Early lifespan prediction in <i>Caenorhabditis elegans</i> via contrastive learning and channel attention

Early lifespan prediction in <i>Caenorhabditis</i> <i>elegans</i> faces the challenges of indistinct discriminative signals, subtle and localized key features, difficulty in data annotation, and poor generalization. We propose Contrastive Learning-guided Channel Attention Modulation (CLCAM), in which supervised contrastive learning clusters individuals with the same lifespan and separates different classes. The resulting embedding drives channel-wise gains that are additively coupled to the backbone, thereby amplifying subtle morphological cues. At inference, the contrastive branch is removed, keeping FLOPs essentially unchanged with a modest runtime cost on our hardware. On a public dataset, CLCAM achieves an AUC-ROC of 0.84, showing a consistent improvement over the EfficientNet-B3 baseline (0.82) and a substantial gain over the prior WormNet model (0.61). Grad-CAM indicates attention focused on the pharynx and body-wall musculature, supporting the biological plausibility of the model's decisions. CLCAM offers a clear, low-overhead paradigm for early lifespan phenotyping. CLCAM code is available at https://github.com/JMM502/CLCAM/tree/master/clcam.

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Publication Details

Journal
Journal of Bioinformatics and Computational Biology
Published
2025-09-27
DOI
https://doi.org/10.1142/s0219720025500167
Primary Topic
Genetics, Aging, and Longevity in Model Organisms
Type
article
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article

Early lifespan prediction in Caenorhabditis elegans via contrastive learning and channel attention

Weiyang Chen, Miaomiao Jin, Yi Pan
Journal of Bioinformatics and Computational Biology
Genetics, Aging, and Longevity in Model Organisms
article

Early lifespan prediction in Caenorhabditis elegans via contrastive learning and channel attention

Weiyang Chen, Miaomiao Jin, Yi Pan
article en

Abstract

Early lifespan prediction in <i>Caenorhabditis</i> <i>elegans</i> faces the challenges of indistinct discriminative signals, subtle and localized key features, difficulty in data annotation, and poor generalization. We propose Contrastive Learning-guided Channel Attention Modulation (CLCAM), in which supervised contrastive learning clusters individuals with the same lifespan and separates different classes. The resulting embedding drives channel-wise gains that are additively coupled to the backbone, thereby amplifying subtle morphological cues. At inference, the contrastive branch is removed, keeping FLOPs essentially unchanged with a modest runtime cost on our hardware. On a public dataset, CLCAM achieves an AUC-ROC of 0.84, showing a consistent improvement over the EfficientNet-B3 baseline (0.82) and a substantial gain over the prior WormNet model (0.61). Grad-CAM indicates attention focused on the pharynx and body-wall musculature, supporting the biological plausibility of the model's decisions. CLCAM offers a clear, low-overhead paradigm for early lifespan phenotyping. CLCAM code is available at https://github.com/JMM502/CLCAM/tree/master/clcam.

Journal of Bioinformatics and Computational BiologyVol. 23(06)
Shenzhen University (CN), Qufu Normal University (CN), Shenzhen Institutes of Advanced Technology (CN), Shenzhen Technology University (CN)
Openalex Percentile: Top 77%
Genetics, Aging, and Longevity in Model Organisms
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