A5035004260- Circadian rhythm and melatonin
- Light effects on plants
- Genetics, Aging, and Longevity in Model Organisms
- Epigenetics and DNA Methylation
- Biosimilars and Bioanalytical Methods
- Inflammatory Bowel Disease
- Monoclonal and Polyclonal Antibodies Research
- Protein purification and stability
- Single-cell and spatial transcriptomics
- Diet and metabolism studies
- Gastrointestinal Bleeding Diagnosis and Treatment
- Mobile Health and mHealth Applications
- Health, Environment, Cognitive Aging
- Lung Cancer Diagnosis and Treatment
- Genomics and Chromatin Dynamics
- Colorectal Cancer Screening and Detection
- Spaceflight effects on biology
- Lung Cancer Treatments and Mutations
- Leptospirosis research and findings
- Photoreceptor and optogenetics research
- Kidney Stones and Urolithiasis Treatments
- Sirtuins and Resveratrol in Medicine
- Dietary Effects on Health
- Intraperitoneal and Appendiceal Malignancies
- Cerebral Venous Sinus Thrombosis
University of Geneva
2019-2024
Novartis (Switzerland)
2012-2024
Geneva College
2024
SIB Swiss Institute of Bioinformatics
2005-2022
Addenbrooke's Hospital
2013-2021
University of Cambridge
2013-2021
STATinMED (United States)
2021
Institut Pasteur
2020
The Francis Crick Institute
2017-2018
École Polytechnique Fédérale de Lausanne
2005-2017
Temporal mapping during a circadian day of binding sites for the BMAL1 transcription factor in mouse liver reveals genome-wide daily rhythms DNA and uncovers output functions that are controlled by oscillator.
In mammalian tissues, circadian gene expression can be driven by local oscillators or systemic signals controlled the master pacemaker in suprachiasmatic nucleus. We show that simulated body temperature cycles, but not peripheral oscillators, rhythmic of cold-inducible RNA-binding protein (CIRP) cultured fibroblasts. turn, loss-of-function experiments indicated CIRP was required for high-amplitude expression. The transcriptome-wide identification CIRP-bound RNAs a biotin-streptavidin-based...
Noncoding variation and gene expression Natural genetic outside of protein coding regions affects multiple molecular phenotypes that can differ across individuals. To examine how genomic proximal (cis) or distal (trans) regulation, Delaneau et al. analyzed expression, chromatin, the three-dimensional conformation genome. Clustering regulatory elements activity individuals reveals structures termed cis-regulatory domains trans-regulatory hubs affect expression. Associations between these...
The circadian clock is a ubiquitous timekeeping system that organizes the behavior and physiology of organisms over day night. Current models rely on transcriptional networks coordinate gene expression thousands transcripts. However, recent studies have uncovered phylogenetically conserved redox rhythms can occur independently cycles. Here we identify pentose phosphate pathway (PPP), critical source cofactor NADPH, as an important regulator oscillations. Our results show genetic...
Abstract Circadian clocks coordinate mammalian behavior and physiology enabling organisms to anticipate 24-hour cycles. Transcription-translation feedback loops are thought drive these in most of cells. However, red blood cells (RBCs), which do not contain a nucleus, cannot perform transcription or translation, nonetheless exhibit circadian redox rhythms. Here we show human RBCs display regulation glucose metabolism, is required sustain daily oscillations. We found rhythms metabolite levels...
Many organisms exhibit temporal rhythms in gene expression that propel diurnal cycles physiology. In the liver of mammals, these are controlled by transcription–translation feedback loops core circadian clock and feeding–fasting cycles. To better understand regulatory interplay between feeding rhythms, we mapped DNase I hypersensitive sites (DHSs) mouse during a cycle. The intensity cleavages cycled at substantial fraction all DHSs, suggesting DHSs harbor elements control rhythmic...
Abstract Background and aims Treatment with tumor necrosis factor α (TNFα) antagonists in IBD patients suffers from primary non-response rates of up to 40%. Biomarkers for early prediction therapy success are missing. We investigated the dynamics gene expression DNA methylation blood samples treated TNF antagonist infliximab analyzed predictive potential regarding outcome. Methods performed a longitudinal, blood-based multi-omics study two prospective patient cohorts receiving first-time...
Article6 August 2018Open Access Transparent process Metabolic oscillations on the circadian time scale in Drosophila cells lacking clock genes Guillaume Rey Corresponding Author [email protected] orcid.org/0000-0001-7664-7052 The Francis Crick Institute, London, UK Search for more papers by this author Nikolay B Milev Utham K Valekunja Ratnasekhar Ch UCL Institute of Neurology, Sandipan Ray Mariana Silva Dos Santos orcid.org/0000-0003-2404-8490 Andras D Nagy orcid.org/0000-0003-1759-4039...
The Human Leukocyte Antigen (HLA) is a critical genetic system for different outcomes after solid organ and hematopoietic cell transplantation. Its polymorphism usually determined by molecular technologies at the DNA level. A potential role of HLA allelic expression remains under investigation in context allogenic immune response between donors recipients. In this study, we quantified all three class I loci (HLA-A, B C) RNA sequencing conducted an analysis quantitative traits (eQTL) to...
Pathogenic Leptospira spp. are the causative agents of waterborne zoonotic disease leptospirosis. challenged by numerous adverse conditions, including deadly reactive oxygen species (ROS), when infecting their hosts. Withstanding ROS produced host innate immunity is an important strategy evolved pathogenic for persisting in and colonizing In L. interrogans, genes encoding defenses against repressed peroxide stress regulator, PerR. this study, RNA sequencing was performed to characterize both...
Circadian oscillator networks rely on a transcriptional activator called CLOCK/CYCLE (CLK/CYC) in insects and CLOCK/BMAL1 or NPAS2/BMAL1 mammals. Identifying the targets of this heterodimeric basic-helix-loop-helix (bHLH) transcription factor poses challenges it has been difficult to decipher its specific sequence affinity beyond canonical E-box motif, except perhaps for some flanking bases contributing weakly binding energy. Thus, no good computational model presently exists predicting...
In a joint retrospective study by 17 radiotherapy clinics in German-speaking countries the results of treatment bronchial carcinoma after were analysed 7503 cases. The age peak was between 60th and 70th year. Squamous-cell most frequent histological type, followed anaplastic carcinoma, with adenocarcinoma being rare. There high proportion histologically not clearly identified cases (27% central 35% peripheral carcinomas). Survival rate at one year 31% for (3662 patients) (961 tumours, but...
The development of newer-generation lithotripters has reduced the pain associated with SWL, but many patients still require some form sedation. We prospectively compared analgesic requirements for kidney and upper ureteral treatments. Predictive factors during piezoelectric SWL were also studied.A total 102 consecutive without any previous experience treated renal (N = 70) or 32) calculi using EDAP LT02 lithotripter. stones' largest diameter ranged from 4 to 30 mm (mean 9 mm). Patients given...
Abstract Many organisms exhibit temporal rhythms in gene expression that propel diurnal cycles physiology. In the liver of mammals, these are controlled by transcription-translation feedback loops core circadian clock and feeding-fasting cycles. To better understand regulatory interplay between feeding rhythms, we mapped DNase I hypersensitive sites (DHSs) mouse during a cycle. The intensity cleavages cycled at substantial fraction all DHSs, suggesting DHSs harbor elements control rhythmic...