A5034762663- RNA and protein synthesis mechanisms
- Bacterial Genetics and Biotechnology
- RNA Research and Splicing
- Genetic Neurodegenerative Diseases
- Viral Infectious Diseases and Gene Expression in Insects
- Gene Regulatory Network Analysis
- RNA modifications and cancer
- Immune Cell Function and Interaction
- Mitochondrial Function and Pathology
- CRISPR and Genetic Engineering
- Genomics and Phylogenetic Studies
- Monoclonal and Polyclonal Antibodies Research
- Lysosomal Storage Disorders Research
- interferon and immune responses
- Genomics and Chromatin Dynamics
- Parkinson's Disease Mechanisms and Treatments
- Cancer Cells and Metastasis
- DNA Repair Mechanisms
- Marine and coastal plant biology
- Coastal wetland ecosystem dynamics
- Fungal and yeast genetics research
- Environmental and biological studies
- Ecology and Vegetation Dynamics Studies
- Public Health in Brazil
- Cancer Mechanisms and Therapy
University of Basel
2016-2021
QB3
2014-2018
University of California, Berkeley
2012-2018
University of Minho
2013-2016
Lawrence Berkeley National Laboratory
2014
GLC Biotechnology (United States)
2013
Alcoa (United States)
2008
Hospital de Egas Moniz
1994-2004
Medigene (Germany)
1993-1994
Hospital de Santo António
1993-1994
Ribosomes are highly conserved molecular machines whose core composition has traditionally been regarded as invariant. However, recent studies have reported intriguing differences in the expression of some ribosomal proteins (RPs) across tissues and specific effects on translation individual mRNAs. To determine whether RPs more generally linked to cell identity, we analyze heterogeneity RP a large set human tissues, primary cells, tumors. We find that about quarter exhibit tissue-specific...
The reliable forward engineering of genetic systems remains limited by the ad hoc reuse many types basic elements. Although a few intrinsic prokaryotic transcription terminators are used routinely, termination efficiencies have not been studied systematically. Here, we developed and validated architecture that enables measurement efficiencies. We then assembled collection 61 natural synthetic collectively encode across an ∼800-fold dynamic range within Escherichia coli . simulated...
In Saccharomyces cerevisiae, deletion of large ribosomal subunit protein-encoding genes increases the replicative lifespan in a Gcn4-dependent manner. However, how Gcn4, key transcriptional activator amino acid biosynthesis genes, lifespan, is unknown. Here we show that Gcn4 acts as repressor protein synthesis. By analyzing messenger RNA and abundance, ribosome occupancy synthesis rate various yeast strains, demonstrate sufficient to reduce increase lifespan. Chromatin immunoprecipitation...
The range over which a protein is expressed, and its cell-to-cell variability, often thought to be linked the demand for activity. Steady-state level determined by multiple mechanisms controlling transcription translation, many of are limited DNA- RNA-encoded signals that affect initiation, elongation termination polymerases ribosomes. We performed comprehensive analysis >100 sequence features derive predictive model composed minimal non-redundant set factors explaining 66% total variation...
The speed of translation elongation is primarily determined by the abundance tRNAs. Thus, codon usage influences rate with which individual mRNAs are translated. As nature tRNA pools and modifications can vary across biological conditions, rates may also vary, leading to fluctuations in protein production from mRNAs. Although it has been observed that functionally related exhibit similar usage, presumably provide an effective way coordinate expression multiple proteins, experimental evidence...
Abstract The RNA-binding proteins Roquin-1 and Roquin-2 redundantly control gene expression cell-fate decisions. Here, we show that Roquin not only interacts with stem–loop structures, but also a linear sequence element present in about half of its targets. Comprehensive analysis minimal response the Nfkbid 3′-UTR shows six structures cooperate to exert robust profound post-transcriptional regulation. Only binding multiple several stem–loops exerts full repression, which involved...
The relative frequency of the different autosomal dominant cerebellar ataxia (ADCA) varies widely amongst geographic locations. Here we describe a series 45 ADCA families from Portugal.Patients with progressive dysfunction transmission underwent clinical examination protocol and genetic testing for spinocerebellar (SCA)1 to Machado-Joseph disease (MJD)/SCA3, SCA6, SCA7, SCA10, SCA12, SCA17 dentatorubral-pallidoluysian atrophy (DRPLA). We registered characteristics each type ataxia.MJD/SCA3...
Current advances in DNA synthesis, cloning and sequencing technologies afford high-throughput implementation of artificial sequences into living cells. However, flexible computational tools for multi-objective sequence design are lacking, limiting the potential these technologies.We developed DNA-Tailor (D-Tailor), a fully extendable software framework, property-based synthetic sequences. D-Tailor permits seamless integration multiple analysis generic Monte Carlo simulation that evolves...
Article19 August 2020Open Access Prevention of dsRNA-induced interferon signaling by AGO1x is linked to breast cancer cell proliferation Souvik Ghosh orcid.org/0000-0003-4152-4460 Computational and Systems Biology, Biozentrum, University Basel, Switzerland Search for more papers this author Joao C Guimaraes Corresponding Author [email protected] orcid.org/0000-0002-1664-472X Manuela Lanzafame Institute Pathology, Hospital Alexander Schmidt Proteomics Core Facility, Afzal Pasha Syed Beatrice...
A dinâmica do componente arbustivo-arbóreo foi investigada em uma floresta de galeria aluvial Poços Caldas, Minas Gerais, entre 1998 e 2005. Os objetivos principais foram: investigar se as taxas das florestas aluviais são inferiores a outras formações florestais ripárias tropicais e, inundações periódicas geram variação espacial na no sentido Rio-Borda. amostragem composta 101 parcelas 10 × m, distribuídas 5 blocos ao longo de, aproximadamente, 8 km da Rio Antas. Cada bloco dividido 3...
Abstract Comparative analyses of natural sequences or variant libraries are often used to infer mechanisms expression, activity and evolution. Contingent selective histories small sample sizes can profoundly bias such approaches. Both limitations be lifted using precise design large-scale DNA synthesis. Here, we precisely 5 E. coli genomes worth synthetic untangle the relative contributions 8 interlaced sequence properties described independently as major determinants translation in...