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List of works by Rute R. da Fonseca

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Whole-genome analyses resolve early branches in the tree of life of modern birds

scientific article
Comparative genomics reveals insights into avian genome evolution and adaptation

scientific article
Patterns of positive selection in six Mammalian genomes

scientific article
The adaptive evolution of the mammalian mitochondrial genome

scientific article (publication date: 4 March 2008)
Proteomic Analysis of a Pleistocene Mammoth Femur Reveals More than One Hundred Ancient Bone Proteins

scientific article (publication date: 3 February 2012)
The origin and evolution of maize in the Southwestern United States

scientific article
Cephalopods in neuroscience: regulations, research and the 3Rs

scientific article
Analysis of complete mitochondrial genomes from extinct and extant rhinoceroses reveals lack of phylogenetic resolution

scientific article (publication date: 11 May 2009)
Positive selection on the killer whale mitogenome

scientific article published in September 2010
Ancient genomics

scientific article
The aggressiveness of cancer care in the last three months of life: a retrospective single centre analysis

scientific article published on 01 September 2007
Next-generation biology: Sequencing and data analysis approaches for non-model organisms

scientific article
Molecular evolution and the role of oxidative stress in the expansion and functional diversification of cytosolic glutathione transferases

scientific article
The Elusive Nature of Adaptive Mitochondrial DNA Evolution of an Arctic Lineage Prone to Frequent Introgression

scientific article published on April 1, 2014
Phylogenomic analyses data of the avian phylogenomics project

scientific article
Positive selection on apoptosis related genes

scientific article published on 22 December 2009
Natural selection shaped the rise and fall of passenger pigeon genomic diversity.

scientific article
Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits

scientific article published on 21 June 2019
Cephalopod genomics: A plan of strategies and organization

scientific article (publication date: 10 October 2012)
Molecular clocks indicate turnover and diversification of modern coleoid cephalopods during the Mesozoic Marine Revolution

scientific article published in March 2017
Structural divergence and adaptive evolution in mammalian cytochromes P450 2C

article
Theoretical quantitative structure-activity relationships of flavone ligands interacting with cytochrome P450 1A1 and 1A2 isozymes

scientific article published in July 2005
Comparative analysis of complete mitochondrial genomes suggests that relaxed purifying selection is driving high nonsynonymous evolutionary rate of the NADH2 gene in whitefish (Coregonus ssp.).

scientific article published in December 2015
Combined Transcriptomic and Proteomic Analysis of the Posterior Salivary Gland from the Southern Blue-Ringed Octopus and the Southern Sand Octopus

scientific article
Shotgun analysis of the marine mussel Mytilus edulis hemolymph proteome and mapping the innate immunity elements

scientific article published on 09 September 2015
Adaptive evolution of the Retinoid X receptor in vertebrates

scientific article published on 14 December 2011
A refined model of the genomic basis for phenotypic variation in vertebrate hemostasis

scientific article published on 30 June 2015
Dense sampling of bird diversity increases power of comparative genomics

scientific article published on 11 November 2020
"Out of the Can": A Draft Genome Assembly, Liver Transcriptome, and Nutrigenomics of the European Sardine, Sardina pilchardus

scientific article published on 09 October 2018
Proteomic Profiling of Cytosolic Glutathione Transferases from Three Bivalve Species: Corbicula fluminea, Mytilus galloprovincialis and Anodonta cygnea

scientific article published on January 27, 2014
Conformational characterization of disulfide bonds: a tool for protein classification

scientific article published on 16 September 2010
Complete Inactivation of Sebum-Producing Genes Parallels the Loss of Sebaceous Glands in Cetacea

article
DivA: detection of non-homologous and very divergent regions in protein sequence alignments

scientific article
IMPACT: Integrated Multiprogram Platform for Analyses in ConTest

scientific article published on March 16, 2011
Amino acid patterns around disulfide bonds

scientific article published on 18 November 2010
Consequences of breed formation on patterns of genomic diversity and differentiation: the case of highly diverse peripheral Iberian cattle

scientific article published on 03 May 2019
Genome sequence and effectorome of Moniliophthora perniciosa and Moniliophthora roreri subpopulations

scientific article published on 3 July 2018
Proteomic profiling of gill GSTs in Mytilus galloprovincialis from the North of Portugal and Galicia evidences variations at protein isoform level with a possible relation with water quality

scientific article published on 2 September 2015
A resource for sustainable management: De novo assembly and annotation of the liver transcriptome of the Atlantic chub mackerel, Scomber colias.

scientific article published on 13 March 2018
Marine genomics: news and views

scientific article
Identifying loci under positive selection in complex population histories

scientific article published on 30 July 2019
Modelling the metabolic action of human and rat CYP1A2 and its relationship with the carcinogenicity of heterocyclic amines

Erratum: The origin and evolution of maize in the Southwestern United States

scholarly article published in Nature Plants
31° South: The physiology of adaptation to arid conditions in a passerine bird

scientific article published on 06 August 2019
Identifying loci under positive selection in complex population histories

Declining genetic diversity of European honeybees along the twentieth century

scientific article published on 29 June 2020
Response of an Afro-Palearctic bird migrant to glaciation cycles

scientific article
Computational insight into anti-mutagenic properties of CYP1A flavonoid ligands

scientific article published in July 2005
The origin and evolution of maize in the American Southwest

Population genomic footprints of environmental pollution pressure in natural populations of the Mediterranean mussel

scientific article published on 14 November 2018

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