Cell classification based on histopathology images is crucial for tumor recognition and cancer diagnosis. Using deep learning, classification accuracy is hugely improved. Semi-supervised learning is an advanced deep learning approach that uses both labeled and unlabeled data. However, complex datasets that comprise diverse patterns may drive models towards learning harmful features. Therefore, it is useful to involve human guidance during training. Hence, we propose a mixed-supervised method incorporating semi-supervision and "human-in-the-loop" for cell classification. We design a sample selection mechanism that assigns highly confident unlabeled samples to automatic semi-supervised optimization and unreliable ones for online annotation correction. We use prior human annotations to pretrain the backbone and trustworthy pseudo labels and online human annotations to fine-tune the model for accurate cell classification. Experimental results show that the mixed-supervised model reaches overall accuracies as high as 86.56%, 99.33% and 74.12% on LUSC, BloodCell, and PanNuke datasets, respectively.
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http://dx.doi.org/10.3390/s25041207 | DOI Listing |
Semin Diagn Pathol
March 2025
Department of Pathology, Baptist Hospital of Miami, Baptist Health System, Miami, FL, USA.
Non-invasive lobular neoplasia (LN) encompasses atypical lobular hyperplasia (ALH), classic lobular carcinoma in situ (CLCIS), florid lobular carcinoma in situ (FLCIS), and pleomorphic lobular carcinoma in situ (PLCIS). Lobular neoplasia is a neoplastic epithelial proliferation of the terminal duct lobular unit. A defining feature is discohesion due to the loss of E-cadherin, a protein that facilitates cell-to-cell adhesion.
View Article and Find Full Text PDFBioinformatics
March 2025
Department of Statistics, Hunan University, Changsha, 410000, China.
Motivation: Inferring gene networks provides insights into biological pathways and functional relationships among genes. When gene expression samples exhibit heterogeneity, they may originate from unknown subtypes, prompting the utilization of mixture Gaussian graphical model for simultaneous subclassification and gene network inference. However, this method overlooks the heterogeneity of network relationships across subtypes and does not sufficiently emphasize shared relationships.
View Article and Find Full Text PDFElife
March 2025
Department of Human Genetics, University of California, Los Angeles, Los Angeles, United States.
Expression quantitative trait loci (eQTLs) provide a key bridge between noncoding DNA sequence variants and organismal traits. The effects of eQTLs can differ among tissues, cell types, and cellular states, but these differences are obscured by gene expression measurements in bulk populations. We developed a one-pot approach to map eQTLs in by single-cell RNA sequencing (scRNA-seq) and applied it to over 100,000 single cells from three crosses.
View Article and Find Full Text PDFInt J Gynecol Pathol
March 2025
Department of Pathology, National University Health System.
Vulval leiomyosarcomas with variant features are rare with limited data available in the literature compared to their uterine counterparts. Gynecologic leiomyosarcoma with nuclear receptor 4A3 (NR4A3) gene fusion is a rare, recently described neoplasm that has been reported mostly in the uterus and rarely in the pelvis. Herein, we report the first case of this entity occurring as a primary vulva tumor in a 46-year-old patient.
View Article and Find Full Text PDFJ Gen Virol
March 2025
Institut Pasteur, Université Paris Cité, CNRS UMR6047, Archaeal Virology Unit, Paris, France.
Bacilladnaviruses are single-stranded DNA viruses that infect diatoms that, so far, have been primarily identified in marine organisms and environments. Using a viral metagenomics approach, we discovered 13 novel bacilladnaviruses originating from samples of mud-flat snail (; =3 genomes) and benthic sediments (=10 genomes) collected from the Avon-Heathcote Estuary in New Zealand. Comparative genomics and phylogenetic analysis of the new bacilladnavirus sequences in the context of the previously classified members of the family helped refine and further expand the taxonomy.
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