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Items: 12

1.

Reprogramming Nuclear Architecture: Just a TAD.

Acemel RD, Gómez-Skarmeta JL.

Cell Stem Cell. 2019 May 2;24(5):679-681. doi: 10.1016/j.stem.2019.04.007.

PMID:
31051129
2.

Amphioxus functional genomics and the origins of vertebrate gene regulation.

Marlétaz F, Firbas PN, Maeso I, Tena JJ, Bogdanovic O, Perry M, Wyatt CDR, de la Calle-Mustienes E, Bertrand S, Burguera D, Acemel RD, van Heeringen SJ, Naranjo S, Herrera-Ubeda C, Skvortsova K, Jimenez-Gancedo S, Aldea D, Marquez Y, Buono L, Kozmikova I, Permanyer J, Louis A, Albuixech-Crespo B, Le Petillon Y, Leon A, Subirana L, Balwierz PJ, Duckett PE, Farahani E, Aury JM, Mangenot S, Wincker P, Albalat R, Benito-Gutiérrez È, Cañestro C, Castro F, D'Aniello S, Ferrier DEK, Huang S, Laudet V, Marais GAB, Pontarotti P, Schubert M, Seitz H, Somorjai I, Takahashi T, Mirabeau O, Xu A, Yu JK, Carninci P, Martinez-Morales JR, Crollius HR, Kozmik Z, Weirauch MT, Garcia-Fernàndez J, Lister R, Lenhard B, Holland PWH, Escriva H, Gómez-Skarmeta JL, Irimia M.

Nature. 2018 Dec;564(7734):64-70. doi: 10.1038/s41586-018-0734-6. Epub 2018 Nov 21.

3.

Computer simulation study of early bacterial biofilm development.

Acemel RD, Govantes F, Cuetos A.

Sci Rep. 2018 Mar 28;8(1):5340. doi: 10.1038/s41598-018-23524-x.

4.

4Cin: A computational pipeline for 3D genome modeling and virtual Hi-C analyses from 4C data.

Irastorza-Azcarate I, Acemel RD, Tena JJ, Maeso I, Gómez-Skarmeta JL, Devos DP.

PLoS Comput Biol. 2018 Mar 9;14(3):e1006030. doi: 10.1371/journal.pcbi.1006030. eCollection 2018 Mar.

5.

A common copy-number variant within SIRPB1 correlates with human Out-of-Africa migration after genetic drift correction.

Royo JL, Valls J, Acemel RD, Gómez-Marin C, Pascual-Pons M, Lupiañez A, Gomez-Skarmeta JL, Fibla J.

PLoS One. 2018 Mar 8;13(3):e0193614. doi: 10.1371/journal.pone.0193614. eCollection 2018.

6.

Regulatory landscape fusion in rhabdomyosarcoma through interactions between the PAX3 promoter and FOXO1 regulatory elements.

Vicente-García C, Villarejo-Balcells B, Irastorza-Azcárate I, Naranjo S, Acemel RD, Tena JJ, Rigby PWJ, Devos DP, Gómez-Skarmeta JL, Carvajal JJ.

Genome Biol. 2017 Jun 14;18(1):106. doi: 10.1186/s13059-017-1225-z.

7.

Topologically associated domains: a successful scaffold for the evolution of gene regulation in animals.

Acemel RD, Maeso I, Gómez-Skarmeta JL.

Wiley Interdiscip Rev Dev Biol. 2017 May;6(3). doi: 10.1002/wdev.265. Epub 2017 Mar 2. Review.

PMID:
28251841
8.

Cis-regulatory landscapes in development and evolution.

Maeso I, Acemel RD, Gómez-Skarmeta JL.

Curr Opin Genet Dev. 2017 Apr;43:17-22. doi: 10.1016/j.gde.2016.10.004. Epub 2016 Nov 11. Review.

PMID:
27842294
9.

Biofilm formation-defective mutants in Pseudomonas putida.

López-Sánchez A, Leal-Morales A, Jiménez-Díaz L, Platero AI, Bardallo-Pérez J, Díaz-Romero A, Acemel RD, Illán JM, Jiménez-López J, Govantes F.

FEMS Microbiol Lett. 2016 Jul;363(13). pii: fnw127. doi: 10.1093/femsle/fnw127. Epub 2016 May 11.

PMID:
27190143
10.

A single three-dimensional chromatin compartment in amphioxus indicates a stepwise evolution of vertebrate Hox bimodal regulation.

Acemel RD, Tena JJ, Irastorza-Azcarate I, Marlétaz F, Gómez-Marín C, de la Calle-Mustienes E, Bertrand S, Diaz SG, Aldea D, Aury JM, Mangenot S, Holland PW, Devos DP, Maeso I, Escrivá H, Gómez-Skarmeta JL.

Nat Genet. 2016 Mar;48(3):336-41. doi: 10.1038/ng.3497. Epub 2016 Feb 1.

PMID:
26829752
11.

Evolutionary comparison reveals that diverging CTCF sites are signatures of ancestral topological associating domains borders.

Gómez-Marín C, Tena JJ, Acemel RD, López-Mayorga M, Naranjo S, de la Calle-Mustienes E, Maeso I, Beccari L, Aneas I, Vielmas E, Bovolenta P, Nobrega MA, Carvajal J, Gómez-Skarmeta JL.

Proc Natl Acad Sci U S A. 2015 Jun 16;112(24):7542-7. doi: 10.1073/pnas.1505463112. Epub 2015 Jun 1.

12.

Obesity-associated variants within FTO form long-range functional connections with IRX3.

Smemo S, Tena JJ, Kim KH, Gamazon ER, Sakabe NJ, Gómez-Marín C, Aneas I, Credidio FL, Sobreira DR, Wasserman NF, Lee JH, Puviindran V, Tam D, Shen M, Son JE, Vakili NA, Sung HK, Naranjo S, Acemel RD, Manzanares M, Nagy A, Cox NJ, Hui CC, Gomez-Skarmeta JL, Nóbrega MA.

Nature. 2014 Mar 20;507(7492):371-5. doi: 10.1038/nature13138. Epub 2014 Mar 12.

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