A query suggestion workflow for life science IR-systems

Summary Information Retrieval (IR) plays a central role in the exploration and interpretation of integrated biological datasets that represent the heterogeneous ecosystem of life sciences. Here, keyword based query systems are popular user interfaces. In turn, to a large extend, the used query phrases determine the quality of the search result and the effort a scientist has to invest for query refinement. In this context, computer aided query expansion and suggestion is one of the most challenging tasks for life science information systems. Existing query front-ends support aspects like spelling correction, query refinement or query expansion. However, the majority of the front-ends only make limited use of enhanced IR algorithms to implement comprehensive and computer aided query refinement workflows. In this work, we present the design of a multi-stage query suggestion workflow and its implementation in the life science IR system LAILAPS. The presented workflow includes enhanced tokenisation, word breaking, spelling correction, query expansion and query suggestion ranking. A spelling correction benchmark with 5,401 queries and manually selected use cases for query expansion demonstrate the performance of the implemented workflow and its advantages compared with state-of-the-art systems.</jats:p

Applying Science Models for Search

The paper proposes three different kinds of science models as value-added services that are integrated in the retrieval process to enhance retrieval quality. The paper discusses the approaches Search Term Recommendation, Bradfordizing and Author Centrality on a general level and addresses implementation issues of the models within a real-life retrieval environment.Comment: 14 pages, 3 figures, ISI 201

Automatic annotation of bioinformatics workflows with biomedical ontologies

Legacy scientific workflows, and the services within them, often present scarce and unstructured (i.e. textual) descriptions. This makes it difficult to find, share and reuse them, thus dramatically reducing their value to the community. This paper presents an approach to annotating workflows and their subcomponents with ontology terms, in an attempt to describe these artifacts in a structured way. Despite a dearth of even textual descriptions, we automatically annotated 530 myExperiment bioinformatics-related workflows, including more than 2600 workflow-associated services, with relevant ontological terms. Quantitative evaluation of the Information Content of these terms suggests that, in cases where annotation was possible at all, the annotation quality was comparable to manually curated bioinformatics resources.Comment: 6th International Symposium on Leveraging Applications (ISoLA 2014 conference), 15 pages, 4 figure

Workflow repository for providing configurable workflow in ERP

Workflow pada ERP dengan domain fungsi yang besar rentan dengan adanya duplikasi. Membuat workflow repository yang menyimpan berbagai macam workflow dari proses bisnis ERP yang dapat digunakan untuk menyusun workflow baru sesuai kebutuhan tenant baru Metode yang diusulkan: Metode yang diusulkan terdiri dari 2 tahapan, preprocessing dan processing. Tahap preprocessing bertujuan untuk mencari common dan sub variant dari existing workflow variant. Workflow variant yang disimpan oleh pengguna adalah Procure to Pay workflow. Variasi tersebut diseleksi berdasarkan kemiripannya dengan similarity filtering, kemudian dimerge untuk mencari common dan sub variantnya. Common dan sub variant disimpan menggunakan metadata yang dipetakan pada basis data relasional. Deteksi common dan sub variant workflow mencapai tingkat akurasi sebesar 92%. Ccommon workflow terdiri dari 3-common dari 8-variant workflow. Common workflow tersebut memiliki tingkat kompleksitas lebih rendah 10% dari model sebelumnya. Tahapan processing adalah tahapan penyediaan configurable workflow. Pengguna memasukan query model untuk mencari workflow yang diinginkan. Dengan menggunakan metode similarity filtering, didapatkan common dan/atau sub variant yang memungkinkan. Pengguna dapat menggunakan common workflow melalui workflow designer untuk melakukan rekomposisi ulang. Penyediaan configurable workflow oleh ERP mencapai tingkat 100% dimana apapun yang diinginkan pengguna dapat disediakaan workflownya oleh ERP, ataupun sebagai dasar membentuk workflow yang lain. Berdasarkan hasil percobaan, tempat penyimpanan workflow dapat dibangun dengan arsitektur yang diajukan dan mampu menyimpan dan menyediakan workflow. Tempat penyimpanan ERP mampu mendeteksi workflow yang bersifat common dan sub variant. Tempat penyimpanan ERP mampu menyediakan configurable workflow, dimana pengguna dapat memanfaatkan common dan sub variant workflow untuk menjadi dasar mengkomposisi workflow yang lain. =================================================================================================== Workflow in ERP which covered big domain faced duplication issues. Scope of this research was developing workflow from business process ERP which could be used for required workflow as user needs. Proposed approach consisted of 2 stages preprocessing and processing. Preprocessing stages aimed for finding common and variant of sub workflow based on existing workflow variant. The workflow variants that were stored by user were procured to pay workflow. The workflows was filtered by similarity filtering method then merged for identifying the common and variant of sub workflow. The common and sub variant workflow were stored using metadata that mapped into relational database. The common and variant of sub workflow detection achieved 92% accuracy. The common workflow consisted of 3- the common workflow from 8-variant workflow. The common workflow has 10% lesser complexity than its predecessor. Processing was providing configurable workflow. User inputted query model to find required workflow. Utilizing similarity filtering, possible the common and variant of sub workflow was collected. User used the common workflow through workflow designer to recompose. Providing configurable workflow ERP achieved 100%, where any user need would be provided by ERP, as workflow or as based template for creating other. Based on evaluation, repository was built based on proposed architecture and was able to store or provide workflow. Repository detected workflow whether common or variant of sub workflow. Repository ERP was able to provide configurable ERP, where user utilized common and variant of sub workflow as based for creating one of their need

