PubMed and beyond: a survey of web tools for searching biomedical literature

The past decade has witnessed the modern advances of high-throughput technology and rapid growth of research capacity in producing large-scale biological data, both of which were concomitant with an exponential growth of biomedical literature. This wealth of scholarly knowledge is of significant importance for researchers in making scientific discoveries and healthcare professionals in managing health-related matters. However, the acquisition of such information is becoming increasingly difficult due to its large volume and rapid growth. In response, the National Center for Biotechnology Information (NCBI) is continuously making changes to its PubMed Web service for improvement. Meanwhile, different entities have devoted themselves to developing Web tools for helping users quickly and efficiently search and retrieve relevant publications. These practices, together with maturity in the field of text mining, have led to an increase in the number and quality of various Web tools that provide comparable literature search service to PubMed. In this study, we review 28 such tools, highlight their respective innovations, compare them to the PubMed system and one another, and discuss directions for future development. Furthermore, we have built a website dedicated to tracking existing systems and future advances in the field of biomedical literature search. Taken together, our work serves information seekers in choosing tools for their needs and service providers and developers in keeping current in the field

PREFERENCE BASED TERM WEIGHTING FOR ARABIC FIQH DOCUMENT RANKING

In document retrieval, besides the suitability of query with search results, there is also a subjective user assessment that is expected to be a deciding factor in document ranking. This preference aspect is referred at the fiqh document searching. People tend to prefer on certain fiqh methodology without rejecting other fiqh methodologies. It is necessary to investigate preference factor in addition to the relevance factor in the document ranking. Therefore, this research proposed a method of term weighting based on preference to rank documents according to user preference. The proposed method is also combined with term weighting based on documents index and books index so it sees relevance and preference aspect. The proposed method is Inverse Preference Frequency with α value (IPFα). In this method, we calculate preference value by IPF term weighting. Then, the preference values of terms that is equal with the query are multiplied by α. IPFα combined with the existing weighting methods become TF.IDF.IBF.IPFα. Experiment of the proposed method uses dataset of several Arabic fiqh documents. Evaluation uses recall, precision, and f-measure calculations. Proposed term weighting method is obtained to rank the document in the right order according to user preference. It is shown from the result with recall value reach 75%, precision 100%, and f-measure 85.7% respectively

Adding Semantic Web Knowledge to Intelligent Personal Assistant Agents

Intelligent Personal Assistant (IPA) agents are software agents which assist users in performing specific tasks. They should be able to communicate, cooperate, discuss, and guide people. This paper presentsa proposal to add Semantic Web Knowledge to IPA agents. In our solution,the IPA agent has a modular knowledge organization composed by four differentiated areas: (i) the rational area, which adds semantic webknowledge, (ii) the association area, which simplifies building appropriate responses, (iii) the commonsense area, which provides common sense responses, and (iv) the behavioral area, which allows IPA agents to show empathy. Our main objective is to create more intelligent and more humana alike IPA agents, enhancing the current abilities that these software agents provide

Lessons from Building StackSpot AI: A Contextualized AI Coding Assistant

With their exceptional natural language processing capabilities, tools based on Large Language Models (LLMs) like ChatGPT and Co-Pilot have swiftly become indispensable resources in the software developer's toolkit. While recent studies suggest the potential productivity gains these tools can unlock, users still encounter drawbacks, such as generic or incorrect answers. Additionally, the pursuit of improved responses often leads to extensive prompt engineering efforts, diverting valuable time from writing code that delivers actual value. To address these challenges, a new breed of tools, built atop LLMs, is emerging. These tools aim to mitigate drawbacks by employing techniques like fine-tuning or enriching user prompts with contextualized information. In this paper, we delve into the lessons learned by a software development team venturing into the creation of such a contextualized LLM-based application, using retrieval-based techniques, called CodeBuddy. Over a four-month period, the team, despite lacking prior professional experience in LLM-based applications, built the product from scratch. Following the initial product release, we engaged with the development team responsible for the code generative components. Through interviews and analysis of the application's issue tracker, we uncover various intriguing challenges that teams working on LLM-based applications might encounter. For instance, we found three main group of lessons: LLM-based lessons, User-based lessons, and Technical lessons. By understanding these lessons, software development teams could become better prepared to build LLM-based applications