Search Results - "Calogero, Raffaele"

Clonal analysis of lineage fate in native haematopoiesis by Rodriguez-Fraticelli, Alejo E., Wolock, Samuel L., Weinreb, Caleb S., Panero, Riccardo, Patel, Sachin H., Jankovic, Maja, Sun, Jianlong, Calogero, Raffaele A., Klein, Allon M., Camargo, Fernando D.

“…Transposon tagging to clonally trace progenitors and stem cells provides evidence for a substantially revised roadmap for unperturbed haematopoiesis, and…”
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YAP Drives Growth by Controlling Transcriptional Pause Release from Dynamic Enhancers by Galli, Giorgio G., Carrara, Matteo, Yuan, Wei-Chien, Valdes-Quezada, Christian, Gurung, Basanta, Pepe-Mooney, Brian, Zhang, Tinghu, Geeven, Geert, Gray, Nathanael S., de Laat, Wouter, Calogero, Raffaele A., Camargo, Fernando D.

“…The Hippo/YAP signaling pathway is a crucial regulator of tissue growth, stem cell activity, and tumorigenesis. However, the mechanism by which YAP controls…”
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Single-Cell RNAseq Data QC and Preprocessing by Olivero, Martina, Calogero, Raffaele A

“…The first step in single-cell RNAseq data analysis is the evaluation of the overall quality of the cell transcriptome and the preparation of the single-cell…”
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Single-Cell RNAseq Complexity Reduction by Cordero, Francesca, Calogero, Raffaele A

“…An important step in single-cell RNAseq data analysis is the preparation of the single cell transcription data for cell sub-population partitioning. In this…”
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Functional-Feature-Based Data Reduction Using Sparsely Connected Autoencoders by Alessandri, Luca, Calogero, Raffaele A

“…Single-cell RNA sequencing (scRNA-seq) allows for the creation of large collections of individual cells transcriptome. Unsupervised clustering is an essential…”
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Live-animal imaging of native haematopoietic stem and progenitor cells by Christodoulou, