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Impact of genome reduction on bacterial metabolism and its regulation.
Yus E, Maier T, Michalodimitrakis K, van Noort V, Yamada T, Chen WH, Wodke JA, Güell M, Martínez S, Bourgeois R, Kühner S, Raineri E, Letunic I, Kalinina OV, Rode M, Herrmann R, Gutiérrez-Gallego R, Russell RB, Gavin AC, Bork P, Serrano L. Yus E, et al. Among authors: raineri e. Science. 2009 Nov 27;326(5957):1263-8. doi: 10.1126/science.1177263. Science. 2009. PMID: 19965476
Evolvability and hierarchy in rewired bacterial gene networks.
Isalan M, Lemerle C, Michalodimitrakis K, Horn C, Beltrao P, Raineri E, Garriga-Canut M, Serrano L. Isalan M, et al. Among authors: raineri e. Nature. 2008 Apr 17;452(7189):840-5. doi: 10.1038/nature06847. Nature. 2008. PMID: 18421347 Free PMC article.
Epigenetic regulation of gene expression in Chinese Hamster Ovary cells in response to the changing environment of a batch culture.
Hernandez I, Dhiman H, Klanert G, Jadhav V, Auer N, Hanscho M, Baumann M, Esteve-Codina A, Dabad M, Gómez J, Alioto T, Merkel A, Raineri E, Heath S, Rico D, Borth N. Hernandez I, et al. Among authors: raineri e. Biotechnol Bioeng. 2019 Mar;116(3):677-692. doi: 10.1002/bit.26891. Epub 2019 Jan 4. Biotechnol Bioeng. 2019. PMID: 30512195 Free PMC article.
Labelled regulatory elements are pervasive features of the macrophage genome and are dynamically utilized by classical and alternative polarization signals.
Horvath A, Daniel B, Szeles L, Cuaranta-Monroy I, Czimmerer Z, Ozgyin L, Steiner L, Kiss M, Simandi Z, Poliska S, Giannakis N, Raineri E, Gut IG, Nagy B, Nagy L. Horvath A, et al. Among authors: raineri e. Nucleic Acids Res. 2019 Apr 8;47(6):2778-2792. doi: 10.1093/nar/gkz118. Nucleic Acids Res. 2019. PMID: 30799488 Free PMC article.
A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing.
Alioto TS, Buchhalter I, Derdak S, Hutter B, Eldridge MD, Hovig E, Heisler LE, Beck TA, Simpson JT, Tonon L, Sertier AS, Patch AM, Jäger N, Ginsbach P, Drews R, Paramasivam N, Kabbe R, Chotewutmontri S, Diessl N, Previti C, Schmidt S, Brors B, Feuerbach L, Heinold M, Gröbner S, Korshunov A, Tarpey PS, Butler AP, Hinton J, Jones D, Menzies A, Raine K, Shepherd R, Stebbings L, Teague JW, Ribeca P, Giner FC, Beltran S, Raineri E, Dabad M, Heath SC, Gut M, Denroche RE, Harding NJ, Yamaguchi TN, Fujimoto A, Nakagawa H, Quesada V, Valdés-Mas R, Nakken S, Vodák D, Bower L, Lynch AG, Anderson CL, Waddell N, Pearson JV, Grimmond SM, Peto M, Spellman P, He M, Kandoth C, Lee S, Zhang J, Létourneau L, Ma S, Seth S, Torrents D, Xi L, Wheeler DA, López-Otín C, Campo E, Campbell PJ, Boutros PC, Puente XS, Gerhard DS, Pfister SM, McPherson JD, Hudson TJ, Schlesner M, Lichter P, Eils R, Jones DT, Gut IG. Alioto TS, et al. Among authors: raineri e. Nat Commun. 2015 Dec 9;6:10001. doi: 10.1038/ncomms10001. Nat Commun. 2015. PMID: 26647970 Free PMC article.
Fast computation and applications of genome mappability.
Derrien T, Estellé J, Marco Sola S, Knowles DG, Raineri E, Guigó R, Ribeca P. Derrien T, et al. Among authors: raineri e. PLoS One. 2012;7(1):e30377. doi: 10.1371/journal.pone.0030377. Epub 2012 Jan 19. PLoS One. 2012. PMID: 22276185 Free PMC article.
42 results