LIGER2: Scalable Single-Cell Integration with On-Disk Datasets
Yichen Wang, Andrew Robbins, Gaurav T. Gadhvi, Joshua D. Welch
LIGER2 improves single-cell data integration by enhancing scalability and efficiency while preserving biological variation.
Author
Northwestern UniversityORCID 0000-0002-4379-2824Unclaimed ORCID profile · follow to get notified of new preprints
7 papers
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Yichen Wang, Andrew Robbins, Gaurav T. Gadhvi, Joshua D. Welch
LIGER2 improves single-cell data integration by enhancing scalability and efficiency while preserving biological variation.
Yidan Wang, Shang-Yang Chen, Philip Homan…·Deborah R. Winter
The paper identifies four distinct synovial macrophage populations in RA models and shows conserved inflammatory responses across conditions.
Jialin Liu, Hiroaki Manabe, Weizhou Qian…·Joshua D. Welch
CytoSignal detects and quantifies ligand-receptor signaling interactions at cellular resolution from spatial transcriptomic data, enabling spatial gradient analysis and temporal dynamics prediction.
Gal Finer, George Yacu, Mohammad Daud Khan…·Deborah R. Winter
This study uses scRNA-seq to show that Tcf21 is essential for Foxd1+ stromal progenitor differentiation during kidney development, with loss of Tcf21 causing stromal subpopulation depletion and emergence of Emcn-expressing cells.
Nikolay S. Markov, Ziyou Ren, Karolina J. Senkow…·Karen M. Ridge
The paper examines alveolar T cell responses in SARS-CoV-2 pneumonia patients, finding that early interferon signaling and targeting of structural proteins correlate with better clinical outcomes.
Anna Woo Bentz, Monica A. Gutierrez, Dessi Loukov…·Deborah R. Winter
This study identifies distinct TNF-dependent aging signatures in monocyte subpopulations, showing that aging affects their transcriptional regulation differently.
Hadijat M. Makinde, Julia L.M. Dunn, Gaurav T. Gadhvi…·Deborah R. Winter
This study identifies three monocyte transcriptional subgroups in SSc patients that correlate with disease activity, particularly lung function.