BIOMAT Database Logo BIOMAT Database Logo

iMole, a web based image retrieval system from biomedical literature. 2013

Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
BioDigitalValley S.r.l, Pont Saint Martin, Italy.

iMole is a platform that automatically extracts images and captions from biomedical literature. Images are tagged with terms contained in figure captions by means of a sophisticate text-mining tool. Moreover, iMole allows the user to upload directly their own images within the database and manually tag images by curated dictionary. Using iMole the researchers can develop a proper biomedical image database, storing the images extracted from paper of interest, image found on the web repositories, and their own experimental images. In order to show the functioning of the platform, we used iMole to build a 2DE database. Briefly, tagged 2DE gel images were collected and stored in a searchable 2DE gel database, available to users through an interactive web interface. Images were obtained by automatically parsing 16,608 proteomic publications, which yielded more than 16,500 images. The database can be further expanded by users with images of interest trough a manual uploading process. iMole is available with a preloaded set of 2DE gel data at http://imole.biodigitalvalley.com.

UI MeSH Term Description Entries
D007091 Image Processing, Computer-Assisted A technique of inputting two-dimensional or three-dimensional images into a computer and then enhancing or analyzing the imagery into a form that is more useful to the human observer. Biomedical Image Processing,Computer-Assisted Image Processing,Digital Image Processing,Image Analysis, Computer-Assisted,Image Reconstruction,Medical Image Processing,Analysis, Computer-Assisted Image,Computer-Assisted Image Analysis,Computer Assisted Image Analysis,Computer Assisted Image Processing,Computer-Assisted Image Analyses,Image Analyses, Computer-Assisted,Image Analysis, Computer Assisted,Image Processing, Biomedical,Image Processing, Computer Assisted,Image Processing, Digital,Image Processing, Medical,Image Processings, Medical,Image Reconstructions,Medical Image Processings,Processing, Biomedical Image,Processing, Digital Image,Processing, Medical Image,Processings, Digital Image,Processings, Medical Image,Reconstruction, Image,Reconstructions, Image
D003628 Database Management Systems Software designed to store, manipulate, manage, and control data for specific uses. Data Base Management Systems,Management System, Data Base,Management Systems, Data Base,System, Data Base Management,Systems, Data Base Management,Database Management System
D012984 Software Sequential operating programs and data which instruct the functioning of a digital computer. Computer Programs,Computer Software,Open Source Software,Software Engineering,Software Tools,Computer Applications Software,Computer Programs and Programming,Computer Software Applications,Application, Computer Software,Applications Software, Computer,Applications Softwares, Computer,Applications, Computer Software,Computer Applications Softwares,Computer Program,Computer Software Application,Engineering, Software,Open Source Softwares,Program, Computer,Programs, Computer,Software Application, Computer,Software Applications, Computer,Software Tool,Software, Computer,Software, Computer Applications,Software, Open Source,Softwares, Computer Applications,Softwares, Open Source,Source Software, Open,Source Softwares, Open,Tool, Software,Tools, Software
D015180 Electrophoresis, Gel, Two-Dimensional Electrophoresis in which a second perpendicular electrophoretic transport is performed on the separate components resulting from the first electrophoresis. This technique is usually performed on polyacrylamide gels. Gel Electrophoresis, Two-Dimensional,Polyacrylamide Gel Electrophoresis, Two-Dimensional,2-D Gel Electrophoresis,2-D Polyacrylamide Gel Electrophoresis,2D Gel Electrophoresis,2D PAGE,2D Polyacrylamide Gel Electrophoresis,Electrophoresis, Gel, 2-D,Electrophoresis, Gel, 2D,Electrophoresis, Gel, Two Dimensional,Polyacrylamide Gel Electrophoresis, 2-D,Polyacrylamide Gel Electrophoresis, 2D,Two Dimensional Gel Electrophoresis,2 D Gel Electrophoresis,2 D Polyacrylamide Gel Electrophoresis,Electrophoresis, 2-D Gel,Electrophoresis, 2D Gel,Electrophoresis, Two-Dimensional Gel,Gel Electrophoresis, 2-D,Gel Electrophoresis, 2D,Gel Electrophoresis, Two Dimensional,PAGE, 2D,Polyacrylamide Gel Electrophoresis, 2 D,Polyacrylamide Gel Electrophoresis, Two Dimensional,Two-Dimensional Gel Electrophoresis
D016208 Databases, Factual Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references. Databanks, Factual,Data Banks, Factual,Data Bases, Factual,Data Bank, Factual,Data Base, Factual,Databank, Factual,Database, Factual,Factual Data Bank,Factual Data Banks,Factual Data Base,Factual Data Bases,Factual Databank,Factual Databanks,Factual Database,Factual Databases
D016247 Information Storage and Retrieval Organized activities related to the storage, location, search, and retrieval of information. Information Retrieval,Data Files,Data Linkage,Data Retrieval,Data Storage,Data Storage and Retrieval,Information Extraction,Information Storage,Machine-Readable Data Files,Data File,Data File, Machine-Readable,Data Files, Machine-Readable,Extraction, Information,Files, Machine-Readable Data,Information Extractions,Machine Readable Data Files,Machine-Readable Data File,Retrieval, Data,Storage, Data
D057225 Data Mining Use of sophisticated analysis tools to sort through, organize, examine, and combine large sets of information. Text Mining,Mining, Data,Mining, Text
D020407 Internet A loose confederation of computer communication networks around the world. The networks that make up the Internet are connected through several backbone networks. The Internet grew out of the US Government ARPAnet project and was designed to facilitate information exchange. World Wide Web,Cyber Space,Cyberspace,Web, World Wide,Wide Web, World

Related Publications

Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
SPIRS: a Web-based image retrieval system for large biomedical databases.
April 2009, International journal of medical informatics,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
Literature-based biomedical image classification and retrieval.
January 2015, Computerized medical imaging and graphics : the official journal of the Computerized Medical Imaging Society,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
[A web-based biomedical image mosaicing system].
November 2006, Zhongguo yi liao qi xie za zhi = Chinese journal of medical instrumentation,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
G-Bean: an ontology-graph based web tool for biomedical literature retrieval.
January 2014, BMC bioinformatics,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
Content-based image retrieval for large biomedical image archives.
January 2004, Studies in health technology and informatics,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
SPIRS: a framework for content-based image retrieval from large biomedical databases.
January 2007, Studies in health technology and informatics,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
MeQryEP: A Texture Based Descriptor for Biomedical Image Retrieval.
January 2022, Journal of healthcare engineering,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
Web-based acquisition, storage, and retrieval of biomedical signals.
January 2001, IEEE engineering in medicine and biology magazine : the quarterly magazine of the Engineering in Medicine & Biology Society,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
HubMed: a web-based biomedical literature search interface.
July 2006, Nucleic acids research,
Manuela Giordano, and Massimo Natale, and Moreno Cornaz, and Andrea Ruffino, and Dario Bonino, and Enrico M Bucci
Exploring the use of image text for biomedical literature retrieval.
November 2008, AMIA ... Annual Symposium proceedings. AMIA Symposium,
Copied contents to your clipboard!