K2D2: Estimation of protein secondary structure from circular dichroism spectra (2008)
Perez-Iratxeta, Carolina, Andrade-Navarro, Miguel A
Abstract Background Circular dichroism spectroscopy is a widely used technique to analyze the secondary structure of proteins in solution. Predictive methods use the circular dichroism spectra from...
Sanchez-Pulido, Luis, Andrade-Navarro, Miguel A
Abstract Background Genetic variants in the FTO (fat mass and obesity associated) gene have been associated with an increased risk of obesity. However, the function of its protein product has not...
Identification of novel stem cell markers using gap analysis of gene expression data (2007)
Krzyzanowski, Paul M, Andrade-Navarro, Miguel A
Abstract We describe a method for detecting marker genes in large heterogeneous collections of gene expression data. Markers are identified and characterized by the existence of demarcations in their...
ChIP on SNP-chip for genome-wide analysis of human histone H4 hyperacetylation (2007)
McCann, Jennifer A, Muro, Enrique M, Palmer, Claire, Palidwor, Gareth, Porter, Christopher J, Andrade-Navarro, Miguel A, ...
Abstract Background SNP microarrays are designed to genotype Single Nucleotide Polymorphisms (SNPs). These microarrays report hybridization of DNA fragments and therefore can be used for the purpose...
Gene function in early mouse embryonic stem cell differentiation (2007)
Sene, Kagnew, Porter, Christopher J, Palidwor, Gareth, Perez-Iratxeta, Carolina, Muro, Enrique M, Campbell, Pearl A, ...
Abstract Background Little is known about the genes that drive embryonic stem cell differentiation. However, such knowledge is necessary if we are to exploit the therapeutic potential of stem cells....
Gene function in early mouse embryonic stem cell differentiation (2007)
Sene, Kagnew, Porter, Christopher J, Palidwor, Gareth, Perez-Iratxeta, Carolina, Muro, Enrique M, Campbell, Pearl A, ...
Abstract Background Little is known about the genes that drive embryonic stem cell differentiation. However, such knowledge is necessary if we are to exploit the therapeutic potential of stem cells....
Amplification of the Gene Ontology annotation of Affymetrix probe sets (2006)
Muro, Enrique M, Perez-Iratxeta, Carolina, Andrade-Navarro, Miguel A
Abstract Background The annotations of Affymetrix DNA microarray probe sets with Gene Ontology terms are carefully selected for correctness. This results in very accurate but incomplete annotations...
Taxonomic colouring of phylogenetic trees of protein sequences (2006)
Palidwor, Gareth, Reynaud, Emmanuel G, Andrade-Navarro, Miguel A
Abstract Background Phylogenetic analyses of protein families are used to define the evolutionary relationships between homologous proteins. The interpretation of protein-sequence phylogenetic trees...
Taxonomic colouring of phylogenetic trees of protein sequences
Palidwor, Gareth, Reynaud, Emmanuel G, Andrade-Navarro, Miguel A
Amplification of the Gene Ontology annotation of Affymetrix probe sets
Muro, Enrique M, Perez-Iratxeta, Carolina, Andrade-Navarro, Miguel A
Tiffin, Nicki, Adie, Euan, Turner, Frances, Brunner, Han G., Van Driel, Marc A., Oti, Martin, ...
Genome-wide experimental methods to identify disease genes, such as linkage analysis and association studies, generate increasingly large candidate gene sets for which comprehensive empirical...
Taxonomic colouring of phylogenetic trees of protein sequences
Palidwor, Gareth, Reynaud, Emmanuel G, Andrade-Navarro, Miguel A
Amplification of the Gene Ontology annotation of Affymetrix probe sets
Muro, Enrique M, Perez-Iratxeta, Carolina, Andrade-Navarro, Miguel A
Tiffin, Nicki, Adie, Euan, Turner, Frances, Brunner, Han G., Van Driel, Marc A., Oti, Martin, ...
Genome-wide experimental methods to identify disease genes, such as linkage analysis and association studies, generate increasingly large candidate gene sets for which comprehensive empirical...
Gene function in early mouse embryonic stem cell differentiation
Sene, Kagnew Hailesellasse, Porter, Christopher J, Palidwor, Gareth, Perez-Iratxeta, Carolina, Muro, Enrique M, Campbell, Pearl A, ...
Oct4 Targets Regulatory Nodes to Modulate Stem Cell Function
Campbell, Pearl A., Perez-Iratxeta, Carolina, Andrade-Navarro, Miguel A., Rudnicki, Michael A.
Stem cells are characterized by two defining features, the ability to self-renew and to differentiate into highly specialized cell types. The POU homeodomain transcription factor Oct4 (Pou5f1) is an...
Update of the G2D tool for prioritization of gene candidates to inherited diseases
Perez-Iratxeta, Carolina, Bork, Peer, Andrade-Navarro, Miguel A.
G2D (genes to diseases) is a web resource for prioritizing genes as candidates for inherited diseases. It uses three algorithms based on different prioritization strategies. The input to the server...
ChIP on SNP-chip for genome-wide analysis of human histone H4 hyperacetylation
McCann, Jennifer A, Muro, Enrique M, Palmer, Claire, Palidwor, Gareth, Porter, Christopher J, Andrade-Navarro, Miguel A, ...
Identification of novel stem cell markers using gap analysis of gene expression data
Krzyzanowski, Paul M, Andrade-Navarro, Miguel A
A method for the detection of marker genes in large heterogeneous collections of gene expression data is described and applied to DNA microarray data generated from 83 mouse stem cell-related samples.