Listar por autor "Perkins, James Richard"
Mostrando ítems 1-16 de 16
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A comparison of RNA-seq and exon arrays for whole genome transcription profiling of the L5 spinal nerve transection model of neuropathic pain in the rat
(SAGE Publications, 2014-01-28)The past decade has seen an abundance of transcriptional profiling studies of preclinical models of persistent pain, predominantly employing microarray technology. In this study we directly compare exon microarrays to ... -
Advancing edge-based clustering and graph embedding for biological network analysis: a case study in RASopathies
García-Criado, Federico; Seoane, Pedro; Rojano, Elena; García-Ranea, Juan Antonio
; Perkins, James Richard (Oxford University Press, 2025-07-07)
Understanding and predicting biological processes from protein–protein interaction (PPI) networks requires accurate and efficient representations of their structure. However, many existing methods fail to capture the ... -
An improved de novo assembling and polishing of Solea senegalensis transcriptome shed light on retinoic acid signalling in larvae
(Scientific Reports (Springer Nature), 2020)Senegalese sole is an economically important species in aquaculture and a model to decipher the severe transformations occurring during flatfish metamorphosis. A robust sole transcriptome was envisaged from a total of 96 ... -
Axonal neuregulin 1 is a rate limiting but not essential factor for nerve remyelination
(Oxford University Press, 2013-07)Neuregulin 1 acts as an axonal signal that regulates multiple aspects of Schwann cell development including the survival and migration of Schwann cell precursors, the ensheathment of axons and subsequent elaboration of the ... -
Characterisation of non-coding genetic variation in histamine receptors using AnNCR-SNP.
Rojano, Elena; García-Ranea, Juan Antonio; Perkins, James Richard (Springer, 2016-06-06)
Almost 90 % of disease-associated genetic variants found using genome wide association studies (GWAS) are located in non-coding regions of the genome. Such variants can affect phenotype by altering important regulatory ... -
CXCL5 mediates UVB irradiation-induced pain.
(AAAS, 2011-07-06)Many persistent pain states (pain lasting for hours, days, or longer) are poorly treated because of the limitations of existing therapies. Analgesics such as nonsteroidal anti-inflammatory drugs and opioids often provide ... -
Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis
(Oxford University Press, 2012-01)Gene3D http://gene3d.biochem.ucl.ac.uk is a comprehensive database of protein domain assignments for sequences from the major sequence databases. Domains are directly mapped from structures in the CATH database or predicted ... -
Integrating differential expression, co-expression and gene network analysis for the identification of common genes associated with tumor angiogenesis deregulation
Monterde, Beatriz; Rojano Rivera, María Elena; Córdoba Caballero, José; Seoane Zonjic, Pedro; Perkins, James Richard; Medina-Torres, Miguel Ángel; García-Ranea, Juan Antonio[et al.] (Elsevier, 2023)
Angiogenesis is essential for tumor growth and cancer metastasis. Identifying the molecular pathways involved in this process is the first step in the rational design of new therapeutic strategies to improve cancer treatment. ... -
PainNetworks: A web-based resource for the visualisation of pain related genes in the context of their network associations.
(IASP/Wolters Kluwer, 2013-08-11)We now know of hundreds of genes that have some association with pain. Several genes have been shown to alter pain sensitivity in humans, and can be found in the OMIM database. The Pain Gene Database gives details of genes ... -
ReadqPCR and NormqPCR: R packages for the reading, quality checking and normalisation of RT-qPCR quantification cycle (Cq) data
(BMC, 2012-07)Background: Measuring gene transcription using real-time reverse transcription polymerase chain reaction (RT-qPCR) technology is a mainstay of molecular biology. Technologies now exist to measure the abundance of many ... -
Regulatory variants: from detection to predicting impact.
Rojano, Elena; Seoane, Pedro; García-Ranea, Juan Antonio; Perkins, James Richard (Oxford Academic, 2018-06-08)
Variants within non-coding genomic regions can greatly affect disease. In recent years, increasing focus has been given to these variants, and how they can alter regulatory elements, such as enhancers, transcription factor ... -
Small RNAs control sodium channel expression, nociceptor excitability, and pain thresholds
(Society for Neuroscience, 2010-08-11)To examine the role of small RNAs in peripheral pain pathways, we deleted the enzyme Dicer in mouse postmitotic damage-sensing neurons. We used a Nav1.8-Cre mouse to target those nociceptors important for inflammatory pain. ... -
Study of comorbidity networks among pathological phenotypes in patients with rare genomic disorders
(UMA Editorial, 2022)Durante el desarrollo de esta tesis doctoral se han utilizado aproximaciones de la biología de sistemas para estudiar y caracterizar las relaciones comórbidas entre fenotipos relacionados con enfermedades genéticas raras ... -
Transcriptional profiling of dendritic cells in a mouse model of food-antigen induced anaphylaxis reveals the upregulation of multiple immune-related pathways.
Rodríguez, María José; Palomares, Francisca; Bogas, Gador; Torres-Jaén, María Josefa; Díaz-Perales, Araceli; Rojo, Javier; Plaza Serón, María del Carmen; Rodríguez-Nogales, Alba; Orengo, Christine A.; Mayorga, Cristobalina; Perkins, James Richard[et al.] (Wiley, 2018-10-20)
Scope Much of our knowledge about gene expression during anaphylaxis comes from candidate gene studies. Despite their potential role, expression changes in dendritic cells (DCs) have not been studied in this context using ... -
Transient protein-protein interactions: structural, functional, and network properties
(Elsevier, 2010-10-13)Transient interactions, which involve protein interactions that are formed and broken easily, are important in many aspects of cellular function. Here we describe structural and functional properties of transient interactions ... -
Unravelling adverse reactions to NSAIDs using systems biology.
(Cell Press, 2015-01-08)Unpredictable adverse drug reactions are non-dose-related reactions that appear only in susceptible individuals. Their biological basis remains a puzzle. Here we introduce the reader to systems biology using adverse drug ...