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Biology subjects

Amrani, A.

Publications and source records attributed to Amrani, A..

2 recordsLinked to original sources

Deep Learning Detection and Classification of Red Blood Cells: Towards a Universal Dataset

We evaluate emerging machine learning models for pattern recognition, focusing on the YOLOv11 architecture for detecting and classifying red blood cell shapes. Our analysis targets two characteristic morphologies observed under flow: slipper and parachute. A key challenge in this task is the development of a robust and diverse dataset. To address this, we employ synthetic image generation using a cut-and-paste approach, introducing variations in cell overlap and arrangements of microfluidic channels disposition to alleviate data scarcity and reduce cross-dataset bias. We generate these datasets with U-Net and Cellpose segmentation models, and rigorously assess YOLOv11 performance on two benchmarks: (i) a controlled dataset for evaluating classification accuracy, and (ii) a challenging, visually heterogeneous dataset for assessing generalization. Results show that the model achieves high precision for distinct cell types in controlled settings, but exhibits reduced performance on the unseen dataset, highlighting a trade-off between specialized accuracy and broad applicability in complex microscopy scenarios.

bioengineering↗

Tar patties are hotspots of hydrocarbon turnover and nitrogen fixation during a nearshore pollution event in the oligotrophic southeastern Mediterranean Sea

Weathered oil, that is, tar, forms hotspots of hydrocarbon degradation by complex biota in marine environment. Here, we used marker gene sequencing and metagenomics to characterize the communities of bacteria, archaea and eukaryotes that colonized tar patties and control samples (wood, plastic), collected in the littoral following an offshore spill in the warm, oligotrophic southeastern Mediterranean Sea (SEMS). We show aerobic and anaerobic hydrocarbon catabolism niches on tar interior and exterior, linking carbon, sulfur and nitrogen cycles. Alongside aromatics and larger alkanes, short-chain alkanes appear to fuel dominant populations, both the aerobic clade UBA5335 (Macondimonas), anaerobic Syntropharchaeales, and facultative Mycobacteriales. Most key organisms, including the hydrocarbon degraders and cyanobacteria, have the potential to fix dinitrogen, potentially alleviating the nitrogen limitation of hydrocarbon degradation in the SEMS. We highlight the complexity of these tar-associated communities, where bacteria, archaea and eukaryotes co-exist, exchanging metabolites and competing for resources and space. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=68 SRC="FIGDIR/small/546273v1_ufig1.gif" ALT="Figure 1"> View larger version (43K): org.highwire.dtl.DTLVardef@7ff1eborg.highwire.dtl.DTLVardef@1e39012org.highwire.dtl.DTLVardef@107c307org.highwire.dtl.DTLVardef@95073f_HPS_FORMAT_FIGEXP M_FIG C_FIG

ecology↗