Single-cell epigenomics: Recording the past and predicting the future von Kelsey, Gavin, Stegle, Oliver, Reik, Wolf

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Deep learning for computational biology von Angermueller, Christof, Pärnamaa, Tanel, Parts, Leopold, Stegle, Oliver

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Heavy-tailed prior distributions for sequence count data: removing the noise and preserving large differences von Zhu, Anqi, Ibrahim, Joseph G, Love, Michael I

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Cell2location maps fine-grained cell types in spatial transcriptomics von Kleshchevnikov, Vitalii, Shmatko, Artem, Dann, Emma, Aivazidis, Alexander, King, Hamish W., Li, Tong, Elmentaite, Rasa, Lomakin, Artem, Kedlian, Veronika, Gayoso, Adam, Jain, Mika Sarkin, Park, Jun Sung, Ramona, Lauma, Tuck, Elizabeth, Arutyunyan, Anna, Vento-Tormo, Roser, Gerstung, Moritz, James, Louisa, Stegle, Oliver, Bayraktar, Omer Ali

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Effects of the COVID-19 pandemic on life scientists von Korbel, Jan O., Stegle, Oliver

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MetaboAnalystR: an R package for flexible and reproducible analysis of metabolomics data von Chong, Jasmine, Xia, Jianguo

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MUON: multimodal omics analysis framework von Bredikhin, Danila, Kats, Ilia, Stegle, Oliver

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Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference von Huang, Yuanhua, McCarthy, Davis J, Stegle, Oliver

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Computational and analytical challenges in single-cell transcriptomics von Stegle, Oliver, Teichmann, Sarah A., Marioni, John C.

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DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning von Angermueller, Christof, Lee, Heather J, Reik, Wolf, Stegle, Oliver

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SynergyFinder: a web application for analyzing drug combination dose-response matrix data von Ianevski, Aleksandr, He, Liye, Aittokallio, Tero, Tang, Jing

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MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data von Argelaguet, Ricard, Arnol, Damien, Bredikhin, Danila, Deloro, Yonatan, Velten, Britta, Marioni, John C, Stegle, Oliver

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IceR improves proteome coverage and data completeness in global and single-cell proteomics von Kalxdorf, Mathias, Müller, Torsten, Stegle, Oliver, Krijgsveld, Jeroen

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Multi‐Omics Factor Analysis—a framework for unsupervised integration of multi‐omics data sets von Argelaguet, Ricard, Velten, Britta, Arnol, Damien, Dietrich, Sascha, Zenz, Thorsten, Marioni, John C, Buettner, Florian, Huber, Wolfgang, Stegle, Oliver

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Computational principles and challenges in single-cell data integration von Argelaguet, Ricard, Cuomo, Anna S. E., Stegle, Oliver, Marioni, John C.

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FastSpar: rapid and scalable correlation estimation for compositional data von Watts, Stephen C, Ritchie, Scott C, Inouye, Michael, Holt, Kathryn E

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Efficient analysis of large-scale genome-wide data with two R packages: bigstatsr and bigsnpr von Privé, Florian, Aschard, Hugues, Ziyatdinov, Andrey, Blum, Michael G B

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FlashPCA2: principal component analysis of Biobank-scale genotype datasets von Abraham, Gad, Qiu, Yixuan, Inouye, Michael

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Computational drug repositioning using low-rank matrix approximation and randomized algorithms von Luo, Huimin, Li, Min, Wang, Shaokai, Liu, Quan, Li, Yaohang, Wang, Jianxin

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Identifying temporal and spatial patterns of variation from multimodal data using MEFISTO von Velten, Britta, Braunger, Jana M., Argelaguet, Ricard, Arnol, Damien, Wirbel, Jakob, Bredikhin, Danila, Zeller, Georg, Stegle, Oliver

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