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Author Correction: Chromatin lncRNA Platr10 controls stem cell pluripotency by coordinating an intrachromosomal regulatory network.
Du Z, Wen X, Wang Y, Jia L, Zhang S, Liu Y, Zhou L, Li H, Yang W, Wang C, Chen J, Hao Y, Salgado Figueroa D, Chen H, Li D, Chen N, Celik I, Zhu Y, Yan Z, Fu C, Liu S, Jiao B, Wang Z, Zhang H, Gülsoy G, Luo J, Qin B, Gao S, Kapranov P, Esteban MA, Zhang S, Li W, Ay F, Chen R, Hoffman AR, Cui J, Hu JF. Du Z, et al. Among authors: ay f. Genome Biol. 2021 Sep 20;22(1):272. doi: 10.1186/s13059-021-02487-9. Genome Biol. 2021. PMID: 34544465 Free PMC article. No abstract available.
3D genome mapping identifies subgroup-specific chromosome conformations and tumor-dependency genes in ependymoma.
Okonechnikov K, Camgöz A, Chapman O, Wani S, Park DE, Hübner JM, Chakraborty A, Pagadala M, Bump R, Chandran S, Kraft K, Acuna-Hidalgo R, Reid D, Sikkink K, Mauermann M, Juarez EF, Jenseit A, Robinson JT, Pajtler KW, Milde T, Jäger N, Fiesel P, Morgan L, Sridhar S, Coufal NG, Levy M, Malicki D, Hobbs C, Kingsmore S, Nahas S, Snuderl M, Crawford J, Wechsler-Reya RJ, Davidson TB, Cotter J, Michaiel G, Fleischhack G, Mundlos S, Schmitt A, Carter H, Michealraj KA, Kumar SA, Taylor MD, Rich J, Buchholz F, Mesirov JP, Pfister SM, Ay F, Dixon JR, Kool M, Chavez L. Okonechnikov K, et al. Among authors: ay f. Nat Commun. 2023 Apr 21;14(1):2300. doi: 10.1038/s41467-023-38044-0. Nat Commun. 2023. PMID: 37085539 Free PMC article.
nipalsMCIA: Flexible Multi-Block Dimensionality Reduction in R via Non-linear Iterative Partial Least Squares.
Mattessich M, Reyna J, Aron E, Ay F, Kilmer M, Kleinstein SH, Konstorum A. Mattessich M, et al. Among authors: ay f. bioRxiv [Preprint]. 2024 Jun 10:2024.06.07.597819. doi: 10.1101/2024.06.07.597819. bioRxiv. 2024. Update in: Bioinformatics. 2025 Jan 12:btaf015. doi: 10.1093/bioinformatics/btaf015 PMID: 38915554 Free PMC article. Updated. Preprint.
Putting computational models of immunity to the test - an invited challenge to predict B. pertussis vaccination outcomes.
Shinde P, Willemsen L, Anderson M, Aoki M, Basu S, Burel JG, Cheng P, Dastidar SG, Dunleavy A, Einav T, Forschmiedt J, Fourati S, Garcia J, Gibson W, Greenbaum JA, Guan L, Guan W, Gygi JP, Ha B, Hou J, Hsiao J, Huang Y, Jansen R, Kakoty B, Kang Z, Kobie JJ, Kojima M, Konstorum A, Lee J, Lewis SA, Li A, Lock EF, Mahita J, Mendes M, Meng H, Neher A, Nili S, Olsen LR, Orfield S, Overton JA, Pai N, Parker C, Qian B, Rasmussen M, Reyna J, Richardson E, Safo S, Sorenson J, Srinivasan A, Thrupp N, Tippalagama R, Trevizani R, Ventz S, Wang J, Wu CC, Ay F, Grant B, Kleinstein SH, Peters B. Shinde P, et al. Among authors: ay f. bioRxiv [Preprint]. 2024 Sep 8:2024.09.04.611290. doi: 10.1101/2024.09.04.611290. bioRxiv. 2024. PMID: 39282381 Free PMC article. Preprint.
Loop Catalog: a comprehensive HiChIP database of human and mouse samples.
Reyna J, Fetter K, Ignacio R, Marandi CCA, Rao N, Jiang Z, Figueroa DS, Bhattacharyya S, Ay F. Reyna J, et al. Among authors: ay f. bioRxiv [Preprint]. 2024 Apr 29:2024.04.26.591349. doi: 10.1101/2024.04.26.591349. bioRxiv. 2024. PMID: 38746164 Free PMC article. Preprint.
125 results