Ortega-Legarreta Asier, Palomino-Echeverria Sara, Huergo Estefania, Lagani Vincenzo, Kiani Narsis A, Rautou Pierre-Emmanuel, Picola Nuria Planell, Tegner Jesper, Gomez-Cabrero David
Unit of Translational Bioinformatics, Navarrabiomed-Fundación Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain.
Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia.
PLoS Comput Biol. 2024 Dec 13;20(12):e1012656. doi: 10.1371/journal.pcbi.1012656. eCollection 2024 Dec.
In the era of precision medicine, it is necessary to understand heterogeneity among patients with complex diseases to improve personalized prevention and management strategies. Here, we introduce ClustAll, a Bioconductor package designed for unsupervised patient stratification using clinical data. ClustAll is based on the previously validated methodology ClustAll, a clustering framework that effectively handles intricacies in clinical data, including mixed data types, missing values, and collinearity. Additionally, ClustAll stands out in its ability to identify multiple patient stratifications within the same population while ensuring their robustness. The updated implementation of ClustAll features S4 classes, parallel computing for enhanced computational efficiency, and user-friendly tools for exploring and comparing stratifications against clinical phenotypes. The performance of ClustAll has been validated using two public clinical datasets, confirming its effectiveness in patient stratification and highlighting its potential impact on clinical management. In summary, ClustAll is a powerful tool for patient stratification in personalized medicine.
在精准医学时代，有必要了解复杂疾病患者之间的异质性，以改进个性化预防和管理策略。在此，我们介绍ClustAll，这是一个用于使用临床数据进行无监督患者分层的Bioconductor软件包。ClustAll基于先前经过验证的方法ClustAll，这是一个聚类框架，可有效处理临床数据中的复杂情况，包括混合数据类型、缺失值和共线性。此外，ClustAll在能够在同一人群中识别多个患者分层并确保其稳健性方面表现突出。ClustAll的更新实现具有S4类、用于提高计算效率的并行计算以及用于探索和比较分层与临床表型的用户友好工具。ClustAll的性能已通过两个公共临床数据集进行了验证，证实了其在患者分层方面的有效性，并突出了其对临床管理的潜在影响。总之，ClustAll是个性化医学中用于患者分层的强大工具。
