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Aug 1, 2024 | 
jneuroinflammation.biomedcentral.com | Ludwig-Maximilians-Universität München |Bioinformatics Unit |Proteomics Core |Helmholtz Zentrum München
All animal experiments were performed in accordance with the ARVO statement on the use of animals in ophthalmic and vision research and were approved by the local authorities (Regierung von Oberbayern, ROB-55.2-2532.Vet_02-18-143). Mice were kept under standard conditions on a 12 h light/ dark cycle with access to water and food ad libitum. Pde6bSTOP mice were generated in the Barbara & Donald Jonas Stem Cells Laboratory, Columbia University, USA [77].
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Jul 22, 2024 | 
academic.oup.com | Bioinformatics Unit |Dario Simionato
Recent advances in DNA sequencing technologies have allowed the detailed characterization of genomes in large cohorts of tumors, highlighting their extreme heterogeneity, with no two tumors sharing the same complement of somatic mutations. Such heterogeneity hinders our ability to identify somatic mutations important for the disease, including mutations that determine clinically relevant phenotypes (e.g., cancer subtypes).
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Jul 2, 2024 | 
academic.oup.com | Bioinformatics Group |Bioinformatics Unit |Metazoa Phylogenomics Lab |Barrios-Núñez I
The current era of genomic biodiversity is associated with the generation of thousands of sequences, with around 250 million protein sequences now registered in the January release of UniProtKB. However, it is all too common that the function of these sequences is not determined experimentally.
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Apr 29, 2024 | 
academic.oup.com | Bioinformatics Unit |Ben-Porath I
Cellular senescence is a coordinated program activated in cells in situations of damage and oncogenesis, as well as in specific physiologic settings (1–3). The hallmarks of senescence are a permanent cell-cycle arrest, accompanied by a host of morphologic and metabolic changes, and, in some settings, a senescence-associated secretory phenotype (SASP), which involves secretion of inflammatory cytokines.
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Apr 24, 2024 | 
genomemedicine.biomedcentral.com | João Dourado |João Paulo |Bioinformatics Unit |Faculdade de Medicina
One of the main developments since INSaFLU’s first release [19] focused on upgrading the platform for automated metagenomic virus identification, in order to support both human and veterinary clinical practice and disease outbreak investigations.
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Apr 24, 2024 | 00157-7&sz=64)
cell.com | Rita Calado |Bioinformatics Unit |Daniel Sobral |Carolina Ferreira
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Apr 17, 2024 | 
link.springer.com | Beilinson Campus |Petah Tikva |Bioinformatics Unit
AbstractDistal Xq28 duplication, or int22h1/int22h2-mediated Xq28 duplication syndrome, leads to cognitive impairment, neurobehavioral issues, and facial dysmorphisms. Existing literature has limited information on clinical traits and penetrance.
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Mar 1, 2024 | 
link.springer.com | João Dourado |João Paulo |Bioinformatics Unit |Faculdade de Medicina
AbstractImplementation of clinical metagenomics and pathogen genomic surveillance can be particularly challenging due to the lack of bioinformatics tools and/or expertise. In order to face this challenge, we have previously developed INSaFLU, a free web-based bioinformatics platform for virus next-generation sequencing data analysis. Here, we considerably expanded its genomic surveillance component and developed a new module (TELEVIR) for metagenomic virus identification.
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Feb 9, 2024 | 00115-7/abstract&sz=64)
jbc.org | Laurent Gatto |Bioinformatics Unit |Philippe P. Roux
AbstractThe p90 ribosomal S6 kinases (RSK) family of serine/threonine kinases comprises four isoforms (RSK1-4) that lie downstream of the ERK1/2 mitogen-activated protein kinase (MAPK) pathway. RSKs are implicated in fine tuning of cellular processes such as translation, transcription, proliferation, and motility. Previous work showed that pathogens such as Cardioviruses could hijack any of the four RSK isoforms to inhibit PKR activation or to disrupt cellular nucleocytoplasmic trafficking.
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Dec 3, 2023 | 
nph.onlinelibrary.wiley.com | Hugues Richard |Bioinformatics Unit |Emilia Grypioti |Nikoleta Kryovrysanaki
Introduction RNA interference (RNAi) is a conserved mechanism of regulation of gene expression mediated by small RNAs (sRNAs; Farazi et al., 2008; Ghildiyal & Zamore, 2009). Intracellular double-stranded RNAs (ds-RNA) are cleaved by RNase III-like ribonuclease enzymes of the Dicer (DCR) family into small (c. 20–35 nt) ds-sRNA, which are subsequently incorporated into an ARGONAUTE (AGO)-containing complex known as the RNA-induced silencing complex (RISC).
