A5074324891- RNA Research and Splicing
- MicroRNA in disease regulation
- RNA modifications and cancer
- Cancer-related molecular mechanisms research
- Genomics and Chromatin Dynamics
- Molecular Biology Techniques and Applications
- RNA and protein synthesis mechanisms
- Protist diversity and phylogeny
- Circular RNAs in diseases
- Genomics and Phylogenetic Studies
- Immune Cell Function and Interaction
- Plant Molecular Biology Research
- Developmental Biology and Gene Regulation
- Gene expression and cancer classification
- Cancer-related gene regulation
- Myxozoan Parasites in Aquatic Species
- RNA regulation and disease
- IL-33, ST2, and ILC Pathways
- Tuberculosis Research and Epidemiology
- Cancer Cells and Metastasis
- Cancer-related Molecular Pathways
- vaccines and immunoinformatics approaches
- Microbial Community Ecology and Physiology
- Ferroptosis and cancer prognosis
- RNA Interference and Gene Delivery
University of Cambridge
2004-2022
Cancer Research UK
2010-2018
Cancer Research UK Cambridge Center
2011-2018
Hebrew University of Jerusalem
1998-1999
RNA abundance and DNA copy number are routinely measured in high-throughput using microarray next-generation sequencing (NGS) technologies, the attributes of different platforms have been extensively analyzed. Recently, application both microarrays NGS has expanded to include microRNAs (miRNAs), but relative performance these methods not rigorously characterized. We analyzed three biological samples across six miRNA compared their hybridization performance. examined utility platforms, as...
Vg1 mRNA translocation to the vegetal cortex of Xenopus oocytes requires intact microtubules, and a 3′ UTR cis -acting element (termed VLE), which also mediates sequence-specific binding several proteins. One protein, 69-kD RBP, associates RNA microtubules in vitro. Here we show that RBP-binding sites correlate with localization. Purification cloning RBP revealed five RNA-binding motifs: four KH one RRM domains. Surprisingly, is highly homologous zipcode protein implicated...
Robust markers of invasiveness may help reduce the overtreatment in situ carcinomas. Breast cancer is a heterogeneous disease and biological mechanisms for carcinogenesis vary between subtypes. Stratification by subtype therefore necessary to identify relevant robust signatures invasive disease. We have identified microRNA (miRNA) alterations during breast progression two separate datasets used stratification external validation strengthen findings. analyzed (METABRIC AHUS) consisting total...
Amplification of the EMSY gene in sporadic breast and ovarian cancers is a poor prognostic indicator. Although has been linked to transcriptional silencing, its mechanism action unknown. Here, we report that acts as an oncogene, causing transformation cells vitro potentiating tumor formation metastatic features vivo. We identify inverse correlation between amplification miR-31 expression, antimetastatic microRNA, METABRIC cohort human samples. Re-expression profoundly reduced cell migration,...
Abstract Mycobacterium tuberculosis ( M. ) survives and multiplies inside human macrophages by subversion of immune mechanisms. Although these evasion strategies are well characterised functionally, the underlying molecular mechanisms poorly understood. Here we show that during infection whole blood with , host gene transcriptional suppression, rather than activation, is predominant response. Spatial, temporal functional characterisation repressed genes revealed their involvement in pathogen...
Poly(A)-binding protein (PABP) is an important regulator of gene expression that has been implicated in control translation initiation. Here we report the isolation and initial structural functional characterization human PABP gene. Delineation promoter region revealed it directs initiation transcription at consecutive C residues within a stretch pyrimidines. A study translational behavior corresponding mRNA demonstrates translationally repressed upon growth arrest cultured mouse fibroblasts...
Xenopus Vg1 mRNA is localized to the vegetal cortex during oogenesis in a process involving microtubules and microfilaments proteins that specifically recognize localization element (VLE) within 3' untranslated region. One of best characterized VLE-binding Vg1RBP or Vera. Primary sequence analysis its homologs suggests most open reading frame occupied by RNA-binding modules, including two RRMs four KH domains, arranged as three pairs didomains. In first detailed domain Vg1RBP, we show...
Imprinted gene clusters are regulated by long noncoding RNAs (lncRNAs), CCCTC binding factor (CTCF)-mediated boundaries, and DNA methylation. DIRAS3 (also known as ARH1 or NOEY1) is an imprinted encoding a protein belonging to the RAS superfamily of GTPases located within intron lncRNA called GNG12-AS1. In this study, we investigated whether GNG12-AS1 coregulated with DIRAS3. We report that coexpressed in several tissues coordinately downregulated breast cancers. has splice variants, all...
Introduction Most analyses of high throughput cancer data represent tumors by “atomistic” single‐gene properties. Pathifier, a recently introduced method, characterizes tumor in terms “coarse grained” pathway‐based variables. Methods We applied Pathifier to study very large dataset 2000 breast samples and 144 normal tissues. uses known gene assignments pathways biological processes calculate for each pathway Pathway Deregulation Score (PDS). Individual are represented their PDSs calculated...
