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] B and T cell receptor (immune) repertoires can represent an individual's immune history. While current repertoire analysis methods aim to discriminate between health and disease states, they are typically based on ...
[EN] Background: The integrative analysis of multiple genomics data often requires that genome coordinates-based
signals have to be associated with proximal genes. The relative location of a genomic region with respect ...
Onofriychuk, Anastasiya(Universitat Politècnica de València, 2019-09-05)
[EN] The yeast metabolic cycle (YMC) is a phenomenon that occurs in the baking yeast
Saccharomyces cerevisiae. The YMC is produced at low glucose levels with a continuous feeding
of the culture, and it is characterized ...
Furió-Tarí, Pedro; Tarazona Campos, Sonia; Gabaldón, Toni; Enright, Anton J.; Conesa, Ana(Oxford University Press (OUP), 2016-05)
[EN] Non-coding RNA transcripts such as microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) are important genetic regulators. However, the functions of many of these transcripts are still not clearly understood. Recently, ...
Ugidos Guerrero, Manuel(Universitat Politècnica de València, 2023-04-28)
[ES] La investigación en Biología de Sistemas se ha expandido en los últimos años. El análisis simultáneo de diferentes tipos de datos ómicos permite el estudio de las conexiones y relaciones entre los diferentes niveles ...
Tarazona Campos, Sonia(Universitat Politècnica de València, 2015-03-30)
La transcriptómica estudia el nivel de expresión de los genes en distintas condiciones experimentales para tratar de identificar los genes asociados a un fenotipo dado así como las relaciones de regulación entre distintos ...
De Panis, Diego N.; Padró, Julián; Furió Tarí, Pedro; Tarazona Campos, Sonia; Milla Carmona, Pablo S.; Soto, Ignacio M.; Dopazo, Hernán; Conesa, Ana; Hasson, Esteban(Wiley, 2016-09)
[EN] High-throughput transcriptome studies are breaking new ground to investigate the
responses that organisms deploy in alternative environments. Nevertheless, much
remains to be understood about the genetic basis of ...
[EN] The intrinsic characteristics of the tumor microenvironment (TME), including acidic pH and overexpression of hydrolytic enzymes, offer an exciting opportunity for the rational design of TME-drug delivery systems (DDS). ...
Arzalluz Luque, Ángeles(Universitat Politècnica de València, 2024-04-27)
[ES] La introducción de la secuenciación de ARN a nivel de célula única (scRNA-seq) en el ámbito de la transcriptómica ha redefinido nuestro entendimiento de la diversidad celular, arrojando luz sobre los mecanismos ...
[EN] Multi-omics approaches have become a reality in both large genomics projects and small laboratories. However, the multi-omics research community still faces a number of issues that have either not been sufficiently ...
[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 ...