Publications

Julca, Irene et al. “"Phylogenomics Identifies An Ancestral Burst Of Gene Duplications Predating The Diversification Of Aphidomorpha"”. Molecular Biology and Evolution (2019): n. pag.
Kuderna, Lukas F K et al. “Selective Single Molecule Sequencing And Assembly Of A Human Y Chromosome Of African Origin.”. Nature Communications 10.1 (2019): 4+.
Montánchez, Itxaso et al. “Analysis Of Vibrio Harveyi Adaptation In Sea Water Microcosms At Elevated Temperature Provides Insights Into The Putative Mechanisms Of Its Persistence And Spread In The Time Of Global Warming”. 9.1 (2019): 289+.
Liedtke, Christoph et al. “De Novo Assembly And Annotation Of The Larval Transcriptome Of Two Spadefoot Toads Widely Divergent In Developmental Rate”. G3: Genes, Genomes, Genetics (2019): n. pag.
Alioto, Tyler et al. “Transposons Played A Major Role In The Diversification Between The Closely Related Almond And Peach Genomes: Results From The Almond Genome Sequence”. The Plant Journal (2019): n. pag.
Mosca, Elena et al. “A Reference Genome Sequence For The European Silver Fir (Abies Alba Mill.): A Community-Generated Genomic Resource”. G3: Genes, Genomes, Genetics (2019): n. pag.
Alioto, Tyler S. et al. “The Genome Sequence Of The Eastern Woodchuck (Marmota Monax) : A Preclinical Animal Model For Chronic Hepatitis B”. G3: Genes, Genomes, Genetics (2019): n. pag.
Liedtke, Christoph et al. “De Novo Assembly And Annotation Of The Larval Transcriptome Of Two Spadefoot Toads Widely Divergent In Developmental Rate”. BioRxiv (2018): n. pag.
Chaves-Pozo, Elena et al. “European Sea Bass Brain Dlb-1 Cell Line Is Susceptible To Nodavirus: A Transcriptomic Study.”. Fish & Shellfish Immunology 86 (2018): 14-24, .
Puerma, Eva et al. “The High-Quality Genome Sequence Of The Oceanic Island Endemic Species Drosophila Guanche Reveals Signals Of Adaptive Evolution In Genes Related To Flight And Genome Stability.”. Genome Biology and Evolution 10.8 (2018): 1956-1969, .
Alioto, Tyler et al. “Using Geneid To Identify Genes.”. Current Protocols in Bioinformatics (2018): n. pag.
Hernandez, Inmaculada et al. “Epigenetic Regulation Of Gene Expression In Chinese Hamster Ovary Cells In Response To The Changing Environment Of A Batch Culture.”. Biotechnology and Bioengineering (2018): n. pag.
Kleinman-Ruiz, Daniel et al. “Novel Efficient Genome-Wide Snp Panels For The Conservation Of The Highly Endangered Iberian Lynx.”. BMC Genomics 18.1 (2017): 556+.
Chaves-Pozo, Elena et al. “Innate Cell-Mediated Cytotoxic Activity Of European Sea Bass Leucocytes Against Nodavirus-Infected Cells: A Functional And Rna-Seq Study.”. Scientific reports 7.1 (2017): 15396+.
Kuderna, Lukas F K et al. “A 3-Way Hybrid Approach To Generate A New High-Quality Chimpanzee Reference Genome (Pan_Tro_3.0).”. GigaScience 6.11 (2017): 1-6, .
Gabaldón, Toni, and Tyler S. Alioto. “Whole-Genome Sequencing Recommendations”. Field Guidelines For Genetic Experimental Designs In High-Throughput Sequencing. Cham: Springer International Publishing, 2016. 13-41, .
Figueras, Antonio et al. “Whole Genome Sequencing Of Turbot (Scophthalmus Maximus; Pleuronectiformes): A Fish Adapted To Demersal Life.”. DNA Research 23.3 (2016): 181-192, .
Cruz, Fernando et al. “Genome Sequence Of The Olive Tree, Olea Europaea.”. GigaScience 5 (2016): 29+.
Vlasova, Anna et al. “Genome And Transcriptome Analysis Of The Mesoamerican Common Bean And The Role Of Gene Duplications In Establishing Tissue And Temporal Specialization Of Genes.”. Genome Biology 17 (2016): 32+.
Abascal, Federico et al. “Extreme Genomic Erosion After Recurrent Demographic Bottlenecks In The Highly Endangered Iberian Lynx.”. Genome Biology 17.1 (2016): 251+.
Alioto, Tyler S et al. “A Comprehensive Assessment Of Somatic Mutation Detection In Cancer Using Whole-Genome Sequencing.”. Nature Communications 6 (2015): 10001+.
Alioto, Tyler. “The Genome Of The Iberian Lynx”. Plant And Animal Genome Xxiii Conference. Plant and Animal Genome, 2015. Print.
Piqué, Núria et al. “Genome Sequence Of Plesiomonas Shigelloides Strain 302-73 (Serotype O1).”. Genome announcements 1.4 (2013): n. pag.
Alioto, Tyler et al. “Aspic-Geneid: A Lightweight Pipeline For Gene Prediction And Alternative Isoforms Detection.”. BioMed research international 2013 (2013): 502827+.
Consortium, ENCODE Project. “An Integrated Encyclopedia Of Dna Elements In The Human Genome.”. Nature 489.7414 (2012): 57-74, .
Alioto, Tyler. “Gene Prediction.”. Methods in Molecular Biology 855 (2012): 175-201, .
Garcia-Mas, Jordi et al. “The Genome Of Melon (Cucumis Melo L.).”. Proceedings of the National Academy of Sciences of the United States of America 109.29 (2012): 11872-11877, .
Djebali, Sarah et al. “Landscape Of Transcription In Human Cells.”. Nature 489.7414 (2012): 101-108, .
Consortium, ENCODE Project. “A User's Guide To The Encyclopedia Of Dna Elements (Encode).”. PLoS Biology 9.4 (2011): n. pag.
Mudge, Jonathan M et al. “The Origins, Evolution, And Functional Potential Of Alternative Splicing In Vertebrates.”. Molecular Biology and Evolution 28.10 (2011): 2949-2959, .