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Programmatic access to bacterial regulatory networks with regutools.
Chávez J, Barberena-Jonas C, Sotelo-Fonseca JE, Alquicira-Hernández J, Salgado H, Collado-Torres L, Reyes A. Chávez J, et al. Among authors: sotelo fonseca je. Bioinformatics. 2020 Aug 15;36(16):4532-4534. doi: 10.1093/bioinformatics/btaa575. Bioinformatics. 2020. PMID: 32573705 Free PMC article.
Plant In Situ Hi-C Experimental Protocol and Bioinformatic Analysis.
Pérez-de Los Santos FJ, Sotelo-Fonseca JE, Ramírez-Colmenero A, Nützmann HW, Fernandez-Valverde SL, Oktaba K. Pérez-de Los Santos FJ, et al. Among authors: sotelo fonseca je. Methods Mol Biol. 2022;2512:217-247. doi: 10.1007/978-1-0716-2429-6_13. Methods Mol Biol. 2022. PMID: 35818008
Active and repressed biosynthetic gene clusters have spatially distinct chromosome states.
Nützmann HW, Doerr D, Ramírez-Colmenero A, Sotelo-Fonseca JE, Wegel E, Di Stefano M, Wingett SW, Fraser P, Hurst L, Fernandez-Valverde SL, Osbourn A. Nützmann HW, et al. Among authors: sotelo fonseca je. Proc Natl Acad Sci U S A. 2020 Jun 16;117(24):13800-13809. doi: 10.1073/pnas.1920474117. Epub 2020 Jun 3. Proc Natl Acad Sci U S A. 2020. PMID: 32493747 Free PMC article.
A human-specific enhancer fine-tunes radial glia potency and corticogenesis.
Liu J, Mosti F, Zhao HT, Sotelo-Fonseca JE, Escobar-Tomlienovich CF, Lollis D, Musso CM, Mao Y, Massri AJ, Doll HM, Sousa AM, Wray GA, Schmidt E, Silver DL. Liu J, et al. Among authors: sotelo fonseca je. bioRxiv [Preprint]. 2024 Apr 11:2024.04.10.588953. doi: 10.1101/2024.04.10.588953. bioRxiv. 2024. PMID: 38645099 Free PMC article. Preprint.
Adaptive sequence divergence forged new neurodevelopmental enhancers in humans.
Mangan RJ, Alsina FC, Mosti F, Sotelo-Fonseca JE, Snellings DA, Au EH, Carvalho J, Sathyan L, Johnson GD, Reddy TE, Silver DL, Lowe CB. Mangan RJ, et al. Among authors: sotelo fonseca je. Cell. 2022 Nov 23;185(24):4587-4603.e23. doi: 10.1016/j.cell.2022.10.016. Cell. 2022. PMID: 36423581 Free PMC article.