Mohammad Lotfollahi

Aug 9, 2024 | nature.com | Mohammad Lotfollahi

Inspired by the success of large-scale machine learning models in natural language, several groups are adapting these models for cellular data using massive single-cell datasets.

Aug 17, 2023 | cell.com | Mohammad Lotfollahi |Fabian J. Theis |Rahul Satija

GlossaryMultimodal reference: a reference atlas that is built using more than one modality (for example, RNA and ATAC). Multimodal omics: technologies capable of capturing multiple data types from the same sample. Supervised vs. unsupervised learning: in this context, data integration while leveraging cell-type labels in the reference and query dataset (supervised) compared with the scenario in which the method has no access to these labels (unsupervised).

Feb 2, 2023 | nature.com | Mohammad Lotfollahi |Alexander V. Misharin

AbstractThe increasing availability of large-scale single-cell atlases has enabled the detailed description of cell states. In parallel, advances in deep learning allow rapid analysis of newly generated query datasets by mapping them into reference atlases. However, existing data transformations learned to map query data are not easily explainable using biologically known concepts such as genes or pathways.