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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. 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.
Mapping gene regulatory networks from single-cell omics data.
Fiers MWEJ, Minnoye L, Aibar S, Bravo González-Blas C, Kalender Atak Z, Aerts S. Fiers MWEJ, et al. Brief Funct Genomics. 2018 Jul 1;17(4):246-254. doi: 10.1093/bfgp/elx046. Brief Funct Genomics. 2018. PMID: 29342231 Free PMC article. Review.
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. Among authors: bravo gonzalez blas c. 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.
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: bravo gonzalez blas c. 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
Single-cell spatial multi-omics and deep learning dissect enhancer-driven gene regulatory networks in liver zonation.
Bravo González-Blas C, Matetovici I, Hillen H, Taskiran II, Vandepoel R, Christiaens V, Sansores-García L, Verboven E, Hulselmans G, Poovathingal S, Demeulemeester J, Psatha N, Mauduit D, Halder G, Aerts S. Bravo González-Blas C, et al. Nat Cell Biol. 2024 Jan;26(1):153-167. doi: 10.1038/s41556-023-01316-4. Epub 2024 Jan 5. Nat Cell Biol. 2024. PMID: 38182825 Free PMC article.
SCENIC+: single-cell multiomic inference of enhancers and gene regulatory networks.
Bravo González-Blas C, De Winter S, Hulselmans G, Hecker N, Matetovici I, Christiaens V, Poovathingal S, Wouters J, Aibar S, Aerts S. Bravo González-Blas C, et al. Nat Methods. 2023 Sep;20(9):1355-1367. doi: 10.1038/s41592-023-01938-4. Epub 2023 Jul 13. Nat Methods. 2023. PMID: 37443338 Free PMC article.
Shared enhancer gene regulatory networks between wound and oncogenic programs.
Floc'hlay S, Balaji R, Stanković D, Christiaens VM, Bravo González-Blas C, De Winter S, Hulselmans GJ, De Waegeneer M, Quan X, Koldere D, Atkins M, Halder G, Uhlirova M, Classen AK, Aerts S. Floc'hlay S, et al. Among authors: bravo gonzalez blas c. Elife. 2023 May 3;12:e81173. doi: 10.7554/eLife.81173. Elife. 2023. PMID: 37133250 Free PMC article.
11 results