2026
PSMC-FAC: A Statistical Framework for Correcting Loss of Heterozygosity in Low-Coverage Genomic Demographic Inference
Iglesias-Santos, F., Nieto, A., Casillas, S., Barbadilla, A. & Sarabia, C., 1 Mar 2026, In: Preprints. (preprint)
2025
Footprints of Worldwide Adaptation in Structured Populations of Drosophila melanogaster Through the Expanded DEST 2.0 Genomic Resource
Nunez, J. C. B., Coronado-Zamora, M., Gautier, M., Kapun, M., Steindl, S., Ometto, L., Hoedjes, K., Beets, J., Wiberg, R. A. W., Mazzeo, G. R., Bass, D. J., Radionov, D., Kozeretska, I., Zinchenko, M., Protsenko, O., Serga, S. V., Amor-Jimenez, C., Casillas, S., Sánchez-Gracia, A. & Patenkovic, A. & 82 others, , 18 Aug 2025, In: Molecular Biology and Evolution. 8, msaf132.
2024
An efficient and robust ABC approach to infer the rate and strength of adaptation
Casillas, S., Barbadilla, A., Uricchio, L. & Enard, D., 14 Feb 2024, In: G3: Genes, Genomes, Genetics. 14, 23 p.
Multiple Genomic Landscapes of Recombination and Genomic Divergence in Wild Populations of House Mice—The Role of Chromosomal Fusions and Prdm9
Marín-García, C., Álvarez-González, L., Marín-Gual, L., Casillas, S., Picón, J., Yam, K., Garcias-Ramis, M. M., Vara, C., Ventura, J., Ruiz-Herrera, A. & Larracuente, A. (Editor), 21 Mar 2024, In: Molecular Biology and Evolution. 41, 4, 16 p., msae063.
2023
An efficient and robust ABC approach to infer the rate and strength of adaptation
Murga-Moreno, J., Casillas, S., Barbadilla, A., Uricchio, L. & Enard, D., 28 Sept 2023, 39 p. (preprint)
2022
impMKT: the imputed McDonald and Kreitman test, a straightforward correction that significantly increases the evidence of positive selection of the McDonald and Kreitman test at the gene level
Murga-Moreno, J., Coronado-Zamora, M., Casillas, S. & Barbadilla, A., Oct 2022, In: G3: Genes, Genomes, Genetics. 12, 10, 14 p., jkac206.
PopHumanVar : an interactive application for the functional characterization and prioritization of adaptive genomic variants in humans
Colomer-Vilaplana, A., Murga-Moreno, J., Canalda-Baltrons, A., Inserte, C., Soto, D., Coronado-Zamora, M., Barbadilla, A. & Casillas, S., 2022, In: Nucleic acids research. 50, D1, p. D1069-D1076 8 p.
2021
Drosophila Evolution over Space and Time (DEST) – A New Population Genomics Resource
Glaser-Schmitt, A., Jelic, M., Gallardo-Jiménez, F. D., Puerma, E., Tauber, E., Schou, M. F., Fabian, D. K., Ullastres, A., Kapun, M., Espinosa-Jimenez, M. L., Bogaerts-Márquez, M., Merenciano, M., Outten, J., Rota-Stabelli, O., Buendía-Ruíz, A. J., Wheat, C. W., Guio, L., Paris, M., Patenkovic, A. & Lazzaro, B. P. & 31 others, , 9 Dec 2021, In: Molecular Biology and Evolution. 38, 12, p. 5782-5805 24 p.
2020
Germline de novo mutation rates on exons versus introns in humans
Rodriguez-Galindo, M., Casillas, S., Weghorn, D. & Barbadilla, A., 2020, In: Nature Communications. 11
2019
Genome-Wide Patterns of Sequence Divergence of Protein-Coding Genes between Drosophila buzzatii and D. mojavensis
Guillén, Y., Casillas, S. & Ruiz, A., 7 Jan 2019, In: Journal of Heredity. 110, 1, p. 92-101 10 p.
IMKT: The integrative McDonald and Kreitman test
Murga-Moreno, J., Coronado-Zamora, M., Hervas, S., Casillas, S. & Barbadilla, A., 1 Jul 2019, In: Nucleic acids research. 47, W1, p. W283-W288
Large expert-curated database for benchmarking document similarity detection in biomedical literature search
RELISH Consortium, 2019, In: Database. 2019, p. 1-67 67 p.
PopHumanScan: The online catalog of human genome adaptation
Murga-Moreno, J., Coronado-Zamora, M., Bodelón, A., Barbadilla, A. & Casillas, S., 8 Jan 2019, In: Nucleic Acids Research. 47, D1, p. D1080-D1089
2018
PopHuman: The human population genomics browser
Casillas, S., Mulet, R., Villegas-Mirón, P., Hervas, S., Sanz, E., Velasco, D., Bertranpetit, J., Laayouni, H. & Barbadilla, A., 1 Jan 2018, In: Nucleic Acids Research. 46, D1, p. D1003-D1010 8 p.
2017
Molecular population genetics
Casillas, S. & Barbadilla, A., Mar 2017, In: Genetics. 205, 3, p. 1003-1035 33 p.
PopFly: the Drosophila population genomics browser
Hervas, S., Sanz, E., Casillas, S., Pool, J. E. & Barbadilla, A., 1 Sept 2017, In: Bioinformatics (Oxford, England). 33, 17, p. 2779-2780 2 p.
2014
Genomics of ecological adaptation in cactophilic Drosophila
Guillén, Y., Rius, N., Delprat, A., Williford, A., Muyas, F., Puig, M., Casillas, S., Ràmia, M., Egea, R., Negre, B., Mir, G., Camps, J., Moncunill, V., Ruiz-Ruano, F. J., Cabrero, J., De Lima, L. G., Dias, G. B., Ruiz, J. C., Kapusta, A. & Garcia-Mas, J. & 10 others, , 27 Dec 2014, In: Genome Biology and Evolution. 7, 1, p. 349-366 18 p.
2012
PopDrowser: The population drosophila browser
Ràmia, M., Librado, P., Casillas, S., Rozas, J. & Barbadilla, A., Feb 2012, In: Bioinformatics. 28, 4, p. 595-596 2 p., btr691.
The Drosophila melanogaster Genetic Reference Panel
Mackay, T., Richards, S., Stone, E., Barbadilla, A., Ayroles, J., Zhu, D., Casillas, S., Han, Y., Magwire, M. & Cridland, J. M., 1 Feb 2012, In: Nature. 482, 7384, p. 173-178
2011
MASISH: A database for gene expression in maize seeds
Miquel, M., López-Ribera, I., Ràmia, M., Casillas, S., Barbadilla, A. & Vicient, C. M., Feb 2011, In: Bioinformatics. 27, 3, p. 435-436 2 p., btq654.
2008
Standard and generalized McDonald-Kreitman test: a website to detect selection by comparing different classes of DNA sites.
Egea, R., Casillas, S. & Barbadilla, A., 1 Jul 2008, In: Nucleic acids research. 36, p. W157-162 8 p.
2007
Drosophila polymorphism database (DPDB) a portal for nucleotide polymorphism in Drosophila
Casillas, S., Egea, R., Petit, N., Bergman, C. M. & Barbadilla, A., 2007, In: Fly. 1, 4, p. 205-211 7 p.
MamPol: A database of nucleotide polymorphism in the Mammalia class
Egea, R., Casillas, S., Fernández, E., Senar, M. À. & Barbadilla, A., Jan 2007, In: Nucleic acids research. 35, SUPPL. 1, p. D624-D629
Protein polymorphism is negatively correlated with conservation of intronic sequences and complexity of expression patterns in Drosophila melanogaster
Petit, N., Casillas, S., Ruiz, A. & Barbadilla, A., May 2007, In: Journal of Molecular Evolution. 64, 5, p. 511-518 8 p.
Purifying selection maintains highly conserved noncoding sequences in Drosophila
Casillas, S., Barbadilla, A. & Bergman, C. M., Oct 2007, In: Molecular Biology and Evolution. 24, 10, p. 2222-2234 13 p.
2006
Fast sequence evolution of Hox and Hox-derived genes in the genus Drosophila
Casillas, S., Negre, B., Barbadilla, A. & Ruiz, A., 12 Dec 2006, In: BMC Evolutionary Biology. 6, 15 p., 106.
PDA v.2: Improving the exploration and estimation of nucleotide polymorphism in large datasets of heterogeneous DNA
Casillas, S. & Barbadilla, A., Jul 2006, In: Nucleic Acids Research. 34, WEB. SERV. ISS., p. W632-W634 3 p.
2005
Conservation of regulatory sequences and gene expression patterns in the disintegrating Drosophila Hox gene complex
Negre, B., Casillas, S., Suzanne, M., Sánchez-Herrero, E., Akam, M., Nefedov, M., Barbadilla, A., De Jong, P. & Ruiz, A., 1 May 2005, In: Genome Research. 15, 5, p. 692-700 9 p.
DPDB: A database for the storage, representation and analysis of polymorphism in the Drosophila genus
Casillas, S., Petit, N. & Barbadilla, A., 1 Sept 2005, In: Bioinformatics. 21, SUPPL. 2, p. ii26-ii30 5 p.
2004
PDA: A pipeline to explore and estimate polymorphism in large DNA databases
Casillas, S. & Barbadilla, A., 1 Jul 2004, In: Nucleic Acids Research. 32, p. W166-W169 4 p.