Studying Pub M ed usages in the field for complex problem solving: Implications for tool design

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/97504/1/asi22796.pd

Linked Data Supported Information Retrieval

Um Inhalte im World Wide Web ausfindig zu machen, sind Suchmaschienen nicht mehr wegzudenken. Semantic Web und Linked Data Technologien ermöglichen ein detaillierteres und eindeutiges Strukturieren der Inhalte und erlauben vollkommen neue Herangehensweisen an die Lösung von Information Retrieval Problemen. Diese Arbeit befasst sich mit den Möglichkeiten, wie Information Retrieval Anwendungen von der Einbeziehung von Linked Data profitieren können. Neue Methoden der computer-gestützten semantischen Textanalyse, semantischen Suche, Informationspriorisierung und -visualisierung werden vorgestellt und umfassend evaluiert. Dabei werden Linked Data Ressourcen und ihre Beziehungen in die Verfahren integriert, um eine Steigerung der Effektivität der Verfahren bzw. ihrer Benutzerfreundlichkeit zu erzielen. Zunächst wird eine Einführung in die Grundlagen des Information Retrieval und Linked Data gegeben. Anschließend werden neue manuelle und automatisierte Verfahren zum semantischen Annotieren von Dokumenten durch deren Verknüpfung mit Linked Data Ressourcen vorgestellt (Entity Linking). Eine umfassende Evaluation der Verfahren wird durchgeführt und das zu Grunde liegende Evaluationssystem umfangreich verbessert. Aufbauend auf den Annotationsverfahren werden zwei neue Retrievalmodelle zur semantischen Suche vorgestellt und evaluiert. Die Verfahren basieren auf dem generalisierten Vektorraummodell und beziehen die semantische Ähnlichkeit anhand von taxonomie-basierten Beziehungen der Linked Data Ressourcen in Dokumenten und Suchanfragen in die Berechnung der Suchergebnisrangfolge ein. Mit dem Ziel die Berechnung von semantischer Ähnlichkeit weiter zu verfeinern, wird ein Verfahren zur Priorisierung von Linked Data Ressourcen vorgestellt und evaluiert. Darauf aufbauend werden Visualisierungstechniken aufgezeigt mit dem Ziel, die Explorierbarkeit und Navigierbarkeit innerhalb eines semantisch annotierten Dokumentenkorpus zu verbessern. Hierfür werden zwei Anwendungen präsentiert. Zum einen eine Linked Data basierte explorative Erweiterung als Ergänzung zu einer traditionellen schlüsselwort-basierten Suchmaschine, zum anderen ein Linked Data basiertes Empfehlungssystem

MSFC Propulsion Systems Department Knowledge Management Project

This slide presentation reviews the Knowledge Management (KM) project of the Propulsion Systems Department at Marshall Space Flight Center. KM is needed to support knowledge capture, preservation and to support an information sharing culture. The presentation includes the strategic plan for the KM initiative, the system requirements, the technology description, the User Interface and custom features, and a search demonstration