A5089495557- Bioinformatics and Genomic Networks
- Functional Brain Connectivity Studies
- Gene expression and cancer classification
- Neonatal and fetal brain pathology
- Advanced Neuroimaging Techniques and Applications
- Gene Regulatory Network Analysis
- Health, Environment, Cognitive Aging
- Genetic Associations and Epidemiology
- Fetal and Pediatric Neurological Disorders
- RNA Research and Splicing
- Infant Development and Preterm Care
- Autoimmune Bullous Skin Diseases
- Dermatology and Skin Diseases
- Molecular Biology Techniques and Applications
- Genomic variations and chromosomal abnormalities
- Protein Structure and Dynamics
- RNA and protein synthesis mechanisms
- Microbial Metabolic Engineering and Bioproduction
- Psoriasis: Treatment and Pathogenesis
- Computational Drug Discovery Methods
- COVID-19 Clinical Research Studies
- Birth, Development, and Health
- Neonatal Respiratory Health Research
- Skin and Cellular Biology Research
- Breast Cancer Treatment Studies
Guy's and St Thomas' NHS Foundation Trust
2020-2025
King's College London
2020-2025
The London College
2022-2024
Evelina London Children's Healthcare
2022-2024
King's College - North Carolina
2022
University of Bergen
2015-2018
University of Patras
2007-2015
Prognostic characteristics inform risk stratification in intensive care unit (ICU) patients with coronavirus disease 2019 (COVID-19). We obtained blood samples (n = 474) from hospitalized COVID-19 123), non-COVID-19 ICU sepsis 25) and healthy controls 30). Severe acute respiratory syndrome 2 (SARS-CoV-2) RNA was detected plasma or serum (RNAemia) of when neutralizing antibody response low. RNAemia is associated higher 28-day mortality (hazard ratio [HR], 1.84 [95% CI, 1.22-2.77] adjusted for...
The Developing Human Connectome Project has created a large open science resource which provides researchers with data for investigating typical and atypical brain development across the perinatal period. It collected 1228 multimodal magnetic resonance imaging (MRI) datasets from 1173 fetal and/or neonatal participants, together collateral demographic, clinical, family, neurocognitive genomic data. All subjects were studied in utero soon after birth on single MRI scanner using specially...
The syndrome of spontaneous preterm birth (sPTB) presents a challenge to mechanistic understanding, effective risk stratification, and clinical management. Individual associations between sPTB, self-reported ethnic ancestry, vaginal microbiota, metabolome, innate immune response are known but not fully understood, knowledge has yet impact practice. Here, we used multi–data type integration composite statistical models gain insight into sPTB by exploring the cervicovaginal environment an...
Abstract Increasing lines of evidence suggest cerebral overgrowth in autism spectrum disorder (ASD) children early life, but few studies have examined the effect ASD common genetic variants on brain volumes a general paediatric population. This study association between polygenic risk score (PRS) and frontal, temporal, parietal, occipital, fronto-temporal parieto-occipital lobes 273 term-born infants European ancestry developing Human Connectome Project. PRS was positively associated with...
Abstract Background Nowadays modern biology aims at unravelling the strands of complex biological structures such as protein-protein interaction (PPI) networks. A key concept in organization PPI networks is existence dense subnetworks (functional modules) them. In recent approaches clustering algorithms were applied these and resulting evaluated by estimating coverage well-established protein complexes they contained. However, most elaborate on an unweighted graph structure which turn fails...
Abstract Motivation: In the era of network medicine and rapid growth paired time series mRNA/microRNA expression experiments, there is an urgent need for pathway enrichment analysis methods able to capture time- condition-specific ‘active parts’ biological circuitry as well microRNA impact. Current ignore multiple dynamical ‘themes’—in form enriched biologically relevant microRNA-mediated subpathways—that determine functionality signaling networks across time. Results: To address these...
Increasing lines of evidence suggest white matter (WM) structural changes associated with autism can be detected in the first year life. Despite condition having high heritability, relationship between common genetic variants and WM during this period remains unclear. By employing advanced regional whole-brain fixel-based analysis, current study investigated association polygenic scores (PS) microscopic fibre density macrostructural morphology 221 term-born infants European ancestry from...
Adults born very preterm (i.e. at <33 weeks' gestation) are more susceptible to long-lasting structural and functional brain alterations cognitive socio-emotional difficulties, compared with full-term controls. However, behavioural heterogeneity within individuals makes it challenging find biomarkers of specific outcomes. To address these questions, we parsed brain-behaviour in participants subdivided according their clinical birth status (very versus full term) and/or data-driven phenotype...
