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PatternMarkers & GWCoGAPS for novel data-driven biomarkers via whole transcriptome NMF.
Stein-O'Brien GL, Carey JL, Lee WS, Considine M, Favorov AV, Flam E, Guo T, Li S, Marchionni L, Sherman T, Sivy S, Gaykalova DA, McKay RD, Ochs MF, Colantuoni C, Fertig EJ. Stein-O'Brien GL, et al. Among authors: colantuoni c. Bioinformatics. 2017 Jun 15;33(12):1892-1894. doi: 10.1093/bioinformatics/btx058. Bioinformatics. 2017. PMID: 28174896 Free PMC article.
Variation of Human Neural Stem Cells Generating Organizer States In Vitro before Committing to Cortical Excitatory or Inhibitory Neuronal Fates.
Micali N, Kim SK, Diaz-Bustamante M, Stein-O'Brien G, Seo S, Shin JH, Rash BG, Ma S, Wang Y, Olivares NA, Arellano JI, Maynard KR, Fertig EJ, Cross AJ, Bürli RW, Brandon NJ, Weinberger DR, Chenoweth JG, Hoeppner DJ, Sestan N, Rakic P, Colantuoni C, McKay RD. Micali N, et al. Among authors: colantuoni c. Cell Rep. 2020 May 5;31(5):107599. doi: 10.1016/j.celrep.2020.107599. Cell Rep. 2020. PMID: 32375049 Free PMC article.
Eliminating accidental deviations to minimize generalization error and maximize replicability: Applications in connectomics and genomics.
Bridgeford EW, Wang S, Wang Z, Xu T, Craddock C, Dey J, Kiar G, Gray-Roncal W, Colantuoni C, Douville C, Noble S, Priebe CE, Caffo B, Milham M, Zuo XN; Consortium for Reliability and Reproducibility; Vogelstein JT. Bridgeford EW, et al. Among authors: colantuoni c. PLoS Comput Biol. 2021 Sep 16;17(9):e1009279. doi: 10.1371/journal.pcbi.1009279. eCollection 2021 Sep. PLoS Comput Biol. 2021. PMID: 34529652 Free PMC article.
in silico transcriptome dissection of neocortical excitatory neurogenesis via joint matrix decomposition and transfer learning.
Sonthalia S, Li G, Blanco XM, Casella A, Liu J, Stein-O'Brien G, Caffo B, Adkins RS, Orvis J, Hertzano R, Mahurkar A, Gillis J, Werner J, Ma S, Micali N, Sestan N, Rakic P, Santpere G, Ament SA, Colantuoni C. Sonthalia S, et al. Among authors: colantuoni c. bioRxiv [Preprint]. 2024 Feb 28:2024.02.26.581612. doi: 10.1101/2024.02.26.581612. bioRxiv. 2024. PMID: 38464021 Free PMC article. Preprint.
63 results