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Oasis 2: improved online analysis of small RNA-seq data.
Rahman RU, Gautam A, Bethune J, Sattar A, Fiosins M, Magruder DS, Capece V, Shomroni O, Bonn S. Rahman RU, et al. Among authors: magruder ds. BMC Bioinformatics. 2018 Feb 14;19(1):54. doi: 10.1186/s12859-018-2047-z. BMC Bioinformatics. 2018. PMID: 29444641 Free PMC article.
SEAweb: the small RNA Expression Atlas web application.
Rahman RU, Liebhoff AM, Bansal V, Fiosins M, Rajput A, Sattar A, Magruder DS, Madan S, Sun T, Gautam A, Heins S, Liwinski T, Bethune J, Trenkwalder C, Fluck J, Mollenhauer B, Bonn S. Rahman RU, et al. Among authors: magruder ds. Nucleic Acids Res. 2020 Jan 8;48(D1):D204-D219. doi: 10.1093/nar/gkz869. Nucleic Acids Res. 2020. PMID: 31598718 Free PMC article.
Interactive gene networks with KNIT.
Magruder DS, Liebhoff AM, Bethune J, Bonn S. Magruder DS, et al. Bioinformatics. 2021 Apr 19;37(2):276-278. doi: 10.1093/bioinformatics/btaa1107. Bioinformatics. 2021. PMID: 33416865
Defining and benchmarking open problems in single-cell analysis.
Luecken MD, Gigante S, Burkhardt DB, Cannoodt R, Strobl DC, Markov NS, Zappia L, Palla G, Lewis W, Dimitrov D, Vinyard ME, Magruder DS, Andersson A, Dann E, Qin Q, Otto DJ, Klein M, Botvinnik OB, Deconinck L, Waldrant K; Open Problems Jamboree Members; Bloom JM, Pisco AO, Saez-Rodriguez J, Wulsin D, Pinello L, Saeys Y, Theis FJ, Krishnaswamy S. Luecken MD, et al. Among authors: magruder ds. Res Sq [Preprint]. 2024 Apr 4:rs.3.rs-4181617. doi: 10.21203/rs.3.rs-4181617/v1. Res Sq. 2024. PMID: 38645152 Free PMC article. Preprint.
Parasympathetic neurons derived from human pluripotent stem cells model human diseases and development.
Wu HF, Saito-Diaz K, Huang CW, McAlpine JL, Seo DE, Magruder DS, Ishan M, Bergeron HC, Delaney WH, Santori FR, Krishnaswamy S, Hart GW, Chen YW, Hogan RJ, Liu HX, Ivanova NB, Zeltner N. Wu HF, et al. Among authors: magruder ds. Cell Stem Cell. 2024 May 2;31(5):734-753.e8. doi: 10.1016/j.stem.2024.03.011. Epub 2024 Apr 11. Cell Stem Cell. 2024. PMID: 38608707