Abstract We here examined whether Nestin, by protein and mRNA levels, could be a predictor of BRCA1 related breast cancer, basal-like phenotype, aggressive tumours. Immunohistochemical staining Nestin was done in independent cancer hospital cohorts (Series I-V, total 1257 cases). Also, TCGA proteomic data (n = 103), microarray from 520), METABRIC 1992), 6 open access datasets 1908) were analysed. Patients with expression tumour cells more often had germline mutations (OR 8.7, p < 0.0005,...
The ever-increasing flow of gene expression and protein-protein interaction (PPI) data has assisted in understanding the dynamics cell. detection functional modules is first step deciphering apparent modularity biological networks. However, most network-partitioning algorithms consider only topological aspects ignore underlying relationships. In current study we integrate proteomics microarray yeast, form a weighted PPI graph. We partition enriched network with novel DetMod algorithm...
Recent advances in pharmacogenomics technologies allow bold steps to be taken towards personalized medicine, more accurate health planning, and drug development. In this framework, systems pharmacology network-based approaches offer an appealing way for integrating multi-omics data set the basis defining systems-level response biomarkers. On road individualized tamoxifen treatment estrogen receptor-positive breast cancer patients, we examine dynamics of attendant pharmacological mechanisms....
Towards discovering robust cancer biomarkers, it is imperative to unravel the cellular heterogeneity of patient samples and comprehend interactions between cells various cell types in tumor microenvironment. The first generation 'partial' computational deconvolution methods required prior information either on cell/tissue type proportions or type-specific expression signatures number involved types. second 'complete' approaches allowed estimating both profiles directly from mixed gene data,...
Towards unraveling the influenza A (H1N1) immunome, this work aims at constructing murine host response pathway interactome. To accomplish that, an ensemble of dynamic and time-varying Gene Regulatory Network Inference methodologies was recruited to set a confident interactome based on mouse time series transcriptome data (day 1–day 60). The proposed H1N1 demonstrated significant transformations among activated suppressed pathways in time. Enhanced interplay observed day 1, while maximal...
1. Abstract Recent genome-wide association studies have identified numerous single nucleotide polymorphisms (SNPs) associated with subcortical brain volumes. These been undertaken in largely adult cohorts. To better understand the role of genetic variability foetal and perinatal development, we investigate how common variation affects development a cohort 208 term-born infants from Developing Human Connectome Project. We examine six SNPs, that shown robust associations volumes ask if these...
Increasing lines of evidence suggest deviations from the normal early developmental trajectory could give rise to onset schizophrenia during adolescence and young adulthood, but few studies have investigated brain imaging changes associated with common variants in neonates. This study compared volumes both grey white matter regions polygenic risk scores (PRS) for 207 healthy term-born infants European ancestry. Linear regression was used estimate relationship between PRS volumes, gestational...
Increasing lines of evidence suggest cerebral overgrowth in autism spectrum disorder (ASD) children early life, but few studies have examined the effect ASD common genetic variants on brain volumes a general paediatric population. This study association between polygenic risk score (PRS) and frontal, temporal, parietal, occipital, fronto-temporal parieto-occipital lobes 273 term-born infants European ancestry developing Human Connectome Project. PRS was positively associated with frontal (β...
Abstract Prognostic characteristics inform risk stratification in intensive care unit (ICU) patients with coronavirus disease 2019 (COVID-19). We obtained blood samples (n = 474) from hospitalized COVID-19 123), non-COVID-19 ICU sepsis 25) and healthy controls 30). Severe acute respiratory syndrome 2 (SARS-CoV-2) RNA was detected plasma or serum (RNAemia) of when neutralizing antibody response low. RNAemia associated higher 28-day mortality (hazard ratio [HR], 1.84 [95% CI, 1.22–2.77]...
Abstract Very preterm birth (VPT; ≤32 weeks’ gestation) is associated with altered brain development and cognitive behavioral difficulties across the lifespan. However, heterogeneity in outcomes among individuals born VPT makes it challenging to identify those most vulnerable neurodevelopmental sequelae. Here, we aimed stratify children into distinct subgroups explore between-subgroup differences neonatal structure function. 198 (98 females) previously enrolled Evaluation of Preterm Imaging...
MicroRNAs play an important role in regulation of gene expression, but still detection their targets remains a challenge. In this work we present supervised regulatory network inference method with aim to identify potential target genes (mRNAs) microRNAs. Briefly, the proposed exploiting mRNA and microRNA expression trains Random Forests on known interactions subsequently it is able predict novel ones. parallel, incorporate different available data sources, such as Gene Ontology...
It has already been established by the systems-level approaches that future of predictive disease biomarkers will not be sketched plain lists genes or proteins other biological entities but rather integrated consider all underlying component relationships. Towards this orientation, early pathway-based coupled expression data with whole pathway interaction topologies it was recent zoomed into subpathways (local areas entire pathway) provided more targeted and context-specific candidate...