Search Results - "Petrosino, Giuseppe"

R-loop proximity proteomics identifies a role of DDX41 in transcription-associated genomic instability by Mosler, Thorsten, Conte, Francesca, Longo, Gabriel M. C., Mikicic, Ivan, Kreim, Nastasja, Möckel, Martin M., Petrosino, Giuseppe, Flach, Johanna, Barau, Joan, Luke, Brian, Roukos, Vassilis, Beli, Petra

“…Transcription poses a threat to genomic stability through the formation of R-loops that can obstruct progression of replication forks. R-loops are…”
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Annocript: a flexible pipeline for the annotation of transcriptomes able to identify putative long noncoding RNAs by Musacchia, Francesco, Basu, Swaraj, Petrosino, Giuseppe, Salvemini, Marco, Sanges, Remo

“…The eukaryotic transcriptome is composed of thousands of coding and long non-coding RNAs (lncRNAs). However, we lack a software platform to identify both RNA…”
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Genome-wide Nucleotide-Resolution Mapping of DNA Replication Patterns, Single-Strand Breaks, and Lesions by GLOE-Seq by Sriramachandran, Annie M., Petrosino, Giuseppe, Méndez-Lago, María, Schäfer, Axel J., Batista-Nascimento, Liliana S., Zilio, Nicola, Ulrich, Helle D.

“…DNA single-strand breaks (SSBs) are among the most common lesions in the genome, arising spontaneously and as intermediates of many DNA transactions…”
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Lin28 is induced in primed embryonic stem cells and regulates let‐7‐independent events by Parisi, Silvia, Passaro, Fabiana, Russo, Luigi, Musto, Anna, Navarra, Angelica, Romano, Simona, Petrosino, Giuseppe, Russo, Tommaso

“…ABSTRACT Lin28 RNA‐binding proteins play important roles in pluripotent stem cells, but the regulation of their expression and the mechanisms underlying their…”
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Proteomic profiling of VCP substrates links VCP to K6‐linked ubiquitylation and c‐Myc function by Heidelberger, Jan B, Voigt, Andrea, Borisova, Marina E, Petrosino, Giuseppe, Ruf, Stefanie, Wagner, Sebastian A, Beli, Petra

“…Valosin‐containing protein (VCP) is an evolutionarily conserved ubiquitin‐dependent ATPase that mediates the degradation of proteins through the…”
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Spatial Chromosome Folding and Active Transcription Drive DNA Fragility and Formation of Oncogenic MLL Translocations by Gothe, Henrike Johanna, Bouwman, Britta Annika Maria, Gusmao, Eduardo Gade, Piccinno, Rossana, Petrosino, Giuseppe, Sayols, Sergi, Drechsel, Oliver, Minneker, Vera, Josipovic, Natasa, Mizi, Athanasia, Nielsen, Christian Friberg, Wagner, Eva-Maria, Takeda, Shunichi, Sasanuma, Hiroyuki, Hudson, Damien Francis, Kindler, Thomas, Baranello, Laura, Papantonis, Argyris, Crosetto, Nicola, Roukos, Vassilis

“…How spatial chromosome organization influences genome integrity is still poorly understood. Here, we show that DNA double-strand breaks (DSBs) mediated by…”
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Transcriptome sequencing of three Pseudo-nitzschia species reveals comparable gene sets and the presence of Nitric Oxide Synthase genes in diatoms by Di Dato, Valeria, Musacchia, Francesco, Petrosino, Giuseppe, Patil, Shrikant, Montresor, Marina, Sanges, Remo, Ferrante, Maria Immacolata

“…Diatoms are among the most diverse eukaryotic microorganisms on Earth, they are responsible for a large fraction of primary production in the oceans and can be…”
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Lipopolysaccharide-Elicited TSLPR Expression Enriches a Functionally Discrete Subset of Human CD14 + CD1c + Monocytes by Borriello, Francesco, Iannone, Raffaella, Di Somma, Sarah, Vastolo, Viviana, Petrosino, Giuseppe, Visconte, Feliciano, Raia, Maddalena, Scalia, Giulia, Loffredo, Stefania, Varricchi, Gilda, Galdiero, Maria Rosaria, Granata, Francescopaolo, Del Vecchio, Luigi, Portella, Giuseppe, Marone, Gianni

“…Thymic stromal lymphopoietin (TSLP) is a cytokine produced mainly by epithelial cells in response to inflammatory or microbial stimuli and binds to the TSLP…”
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Genome-wide detection of DNA double-strand breaks by in-suspension BLISS by Bouwman, Britta A. M., Agostini, Federico, Garnerone, Silvano, Petrosino, Giuseppe, Gothe, Henrike J., Sayols, Sergi, Moor, Andreas E., Itzkovitz, Shalev, Bienko, Magda, Roukos, Vassilis, Crosetto, Nicola

“…sBLISS (in-suspension breaks labeling in situ and sequencing) is a versatile and widely applicable method for identification of endogenous and induced DNA…”
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MicroRNA-199b-5p impairs cancer stem cells through negative regulation of HES1 in medulloblastoma by Garzia, Livia, Andolfo, Immacolata, Cusanelli, Emilio, Marino, Natascia, Petrosino, Giuseppe, De Martino, Daniela, Esposito, Veronica, Galeone, Aldo, Navas, Luigi, Esposito, Silvia, Gargiulo, Sara, Fattet, Sarah, Donofrio, Vittoria, Cinalli, Giuseppe, Brunetti, Arturo, Vecchio, Luigi Del, Northcott, Paul A, Delattre, Olivier, Taylor, Michael D, Iolascon, Achille, Zollo, Massimo

