Polyp vascular patterns are key to categorizing colorectal cancer malignancy. These patterns are typically observed in situ from specialized narrow-band images (NBI). Nonetheless, such vascular characterization is lost from standard colonoscopies (the primary attention mechanism). Besides, even for NBI observations, the categorization remains biased for expert observations, reporting errors in classification from 59.5% to 84.2%. This work introduces an end-to-end computational strategy to enhance in situ standard colonoscopy observations, including vascular patterns typically observed from NBI mechanisms. These retrieved synthetic images are achieved by adjusting a deep representation under a non-aligned translation task from optical colonoscopy (OC) to NBI. The introduced scheme includes an architecture to discriminate enhanced neoplastic patterns achieving a remarkable separation into the embedding representation. The proposed approach was validated in a public dataset with a total of 76 sequences, including standard optical sequences and the respective NBI observations. The enhanced optical sequences were automatically classified among adenomas and hyperplastic samples achieving an F1-score of 0.86%. To measure the sensibility capability of the proposed approach, serrated samples were projected to the trained architecture. In this experiment, statistical differences from three classes with a ρ-value <0.05 were reported, following a Mann-Whitney U test. This work showed remarkable polyp discrimination results in enhancing OC sequences regarding typical NBI patterns. This method also learns polyp class distributions under the unpaired criteria (close to real practice), with the capability to separate serrated samples from adenomas and hyperplastic ones.
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http://dx.doi.org/10.1016/j.compbiomed.2024.108008 | DOI Listing |
Nat Mach Intell
September 2024
IBM Research Europe, Rüschlikon, Switzerland.
Understanding the spatial heterogeneity of tumours and its links to disease initiation and progression is a cornerstone of cancer biology. Presently, histopathology workflows heavily rely on hematoxylin and eosin and serial immunohistochemistry staining, a cumbersome, tissue-exhaustive process that results in non-aligned tissue images. We propose the VirtualMultiplexer, a generative artificial intelligence toolkit that effectively synthesizes multiplexed immunohistochemistry images for several antibody markers (namely AR, NKX3.
View Article and Find Full Text PDFJ Pharmacol Toxicol Methods
July 2024
Division of Pharmacology, National Institute of Health Sciences, 3-25-26 Tonomachi, Kawasaki-ku, Kawasaki-shi, Kanagawa 210-9501, Japan. Electronic address:
Introduction: Cardiac safety assessment, such as lethal arrhythmias and contractility dysfunction, is critical during drug development. Human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) have been shown to be useful in predicting drug-induced proarrhythmic risk through international validation studies. Although cardiac contractility is another key function, fit-for-purpose hiPSC-CMs in evaluating drug-induced contractile dysfunction remain poorly understood.
View Article and Find Full Text PDFComput Biol Med
March 2024
Biomedical Imaging, Vision and Learning Laboratory (BIVL(2)ab), Universidad Industrial de Santander (UIS), Colombia. Electronic address:
Polyp vascular patterns are key to categorizing colorectal cancer malignancy. These patterns are typically observed in situ from specialized narrow-band images (NBI). Nonetheless, such vascular characterization is lost from standard colonoscopies (the primary attention mechanism).
View Article and Find Full Text PDFBMC Bioinformatics
November 2023
INRAE, PROBE Research Infrastructure, BIBS Facility, 44300, Nantes, France.
Background: In proteomics, the interpretation of mass spectra representing peptides carrying multiple complex modifications remains challenging, as it is difficult to strike a balance between reasonable execution time, a limited number of false positives, and a huge search space allowing any number of modifications without a priori. The scientific community needs new developments in this area to aid in the discovery of novel post-translational modifications that may play important roles in disease.
Results: To make progress on this issue, we implemented SpecGlobX (SpecGlob eXTended to eXperimental spectra), a standalone Java application that quickly determines the best spectral alignments of a (possibly very large) list of Peptide-to-Spectrum Matches (PSMs) provided by any open modification search method, or generated by the user.
Med Image Anal
December 2023
Department of Computer Science, Aalto University, Finland.
Cross-modality image synthesis is an active research topic with multiple medical clinically relevant applications. Recently, methods allowing training with paired but misaligned data have started to emerge. However, no robust and well-performing methods applicable to a wide range of real world data sets exist.
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