Like other scientific communities all across the globe, the Single Cell Community is committed to contribute with its research to help win the fight against the COVID-19 pandemic. Please find below recent (single cell) publications and other useful resources for COVID-19 research within the Single Cell community.

Publications

Schulte-Schrepping, J, Reusch, N, Paclik, D, Baßler, K, Schlickeiser, S, Zhang, B et al.Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment. Cell. 2020;182 (6):1419-1440.e23. doi: 10.1016/j.cell.2020.08.001. PubMed PMID:32810438

Sungnak, W, Huang, N, Bécavin, C, Berg, M, Queen, R, Litvinukova, M et al.SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes. Nat Med. 2020; 26(5):681-687. doi: 10.1038/s41591-020-0868-6. PubMed PIMD:32327758

Ziegler, CGK, Allon, SJ, Nyquist, SK, Mbano, IM, Miao, VN, Tzouanas, CN et al.SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues. Cell. 2020;181 (5):1016-1035.e19. doi: 10.1016/j.cell.2020.04.035. PubMed PMID:32413319

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Preprints:

Türei, D, Valdeolivas, A, Gul, L, Palacio-Escat, N, Ivanova, O, Gábor, A et al.. Integrated intra-and intercellular signaling knowledge for multicelullar omics analysis. BioRxiv. 2020. doi: 10.1101/2020.08.03.221242

Lotfollahi, M, Naghipourfar, M, Luecken, MD, Khajavi, M, Buttner, M, Avsec, Z et al.. Query to reference single-cell integration with transfer learning. BioRxiv. 2020. doi: 10.1101/2020.07.16.205997

Wyler, E, Mösbauer, K, Franke, V, Diag, A, Gottula, L T, Arsie, R et al.Bulk and single-cell gene expression profiling of SARS-CoV-2 infected human cell lines identifies molecular targets for therapeutic intervention. BioRxiv. 2020. doi: 10.1101/2020.05.05.079194

Muus, C, Luecken, MD, Eraslan, G, Waghray, A, Heimberg, G, Sikkema, L et al.. Integrated analyses of single-cell atlases reveal age, gender, and smoking status associations with cell type-specific expression of mediators of SARS-CoV-2 viral entry and highlights inflammatory programs in putative target cells. BioRxiv. 2020. doi: 10.1101/2020.04.19.049254

Hempel, L, Piehler, A, Pfaffl, MW, Molnar, J, Kirchner, B, Robert, S et al.. SARS-CoV-2 infections in cancer outpatients-Most infected patients are asymptomatic carriers without impact on chemotherapy. Cancer Med. 2020; :. doi: 10.1002/cam4.3435. PubMed PMID:33022856

Nelde, A, Bilich, T, Heitmann, JS, Maringer, Y, Salih, HR, Roerden, M et al.. SARS-CoV-2-derived peptides define heterologous and COVID-19-induced T cell recognition. Nat Immunol. 2020; :. doi: 10.1038/s41590-020-00808-x. PubMed PMID:32999467

Aliee, H, Massip, F, Qi, C, Stella de Biase, M, van Nijnatten, JL, Kersten, ETG et al.. Determinants of SARS-CoV-2 receptor gene expression in upper and lower airways. medRxiv. 2020; :. doi: 10.1101/2020.08.31.20169946. PubMed PMID:32909007

Dugas, M, Schrempf, IM, Ochs, K, Frömmel, C, Greulich, L, Neuhaus, P et al.. Association of contact to small children with a mild course of COVID-19. Int J Infect Dis. 2020;100 :314-315. doi: 10.1016/j.ijid.2020.09.003. PubMed PMID:32898672

Hollstein, T, Schulte, DM, Schulz, J, Glück, A, Ziegler, AG, Bonifacio, E et al.. Autoantibody-negative insulin-dependent diabetes mellitus after SARS-CoV-2 infection: a case report. Nat Metab. 2020;2 (10):1021-1024. doi: 10.1038/s42255-020-00281-8. PubMed PMID:32879473

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Preprints:

Warnat-Herresthal, S, Schultze, H, Shastry, KPL, Manamohan, S, Mukherjee, S, Garg, V et al.. Swarm Learning as a privacy-preserving machine learning approach for disease classification. BioRxiv. 2020. doi: 10.1101/2020.06.25.171009

Schmidt, N, Lareau, CA, Keshishian, H, Melanson, R, Zimmer, M, Kirschner, L et al.. A direct RNA-protein interaction atlas of the SARS-CoV-2 RNA in infected human cells. BioRxiv. 2020. doi: 10.1101/2020.07.15.204404

Stegmann, KM, Dickmanns, A, Gerber, S, Nikolova, V, Klemke, L, Manzini, V et al.. The folate antagonist methotrexate diminishes replication of the coronavirus SARS-CoV-2 and enhances the antiviral efficacy of remdesivir in cell culture models. BioRxiv. 2020. doi: 10.1101/2020.07.18.210013

Neufeldt, CJ, Cerikan, B, Cortese, M, Frankish, J, Lee, JY, Plociennikowska, A et al.. SARS-CoV-2 infection induces a pro-inflammatory cytokine response through cGAS-STING and NF-κB. BioRxiv. 2020. doi: 10.1101/2020.07.21.212639

Morel, B, Barbera, P, Czech, L, Bettisworth, B, Huebner, L, Lutteropp, S et al.. Phylogenetic analysis of SARS-CoV-2 data is difficult. BioRxiv. 2020. doi: 10.1101/2020.08.05.239046

Caniglia, JL, Asuthkar, S, Tsung, AJ, Guda, MR, Velpula, KK. Immunopathology of galectin-3: an increasingly promising target in COVID-19. F1000Res. 2020;9 :1078. doi: 10.12688/f1000research.25979.2. PubMed PMID:33082935

Liang, S, Dou, J, Iqbal, R, Chen, K. Batch-Corrected Distance Mitigates Temporal and Spatial Variability for Clustering and Visualization of Single-Cell Gene Expression Data. bioRxiv. 2020; :. doi: 10.1101/2020.10.08.332080. PubMed PMID:33052339

Menon, R, Otto, EA, Sealfon, R, Nair, V, Wong, AK, Theesfeld, CL et al.. SARS-CoV-2 receptor networks in diabetic and COVID-19 associated kidney disease. Kidney Int. 2020; :. doi: 10.1016/j.kint.2020.09.015. PubMed PMID:33038424

Wang, Y, Chen, L. Tissue distributions of antiviral drugs affect their capabilities of reducing viral loads in COVID-19 treatment. Eur J Pharmacol. 2020;889 :173634. doi: 10.1016/j.ejphar.2020.173634. PubMed PMID:33031797

Venkatakrishnan, AJ, Kayal, N, Anand, P, Badley, AD, Church, GM, Soundararajan, V et al.. Benchmarking evolutionary tinkering underlying human-viral molecular mimicry shows multiple host pulmonary-arterial peptides mimicked by SARS-CoV-2. Cell Death Discov. 2020;6 :96. doi: 10.1038/s41420-020-00321-y. PubMed PMID:33024578

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Databases, Tools and other Resources

Overview of resources for COVID-19 (single cell) research which are provided by members of the scientific community.