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Early alterations in the MCH system link aberrant neuronal activity and sleep disturbances in a mouse model of Alzheimer's disease.
Calafate S, Özturan G, Thrupp N, Vanderlinden J, Santa-Marinha L, Morais-Ribeiro R, Ruggiero A, Bozic I, Rusterholz T, Lorente-Echeverría B, Dias M, Chen WT, Fiers M, Lu A, Vlaeminck I, Creemers E, Craessaerts K, Vandenbempt J, van Boekholdt L, Poovathingal S, Davie K, Thal DR, Wierda K, Oliveira TG, Slutsky I, Adamantidis A, De Strooper B, de Wit J. Calafate S, et al. Among authors: davie k. Nat Neurosci. 2023 Jun;26(6):1021-1031. doi: 10.1038/s41593-023-01325-4. Epub 2023 May 15. Nat Neurosci. 2023. PMID: 37188873 Free PMC article.
A Single-Cell Transcriptome Atlas of the Aging Drosophila Brain.
Davie K, Janssens J, Koldere D, De Waegeneer M, Pech U, Kreft Ł, Aibar S, Makhzami S, Christiaens V, Bravo González-Blas C, Poovathingal S, Hulselmans G, Spanier KI, Moerman T, Vanspauwen B, Geurs S, Voet T, Lammertyn J, Thienpont B, Liu S, Konstantinides N, Fiers M, Verstreken P, Aerts S. Davie K, et al. Cell. 2018 Aug 9;174(4):982-998.e20. doi: 10.1016/j.cell.2018.05.057. Epub 2018 Jun 18. Cell. 2018. PMID: 29909982 Free PMC article.
Identification of genomic enhancers through spatial integration of single-cell transcriptomics and epigenomics.
Bravo González-Blas C, Quan XJ, Duran-Romaña R, Taskiran II, Koldere D, Davie K, Christiaens V, Makhzami S, Hulselmans G, de Waegeneer M, Mauduit D, Poovathingal S, Aibar S, Aerts S. Bravo González-Blas C, et al. Among authors: davie k. Mol Syst Biol. 2020 May;16(5):e9438. doi: 10.15252/msb.20209438. Mol Syst Biol. 2020. PMID: 32431014 Free PMC article.
Robust gene expression programs underlie recurrent cell states and phenotype switching in melanoma.
Wouters J, Kalender-Atak Z, Minnoye L, Spanier KI, De Waegeneer M, Bravo González-Blas C, Mauduit D, Davie K, Hulselmans G, Najem A, Dewaele M, Pedri D, Rambow F, Makhzami S, Christiaens V, Ceyssens F, Ghanem G, Marine JC, Poovathingal S, Aerts S. Wouters J, et al. Among authors: davie k. Nat Cell Biol. 2020 Aug;22(8):986-998. doi: 10.1038/s41556-020-0547-3. Epub 2020 Aug 3. Nat Cell Biol. 2020. PMID: 32753671
Actuation enhances patterning in human neural tube organoids.
Abdel Fattah AR, Daza B, Rustandi G, Berrocal-Rubio MÁ, Gorissen B, Poovathingal S, Davie K, Barrasa-Fano J, Cóndor M, Cao X, Rosenzweig DH, Lei Y, Finnell R, Verfaillie C, Sampaolesi M, Dedecker P, Van Oosterwyck H, Aerts S, Ranga A. Abdel Fattah AR, et al. Among authors: davie k. Nat Commun. 2021 May 27;12(1):3192. doi: 10.1038/s41467-021-22952-0. Nat Commun. 2021. PMID: 34045434 Free PMC article.
Xenotransplanted Human Cortical Neurons Reveal Species-Specific Development and Functional Integration into Mouse Visual Circuits.
Linaro D, Vermaercke B, Iwata R, Ramaswamy A, Libé-Philippot B, Boubakar L, Davis BA, Wierda K, Davie K, Poovathingal S, Penttila PA, Bilheu A, De Bruyne L, Gall D, Conzelmann KK, Bonin V, Vanderhaeghen P. Linaro D, et al. Among authors: davie k. Neuron. 2019 Dec 4;104(5):972-986.e6. doi: 10.1016/j.neuron.2019.10.002. Epub 2019 Nov 21. Neuron. 2019. PMID: 31761708 Free PMC article.
Mitochondria metabolism sets the species-specific tempo of neuronal development.
Iwata R, Casimir P, Erkol E, Boubakar L, Planque M, Gallego López IM, Ditkowska M, Gaspariunaite V, Beckers S, Remans D, Vints K, Vandekeere A, Poovathingal S, Bird M, Vlaeminck I, Creemers E, Wierda K, Corthout N, Vermeersch P, Carpentier S, Davie K, Mazzone M, Gounko NV, Aerts S, Ghesquière B, Fendt SM, Vanderhaeghen P. Iwata R, et al. Among authors: davie k. Science. 2023 Feb 10;379(6632):eabn4705. doi: 10.1126/science.abn4705. Epub 2023 Feb 10. Science. 2023. PMID: 36705539
cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data.
Bravo González-Blas C, Minnoye L, Papasokrati D, Aibar S, Hulselmans G, Christiaens V, Davie K, Wouters J, Aerts S. Bravo González-Blas C, et al. Among authors: davie k. Nat Methods. 2019 May;16(5):397-400. doi: 10.1038/s41592-019-0367-1. Epub 2019 Apr 8. Nat Methods. 2019. PMID: 30962623 Free PMC article.
A scalable SCENIC workflow for single-cell gene regulatory network analysis.
Van de Sande B, Flerin C, Davie K, De Waegeneer M, Hulselmans G, Aibar S, Seurinck R, Saelens W, Cannoodt R, Rouchon Q, Verbeiren T, De Maeyer D, Reumers J, Saeys Y, Aerts S. Van de Sande B, et al. Among authors: davie k. Nat Protoc. 2020 Jul;15(7):2247-2276. doi: 10.1038/s41596-020-0336-2. Epub 2020 Jun 19. Nat Protoc. 2020. PMID: 32561888
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