HPG Aligner applies suffix arrays for DNA read mapping. This implementation produces a highly sensitive and extremely fast mapping of DNA reads that scales up almost linearly with read length. The approach presented here ...
Bleda, Marta; Tarraga, Joaquín; De María, Alejandro; Salavert, Francisco; García-Alonso, Luz; Celma Giménez, Matilde; Martín Mayordomo, Ainoha; Dopazo, Joaquín; Medina, Ignacio(Oxford University Press (OUP): Policy C - Option B, 2012-07)
During the past years, the advances in high-throughput technologies have produced an unprecedented growth in the number and size of repositories and databases storing relevant biological data. Today, there is more biological ...
Tarazona Campos, Sonia; García-Alcalde, Fernando; Dopazo, Joaquín; Ferrer Riquelme, Alberto José; Conesa, Ana(Cold Spring Harbor Laboratory Press, 2011-09-08)
Next-generation sequencing (NGS) technologies are revolutionizing genome research, and in particular, their application to transcriptomics (RNA-seq) is increasingly being used for gene expression profiling as a replacement ...
GOTZ, STEFAN; García Gómez, Juan Miguel; Terol, Javier; Williams, Tim D.; Nagaraj, Shivashankar H.; Nueda, María José; Robles Viejo, Monserrat; Talón, Manuel; Dopazo, Joaquín; Conesa, Ana(Oxford University Press, 2008)
[EN] Functional genomics technologies have been widely adopted in the biological research of both model and non-model species. An efficient functional annotation of DNA or protein sequences is a major requirement for the ...
[EN] According to the divergent pathway model, cutaneous melanoma comprises a nevogenic group with a propensity to melanocyte proliferation and another one associated with cumulative solar damage (CSD). While characterized ...
[EN] Background: The development of high-throughput omics technologies enabled genome-wide measurements of
the activity of cellular elements and provides the analytical resources for the progress of the Systems ...
García-Alcalde, Fernando; Okonechnikov, Konstantin; Carbonell Caballero, José; Cruz, Luís M.; GOTZ, STEFAN; Tarazona Campos, Sonia; Dopazo, Joaquín; Meyer, Thomas F.; Conesa, Ana(Oxford University Press (OUP): Policy B - Oxford Open Option B, 2012)
Motivation: The sequence alignment/map (SAM) and the binary
alignment/map (BAM) formats have become the standard method of
representation of nucleotide sequence alignments for next-generation
sequencing data. SAM/BAM ...
[EN] Dimension reduction techniques are used to explore genomic data. Due to the large number of variables
(genes) included in this kind of studies, variable selection methods are needed to identify the most responsive
genes ...