“…Through negative regulation of gene expression, microRNAs (miRNAs) can function in cancers as oncosuppressors, and they can show altered expression in various…”
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Loss of the Otx2-Binding Site in the Nanog Promoter Affects the Integrity of Embryonic Stem Cell Subtypes and Specification of Inner Cell Mass-Derived Epiblast by Acampora, Dario, Omodei, Daniela, Petrosino, Giuseppe, Garofalo, Arcomaria, Savarese, Marco, Nigro, Vincenzo, Di Giovannantonio, Luca Giovanni, Mercadante, Vincenzo, Simeone, Antonio

“…Mouse embryonic stem cells (ESCs) and the inner cell mass (ICM)-derived epiblast exhibit naive pluripotency. ESC-derived epiblast stem cells (EpiSCs) and the…”
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Identification of LINE retrotransposons and long non-coding RNAs expressed in the octopus brain by Petrosino, Giuseppe, Ponte, Giovanna, Volpe, Massimiliano, Zarrella, Ilaria, Ansaloni, Federico, Langella, Concetta, Di Cristina, Giulia, Finaurini, Sara, Russo, Monia T, Basu, Swaraj, Musacchia, Francesco, Ristoratore, Filomena, Pavlinic, Dinko, Benes, Vladimir, Ferrante, Maria I, Albertin, Caroline, Simakov, Oleg, Gustincich, Stefano, Fiorito, Graziano, Sanges, Remo

“…Transposable elements (TEs) widely contribute to the evolution of genomes allowing genomic innovations, generating germinal and somatic heterogeneity, and…”
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The micro-RNA 199b-5p regulatory circuit involves Hes1, CD15, and epigenetic modifications in medulloblastoma by Andolfo, Immacolata, Liguori, Lucia, De Antonellis, Pasqualino, Cusanelli, Emilio, Marinaro, Federica, Pistollato, Francesca, Garzia, Livia, De Vita, Gennaro, Petrosino, Giuseppe, Accordi, Benedetta, Migliorati, Roberta, Basso, Giuseppe, Iolascon, Achille, Cinalli, Giuseppe, Zollo, Massimo

“…Micro-RNA (miR) 199b-5p targets Hes1 in medulloblastoma, one of the downstream effectors of both the canonical Notch and noncanonical Sonic Hedgehog pathways…”
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Preparation and Analysis of GLOE-Seq Libraries for Genome-Wide Mapping of DNA Replication Patterns, Single-Strand Breaks, and Lesions by Petrosino, Giuseppe, Zilio, Nicola, Sriramachandran, Annie M., Ulrich, Helle D.

“…GLOE-Seq is a next-generation sequencing method for the genome-wide mapping of 3′-OH termini, either resulting from single- or double-strand breaks or…”
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The metallophosphodiesterase Mpped2 impairs tumorigenesis in neuroblastoma by Liguori, Lucia, Andolfo, Immacolata, De Antonellis, Paqualino, Aglio, Veruska, di Dato, Valeria, Marino, Natascia, Ivan Orlotti, Nicola, De Martino, Daniela, Capasso, Mario, Petrosino, Giuseppe, Schramm, Alexander, Navas, Luigi, Tonini, Gian Paolo, Eggert, Angelika, Iolascon, Achille, Zollo, Massimo

“…Through microarray analyses, we identified the Mpped2 gene as differentially expressed in two neuroblastoma cell lines induced to differentiation with…”
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Detection of erbB2 copy number variations in plasma of patients with esophageal carcinoma by Andolfo, Immacolata, Petrosino, Giuseppe, Vecchione, Loredana, De Antonellis, Pasqualino, Capasso, Mario, Montanaro, Donatella, Gemei, Marica, Troncone, Giancarlo, Iolascon, Achille, Orditura, Michele, Ciardiello, Fortunato, De Vita, Fernando, Zollo, Massimo

“…Mortality is high in patients with esophageal carcinoma as tumors are rarely detected before the disease has progressed to an advanced stage. Here, we sought…”
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Common genetic variants in NEFL influence gene expression and neuroblastoma risk by Capasso, Mario, Diskin, Sharon, Cimmino, Flora, Acierno, Giovanni, Totaro, Francesca, Petrosino, Giuseppe, Pezone, Lucia, Diamond, Maura, McDaniel, Lee, Hakonarson, Hakon, Iolascon, Achille, Devoto, Marcella, Maris, John M

“…The genetic etiology of sporadic neuroblastoma is still largely obscure. In a genome-wide association study, we identified single-nucleotide polymorphisms…”
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Exploratory Experiments on Programming Autonomous Robots in Jadescript by Iotti, Eleonora, Petrosino, Giuseppe, Monica, Stefania, Bergenti, Federico

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Hmga2 is necessary for Otx2-dependent exit of embryonic stem cells from the pluripotent ground state by Navarra, Angelica, Musto, Anna, Gargiulo, Anna, Petrosino, Giuseppe, Pierantoni, Giovanna Maria, Fusco, Alfredo, Russo, Tommaso, Parisi, Silvia

“…A crucial event in the differentiation of mouse embryonic stem cells (ESCs) is the exit from the pluripotent ground state that leads to the acquisition of the…”
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An 18 gene expression-based score classifier predicts the clinical outcome in stage 4 neuroblastoma by Formicola, Daniela, Petrosino, Giuseppe, Lasorsa, Vito Alessandro, Pignataro, Piero, Cimmino, Flora, Vetrella, Simona, Longo, Luca, Tonini, Gian Paolo, Oberthuer, André, Iolascon, Achille, Fischer, Matthias, Capasso, Mario

“…The prognosis of children with metastatic stage 4 neuroblastoma (NB) has remained poor in the past decade. Using microarray analyses of 342 primary tumors, we…”
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