Variation in the metagenomic analysis of fecal microbiome composition calls for a standardized operating approach by Zhilu Xu, Yun Kit Yeoh, Hein M. Tun, Na Fei, Jingwan Zhang, Mark Morrison, Michael A. Kamm, Jun Yu, Francis Ka Leung Chan, Siew C. Ng

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Semi-supervised contrastive learning variational autoencoder Integrating single-cell multimodal mosaic datasets by Zihao Wang, Zeyu Wu, Minghua Deng

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CYCLONE: recycle contrastive learning for integrating single-cell gene expression data by Han Ji, Xinwei He, Hongwei Li

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Composite quantile regression approach to batch effect correction in microbiome data by Jiwon Park, Taesung Park

Subjects: “…batch effect…”
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Multisite assessment of reproducibility in high‐content cell migration imaging data by Jianjiang Hu, Xavier Serra‐Picamal, Gert‐Jan Bakker, Marleen Van Troys, Sabina Winograd‐Katz, Nil Ege, Xiaowei Gong, Yuliia Didan, Inna Grosheva, Omer Polansky, Karima Bakkali, Evelien Van Hamme, Merijn van Erp, Manon Vullings, Felix Weiss, Jarama Clucas, Anna M Dowbaj, Erik Sahai, Christophe Ampe, Benjamin Geiger, Peter Friedl, Matteo Bottai, Staffan Strömblad

Subjects: “…batch effect removal…”
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SCITUNA: single-cell data integration tool using network alignment by Aissa Houdjedj, Yacine Marouf, Mekan Myradov, Süleyman Onur Doğan, Burak Onur Erten, Oznur Tastan, Cesim Erten, Hilal Kazan

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Accurate RNA velocity estimation based on multibatch network reveals complex lineage in batch scRNA-seq data by Zhaoyang Huang, Xinyang Guo, Jie Qin, Lin Gao, Fen Ju, Chenguang Zhao, Liang Yu

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Harmonization for Parkinson’s Disease Multi-Dataset T1 MRI Morphometry Classification by Mohammed Saqib, Silvina G. Horovitz

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Correction of Batch Effect in Gut Microbiota Profiling of ASD Cohorts from Different Geographical Origins by Matteo Scanu, Federica Del Chierico, Riccardo Marsiglia, Francesca Toto, Silvia Guerrera, Giovanni Valeri, Stefano Vicari, Lorenza Putignani

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FedscGen: privacy-preserving federated batch effect correction of single-cell RNA sequencing data by Mohammad Bakhtiari, Stefan Bonn, Fabian Theis, Olga Zolotareva, Jan Baumbach

Subjects: “…Batch effect correction…”
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HarmonizR: blocking and singular feature data adjustment improve runtime efficiency and data preservation by Simon Schlumbohm, Julia E. Neumann, Philipp Neumann

Subjects: “…Batch effects…”
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Diagnostics and correction of batch effects in large‐scale proteomic studies: a tutorial by Jelena Čuklina, Chloe H Lee, Evan G Williams, Tatjana Sajic, Ben C Collins, María Rodríguez Martínez, Varun S Sharma, Fabian Wendt, Sandra Goetze, Gregory R Keele, Bernd Wollscheid, Ruedi Aebersold, Patrick G A Pedrioli

Subjects: “…batch effects…”
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Deep feature batch correction using ComBat for machine learning applications in computational pathology by Pierre Murchan, Pilib Ó Broin, Anne-Marie Baird, Orla Sheils, Stephen P Finn

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Applications of gene pair methods in clinical research: advancing precision medicine by Changchun Wu, Xueqin Xie, Xin Yang, Mengze Du, Hao Lin, Jian Huang

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stGuide advances label transfer in spatial transcriptomics through attention-based supervised graph representation learning by Yupeng Xu, Hao Dai, Jinwang Feng, Keren Xu, Qiu Wang, Pingting Gao, Chunman Zuo, Chunman Zuo

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UniMap: Type‐Level Integration Enhances Biological Preservation and Interpretability in Single‐Cell Annotation by Haitao Hu, Yue Guo, Fujing Ge, Hao Yin, Hao Zhang, Zhesheng Zhou, Fangjie Yan, Qing Ye, Jialu Wu, Ji Cao, Chang‐Yu Hsieh, Bo Yang

Subjects: “…batch effects…”
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