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(Bee)Dancing on the Boundary Between PIM and GIM

by Shannon Bradshaw
"... In the life sciences, 40,000 new articles are published each month, adding a large number of findings to an already immense area of knowledge [15]. Literature review is difficult, increasing the chance of duplicated effort. It is also timeconsuming, reducing the amount of resources scientists have t ..."
Abstract - Cited by 1 (0 self) - Add to MetaCart
to pursue new discoveries. One approach to this problem would be to fund a talented team of researchers to curate all published knowledge in a structured database. However, it is our position that the information gathering activity of individual investigators provides both an effective means of self-curation

DOI 10.1007/s00778-012-0302-x SPECIAL ISSUE PAPER Automating the database schema evolution process

by Carlo Curino, Hyun Jin, Moon Alin Deutsch, Carlo Zaniolo, C. Curino (b, H. J. Moon, A. Deutsch, C. Zaniolo
"... Abstract Supporting database schema evolution repre-sents a long-standing challenge of practical and theoretical importance for modern information systems. In this paper, we describe techniques and systems for automating the critical tasks of migrating the database and rewriting the legacy applicati ..."
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Abstract Supporting database schema evolution repre-sents a long-standing challenge of practical and theoretical importance for modern information systems. In this paper, we describe techniques and systems for automating the critical tasks of migrating the database and rewriting the legacy

The Open Regulatory Annotation d...

by Robert Lesurf, Kelsy C. Cotto, Grace Wang, Malachi Griffith, Katayoon Kasaian, Steven J. M. Jones, Stephen B. Montgomery, Obi L. Griffith, The Open , 2015
"... The Open Regulatory Annotation database (ORe-gAnno) is a resource for curated regulatory anno-tation. It contains information about regulatory re-gions, transcription factor binding sites, RNA bind-ing sites, regulatory variants, haplotypes, and other regulatory elements. ORegAnno differentiates it- ..."
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The Open Regulatory Annotation database (ORe-gAnno) is a resource for curated regulatory anno-tation. It contains information about regulatory re-gions, transcription factor binding sites, RNA bind-ing sites, regulatory variants, haplotypes, and other regulatory elements. ORegAnno differentiates it-self

2012 IEEE Second Conference on Healthcare Informatics, Imaging and Systems Biology Ontology-guided Approach to Retrieving Disease Manifestation Images for Health Image Base Construction

by Yang Chen, Xiaofeng Ren, Guo-qiang Zhang, Rong Xu
"... Abstract—Building a comprehensive medical image database, in the spirit of the UMLS, can be beneficial for assisting diagnosis, patient education and self-care. However, a highly curated, comprehensive image database is difficult to collect as well as to annotate. We present an approach to combine v ..."
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Abstract—Building a comprehensive medical image database, in the spirit of the UMLS, can be beneficial for assisting diagnosis, patient education and self-care. However, a highly curated, comprehensive image database is difficult to collect as well as to annotate. We present an approach to combine

How Feasible and Robust is the Automatic Extraction of Gene Regulation Events? A Cross-Method Evaluation under Lab and Real-Life Conditions

by Udo Hahn, Katrin Tomanek, Ekaterina Buyko, Jung-jae Kim, Dietrich Rebholz-schuhmann
"... We explore a rule system and a machine learning (ML) approach to automatically harvest information on gene regulation events (GREs) from biological documents in two different evaluation scenarios – one uses self-supplied corpora in a clean lab setting, while the other incorporates a standard referen ..."
Abstract - Cited by 5 (1 self) - Add to MetaCart
reference database of curated GREs from REGULONDB, real-life data generated independently from our work. In the lab condition, we test how feasible the automatic extraction of GREs really is and achieve F-scores, under different, not directly comparable test conditions though, for the rule and the ML

Background and Topic Description Dynamic Data Management

by Fusionopolis Way, Connexis South, Prof Pierre Senellart, Télécom Paristech
"... A number of data management tasks are by nature dynamic: in order to achieve a goal (e.g., answer a query or a query load) effectively and efficiently, actions are carried out that make the database evolve (e.g., add new information, enrich existing information, change the physical organization ..."
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in terms of the cost of the action, and effectiveness and efficiency of reaching the goal once the action is performed. The following examples all follow this model: Self-tuning databases [1] Given a workload of queries, not known in advance, modify the physical organization of the database to efficiently

Research Article Automated Training for Algorithms That Learn from Genomic Data

by Gokcen Cilingir, Shira L. Broschat
"... License, which permits unrestricted use, distribution, and reproduction in anymedium, provided the originalwork is properly cited. Supervisedmachine learning algorithms are used by life scientists for a variety of objectives. Expert-curated public gene and protein databases are major resources for g ..."
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License, which permits unrestricted use, distribution, and reproduction in anymedium, provided the originalwork is properly cited. Supervisedmachine learning algorithms are used by life scientists for a variety of objectives. Expert-curated public gene and protein databases are major resources

MyLearningMentor: A Mobile App to Support Learners Participating in MOOCs

by Carlos Alario-Hoyos , Iria Estévez-Ayres , Mar Pérez Sanagustín , Derick Leony , Carlos Delgado Kloos
"... Abstract: MOOCs have brought a revolution to education. However, their impact is mainly benefiting people with Higher Education degrees. The lack of support and personalized advice in MOOCs is causing that many of the learners that have not developed work habits and selflearning skills give them up ..."
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to them on time. This previous performance is taken into account by the adaptive planner in the next iterations in order to adjust the planning provided to each learner. Second, users can complete, update and curate the information about MOOCs stored in the MOOC data database (REQ4). This ensures a higher

Perspective An Online Bioinformatics Curriculum

by David B. Searls
"... Abstract: Online learning initia-tives over the past decade have become increasingly comprehen-sive in their selection of courses and sophisticated in their presen-tation, culminating in the recent announcement of a number of consortium and startup activities that promise to make a university educat ..."
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Abstract: Online learning initia-tives over the past decade have become increasingly comprehen-sive in their selection of courses and sophisticated in their presen-tation, culminating in the recent announcement of a number of consortium and startup activities that promise to make a university education on the internet, free of charge, a real possibility. At this pivotal moment it is appropriate to explore the potential for obtaining comprehensive bioinformatics training with currently existing free video resources. This article pre-sents such a bioinformatics curric-ulum in the form of a virtual course catalog, together with editorial commentary, and an assessment of strengths, weaknesses, and likely future directions for open online learning in this field. Online Learning Comes of Age Online academic ‘‘courseware’ ’ at the university level has now been available to the public for a decade, the earliest concerted effort having originated in 2002 with the Massachusetts Institute of Technology (MIT) and their OpenCour-seWare initiative

Making an issue out of a standard: Storytelling practices in a scientific community

by Florence Millerand , David Ribes , Karen S Baker , Geoffrey C Bowker , Florence Millerand - Science, Technology, & Human Values , 2013
"... Abstract The article focuses on stories and storytelling practices as explanatory resources in standardization processes. It draws upon an ethnographic study of the development of a technical standard for data sharing in an ecological research community, where participants struggle to articulate th ..."
Abstract - Cited by 2 (2 self) - Add to MetaCart
: ''they have to do with the self and with those limited areas of social life of which he [sic] is directly and personally aware'' (Mills 1961, 8). In contrast, issues are recognized as collective phenomena: many individuals are swept along in changes that could not be planned
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