Biologically informed deep learning to query gene programs in single-cell atlases
- Mohammad Lotfollahi, Sergei Rybakov, Karin Hrovatin, …, Carlos Talavera-López, Alexander V Misharin, Fabian J Theis
- Nat Cell Biol, 10.1038/s41556-022-01072-x
Isolation of Nuclei from Flash-frozen Liver Tissue for Single-cell Multiomics
- Mateusz Strzelecki, Kelvin Yin, Carlos Talavera-López, …, Kelvin Yin, Carlos Talavera-López, Celia P Martinez-Jimenez
- J Vis Exp, 10.3791/64792
Microevolution of Trypanosoma cruzi reveals hybridization and clonal mechanisms driving rapid genome diversification
- Gabriel Machado Matos, Michael D Lewis, Carlos Talavera-López, …, Louisa A Messenger, Michael A Miles, Björn Andersson
- Elife, 10.7554/elife.75237
A Python library for probabilistic analysis of single-cell omics data
- Adam Gayoso, Romain Lopez, Galen Xing, …, Michael I Jordan, Jeffrey Regier, Nir Yosef
- Nat Biotechnol, 10.1038/s41587-021-01206-w
Analysis of pir gene expression across the Plasmodium life cycle
- Timothy S Little, Deirdre A Cunningham, Audrey Vandomme, …, George Christophides, Adam J Reid, Jean Langhorne
- Malar J, 10.1186/s12936-021-03979-6
User-friendly, scalable tools and workflows for single-cell RNA-seq analysis
- Pablo Moreno, Ni Huang, Jonathan R Manning, …, Sarah Teichmann, Kerstin B Meyer, Irene Papatheodorou
- Nat Methods, 10.1038/s41592-021-01102-w
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics
- Gökcen Eraslan, Lisa Sikkema, Avinash Waghray, …, Wenjun Yan, William Zhao, Carly G K Ziegler
- Nat Med, 10.1038/s41591-020-01227-z
Cells of the adult human heart
- Monika Litviňuková, Carlos Talavera-López, Henrike Maatz, …, Michela Noseda, Norbert Hubner, Sarah A Teichmann
- Nature, 10.1038/s41586-020-2797-4
Transcriptome analysis of blood and spleen in virulent and avirulent mouse malaria infection
- Yuancun Zhao, Caroline Hosking, Deirdre Cunningham, Jean Langhorne, Jing-Wen Lin
- Sci Data, 10.1038/s41597-020-00592-1
Activation of a neural stem cell transcriptional program in parenchymal astrocytes
- Jens P Magnusson, Margherita Zamboni, Giuseppe Santopolo, …, Carlos Talavera-Lopez, Björn Andersson, Jonas Frisén
- Elife, 10.7554/elife.59733
SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes
- Ni Huang, Christophe Bécavin, Marijn Berg, …, Kaylee B Worlock, Masahiro Yoshida, Josephine L Barnes
- Nat Med, 10.1038/s41591-020-0868-6
Comparison of whole blood and spleen transcriptional signatures over the course of an experimental malaria infection
- Carlos Talavera-López, Yaw Bediako, Jing-Wen Lin, John Joseph Valletta, Mario Recker, Jean Langhorne
- Sci Rep, 10.1038/s41598-019-52388-y
Expression Atlas update: from tissues to single cells
- Irene Papatheodorou, Pablo Moreno, Jonathan Manning, …, Sarah Teichmann, Juan Antonio Vizcaino, Alvis Brazma
- Nucleic Acids Res, 10.1093/nar/gkz947
Immunology Driven by Large-Scale Single-Cell Sequencing
- Tomás Gomes, Sarah A Teichmann, Carlos Talavera-López
- Trends Immunol, 10.1016/j.it.2019.09.004
A cellular census of human lungs identifies novel cell states in health and in asthma
- Felipe A Vieira Braga, Gozde Kar, Marijn Berg, …, Maarten van den Berge, Martijn C Nawijn, Sarah A Teichmann
- Nat Med, 10.1038/s41591-019-0468-5