Background: HER2 positive Breast Cancers (BC) have aggressive behavior and poor prognosis. Previously, we identified miR-342-5p as an upstream regulator of signaling, well inhibitor BC cell line growth. Objective: Here, aimed to further investigate the molecular mechanisms behind miR-342-5pinduced pathway deregulation. </P><P> Method: Two amplified breast cancer lines were transiently transfected with mimic or negative control, gene expression was analyzed by Agilent microarrays....
Abstract Reverse transcription is the first step of most analyses gene expression, yet quantitative biases it introduces are largely overlooked. Following a series purpose-designed systematic experiments we cherry-pick examples various introduced by reverse transcription, and alert “gene expression community” to pitfalls improved practice this fundamental technique.
Localization of mRNA is an important way generating early asymmetries in the developing embryo. In Drosophila , Staufen intimately involved localization maternally inherited mRNAs critical for cell fate determination We show that double-stranded RNA-binding proteins are present oocytes a vertebrate, Xenopus and localized to vegetal cytoplasm, region where including VegT Vg1 become localized. identified two isoforms named XStau1 XStau2, was found be principal protein oocytes, eggs, embryos,...
MicroRNAs are short (17–26) noncoding RNAs driving or modulating physiological and pathological cellular events. Overexpression of miR-155 is pathogenic in B-cell malignancy but was also reported a number solid tumors—in particular, breast cancer, where its role remains unclear often contradictory. Using representative cell line models, we sought to determine whether the discrepant effects cancer could be explained by heterogeneity disease. The growth six lines transfected with several miRNA...
Group-2 innate lymphoid cells (ILC2) play critical roles in the initiation and maintenance of type-2 immune responses, predominantly through their production cytokines IL-5, IL-9 IL-13. ILC2 are essential for efficient elimination helminth parasites, but also contribute to detrimental responses that underlie diseases such as asthma allergy. While several transcription factors have been identified regulate development function ILC2, less is known about post-transcriptional mechanisms these...
The use of cultured cell lines as model systems for normal tissue is limited by the molecular alterations accompanying immortalisation process, including changes in mRNA and microRNA (miRNA) repertoire. Therefore, identification with normal-like expression profiles paramount importance studies gene regulation.The miRNA several breast cancerous or origin were measured using printed slide arrays, Luminex bead real-time reverse transcription-polymerase chain reaction.We demonstrate that two are...
Xenopus Vg1RBP is a member of the highly conserved IMP family four KH-domain RNA binding proteins, with roles in localization, translational control, stability, and cell motility. has been implicated localizing Vg1 mRNAs to vegetal cortex during oogenesis, process mediated by microtubules microfilaments, migration neural crest cells embryos. Using c-mos morpholino, kinase inhibitors, constitutely active recombinant kinases we show that undergoes regulated phosphorylation Erk2 MAPK meiotic...
Cell cycle transitions spanning meiotic maturation of the Xenopus oocyte and early embryogenesis are tightly regulated at level stored inactive maternal mRNA. We investigated here translational control cyclin E1, required for metaphase II arrest unfertilised egg initiation S phase in embryo. show that E1 mRNA is by both cytoplasmic polyadenylation elements (CPEs) two miR-15/16 target sites within its 3'UTR. Moreover, we provide evidence microRNAs co-immunoprecipitate with CPE-binding protein...
The phototrophic bacterium Rhodopseudomonas palustris is emerging as a promising biotechnological chassis organism, due to its resilience range of harsh conditions, wide metabolic repertoire, and the ability quickly regenerate ATP using light. However, realization this promise impeded by lack efficient, rapid methods for genetic modification. Here, we present optimized tools generating chromosomal insertions deletions employing electroporation means transformation. Generation markerless...
Cytoplasmic polyadenylation-element-binding protein (CPEB) is a well-characterized and important regulator of translation maternal mRNA in early development organisms ranging from worms, flies clams to frogs mice. Previous studies provided evidence that clam Xenopus CPEB are hyperphosphorylated at germinal vesicle breakdown (GVBD) by cdc2 kinase, degraded shortly after. To examine the conserved features mediate its modification during meiotic maturation, we microinjected encoding wild-type...
Abstract Mitochondrial genomes of apicomplexans, dinoflagellates, and chrompodellids that collectively make up the Myzozoa, encode only three proteins (Cytochrome b [COB], Cytochrome c oxidase subunit 1 [COX1], 3 [COX3]), contain fragmented ribosomal RNAs, display extensive recombination, RNA trans-splicing, RNA-editing. The early-diverging Perkinsozoa is final major myzozoan lineage whose mitochondrial remained poorly characterized. Previous reports Perkinsus genes indicated independent...
(Molecular Cell 53, 806–818; March 6, 2014) Due to an error during the submission of this manuscript, we inadvertently omitted name one authors, Isaia Barbieri, from author list. The now appears in online version manuscript. Breast Cancer Oncogene EMSY Represses Transcription Antimetastatic microRNA miR-31Viré et al.Molecular CellFebruary 27, 2014In BriefEMSY gene amplification is indicator breast and ovarian cancers. Viré al. report that oncogene functions by repressing transcription...