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.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.1002/elps.201300085 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Application two-dimensional gel electrophoresis coupled with LC-MS/MS to identify candidate serodiagnostic antigens for early detection Psoroptes ovis var. cuniculi infection.
Vet Parasitol
December 2024
Department of Parasitology, College of Veterinary Medicine, Sichuan Agricultural University, Chengdu 611130, China. Electronic address:
Currently, the 'gold standard' for diagnosis of Psoroptes ovis infections is detecting Psoroptes mites or eggs in skin scrapings under microscopy, but it is prone to be mis-diagnosed for detecting early infection of P. ovis. Hence, seeking a reliable diagnostic technique for detecting early-stage mite infections is extremely desirable.
View Article and Find Full Text PDFProtein "purity," proteoforms, and the albuminome: critical observations on proteome and systems complexity.
Front Cell Dev Biol
December 2024
Proteomics, Lipidomics and Metabolomics Core Facility, School of Life Sciences, Faculty of Science, University of Technology Sydney, Ultimo, NSW, Australia.
Introduction: The identification of effective, selective biomarkers and therapeutics is dependent on truly deep, comprehensive analysis of proteomes at the proteoform level.
Methods: Bovine serum albumin (BSA) isolated by two different protocols, cold ethanol fractionation and heat shock fractionation, was resolved and identified using Integrative Top-down Proteomics, the tight coupling of two-dimensional gel electrophoresis (2DE) with liquid chromatography and tandem mass spectrometry (LC-MS/MS).
Results And Discussion: Numerous proteoforms were identified in both "purified" samples, across a broad range of isoelectric points and molecular weights.
Assessment of protein profile in vitreous samples of patients with epiretinal membrane by proteomic approaches.
Exp Eye Res
January 2025
Kocaeli University Faculty of Medicine, Department of Medical Biology, Kocaeli, 41100, Turkey. Electronic address:
This study aims to characterize idiopathic epiretinal membrane (iERM) using proteomic analysis to enhance diagnosis and treatment strategies. In a prospective case-control clinical trial, vitreous fluids (VF) from twelve iERM patients were collected during surgery and analyzed by 2DE-based MALDI TOF-TOF MS/MS. PANTHER and STRING analyses were performed to investigate the biological relationships between the identified proteins and to determine relevant cellular pathways.
View Article and Find Full Text PDFProtein Extraction Methods Suitable for Muscle Tissue Proteomic Analysis.
Proteomes
September 2024
Functional Proteomics Lab., Department Life Sciences, University of Siena, Via Aldo Moro 2, 53100 Siena, Italy.
Muscle tissue is one of the most dynamic and plastic tissues of the mammalian body and covers different roles, such as force generation and metabolic control. Muscular proteomics provides an important opportunity to reveal the molecular mechanisms behind muscle pathophysiology. To ensure successful proteomic analysis, it is necessary to have an efficient and reproducible protein extraction method.
View Article and Find Full Text PDFComparative Proteomic Analysis of Wild and Cultivated Amaranth Species Seeds by 2-DE and ESI-MS/MS.
Plants (Basel)
September 2024
Instituto Potosino de Investigación Científica y Tecnológica A. C., San Luis Potosí 78216, Mexico.
Amaranth is a promising staple food that produces seeds with excellent nutritional quality. Although cultivated species intended for grain production have interesting agronomic traits, relatively little is known about wild species, which can prosper in diverse environments and could be a rich genetic source for crop improvement. This work focuses on the proteomic comparison between the seeds of wild and cultivated amaranth species using polarity-based protein extraction and two-dimensional gel electrophoresis.
View Article and Find Full Text PDFWant AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!