title: Structured Literature Image Finder: Parsing Text and Figures in Biomedical Literature.
abstract: The SLIF project combines text-mining and image processing to extract structured information from biomedical literature. SLIF extracts images and their captions from published papers. The captions are automatically parsed for relevant biological entities (protein and cell type names), while the images are classified according to their type (e.g., micrograph or gel). Fluorescence microscopy images are further processed and classified according to the depicted subcellular localization. The results of this process can be queried online using either a user-friendly web-interface or an XML-based web-service. As an alternative to the targeted query paradigm, SLIF also supports browsing the collection based on latent topic models which are derived from both the annotated text and the image data. The SLIF web application, as well as labeled datasets used for training system components, is publicly available at http://slif.cbi.cmu.edu.
authors.affiliation: Machine Learning Department, Carnegie Mellon University ; Language Technologies Institute, Carnegie Mellon University.
authors.forename: Amr
authors.initials: A
authors.lastname: Ahmed
authors.affiliation: Machine Learning Department, Carnegie Mellon University.
authors.forename: Andrew
authors.initials: A
authors.lastname: Arnold
authors.affiliation: Joint Carnegie Mellon University-University of Pittsburgh Ph.D. Program in Computational Biology ; Center for Bioimage Informatics, Carnegie Mellon University ; Lane Center for Computational Biology, Carnegie Mellon University.
authors.forename: Luis Pedro
authors.initials: LP
authors.lastname: Coelho
authors.affiliation: Joint Carnegie Mellon University-University of Pittsburgh Ph.D. Program in Computational Biology ; Center for Bioimage Informatics, Carnegie Mellon University ; Lane Center for Computational Biology, Carnegie Mellon University.
authors.forename: Joshua
authors.initials: J
authors.lastname: Kangas
authors.affiliation: Center for Bioimage Informatics, Carnegie Mellon University.
authors.forename: Abdul-Saboor
authors.initials: AS
authors.lastname: Sheikh
authors.affiliation: Machine Learning Department, Carnegie Mellon University ; Language Technologies Institute, Carnegie Mellon University ; Joint Carnegie Mellon University-University of Pittsburgh Ph.D. Program in Computational Biology ; Center for Bioimage Informatics, Carnegie Mellon University ; Lane Center for Computational Biology, Carnegie Mellon University ; Department of Biological Sciences, Carnegie Mellon University.
authors.forename: Eric
authors.initials: E
authors.lastname: Xing
authors.affiliation: Machine Learning Department, Carnegie Mellon University ; Language Technologies Institute, Carnegie Mellon University ; Joint Carnegie Mellon University-University of Pittsburgh Ph.D. Program in Computational Biology ; Center for Bioimage Informatics, Carnegie Mellon University ; Lane Center for Computational Biology, Carnegie Mellon University.
authors.forename: William
authors.initials: W
authors.lastname: Cohen
authors.affiliation: Machine Learning Department, Carnegie Mellon University ; Joint Carnegie Mellon University-University of Pittsburgh Ph.D. Program in Computational Biology ; Center for Bioimage Informatics, Carnegie Mellon University ; Lane Center for Computational Biology, Carnegie Mellon University ; Department of Biological Sciences, Carnegie Mellon University ; Department of Biomedical Engineering, Carnegie Mellon University.
authors.forename: Robert F
authors.initials: RF
authors.lastname: Murphy