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Accurate Identification of Subclones in Tumor Genomes.
Ahmadinejad N, Troftgruben S, Wang J, Chandrashekar PB, Dinu V, Maley C, Liu L. Ahmadinejad N, et al. Mol Biol Evol. 2022 Jul 2;39(7):msac136. doi: 10.1093/molbev/msac136. Mol Biol Evol. 2022. PMID: 35749590 Free PMC article.
Somatic selection distinguishes oncogenes and tumor suppressor genes.
Chandrashekar P, Ahmadinejad N, Wang J, Sekulic A, Egan JB, Asmann YW, Kumar S, Maley C, Liu L. Chandrashekar P, et al. Among authors: ahmadinejad n. Bioinformatics. 2020 Mar 1;36(6):1712-1717. doi: 10.1093/bioinformatics/btz851. Bioinformatics. 2020. PMID: 32176769 Free PMC article.
DeepCORE: An interpretable multi-view deep neural network model to detect co-operative regulatory elements.
Chandrashekar PB, Chen H, Lee M, Ahmadinejad N, Liu L. Chandrashekar PB, et al. Among authors: ahmadinejad n. bioRxiv [Preprint]. 2023 Apr 19:2023.04.19.536807. doi: 10.1101/2023.04.19.536807. bioRxiv. 2023. Update in: Comput Struct Biotechnol J. 2023 Dec 29;23:679-687. doi: 10.1016/j.csbj.2023.12.044 PMID: 37131697 Free PMC article. Updated. Preprint.
J-score: a robust measure of clustering accuracy.
Ahmadinejad N, Chung Y, Liu L. Ahmadinejad N, et al. PeerJ Comput Sci. 2023 Sep 4;9:e1545. doi: 10.7717/peerj-cs.1545. eCollection 2023. PeerJ Comput Sci. 2023. PMID: 37705621 Free PMC article.
48 results