicability of the model and thus helps clinicians to retrieve clinical support document effectively.


2019 ◽  
Vol 9 (2) ◽  
pp. 3985-3989 ◽  
Author(s):  
P. Sharma ◽  
N. Joshi

The purpose of word sense disambiguation (WSD) is to find the meaning of the word in any context with the help of a computer, to find the proper meaning of a lexeme in the available context in the problem area and the relationship between lexicons. This is done using natural language processing (NLP) techniques which involve queries from machine translation (MT), NLP specific documents or output text. MT automatically translates text from one natural language into another. Several application areas for WSD involve information retrieval (IR), lexicography, MT, text processing, speech processing etc. Using this knowledge-based technique, we are investigating Hindi WSD in this article. It involves incorporating word knowledge from external knowledge resources to remove the equivocalness of words. In this experiment, we tried to develop a WSD tool by considering a knowledge-based approach with WordNet of Hindi. The tool uses the knowledge-based LESK algorithm for WSD for Hindi. Our proposed system gives an accuracy of about 71.4%.


Author(s):  
H. C. Wu ◽  
R. W. P. Luk ◽  
K. F. Wong ◽  
J. Y. Nie

Model construction is a kind of knowledge engineering, and building retrieval models is critical to the success of search engines. This article proposes a new (retrieval) language model, called binary independence language model (BILM). It integrates two document-context based language models together into one by the log-odds ratio where these two are language models applied to describe document-contexts of query terms. One model is based on relevance information while the other is based on the non-relevance information. Each model incorporates link dependencies and multiple query term dependencies. The probabilities are interpolated between the relative frequency and the background probabilities. In a simulated relevance feedback environment of top 20 judged documents, our BILM performed statistically significantly better than the other highly effective retrieval models at 95% confidence level across four TREC collections using fixed parameter values for the mean average precision. For the less stable performance measure (i.e. precision at the top 10), no statistical significance is shown between the different models for the individual test collections although numerically our BILM is better than two other models with a confidence level of 95% based on a paired sign test across the test collections of both relevance feedback and retrospective experiments.


Sign in / Sign up

Export Citation Format

Share Document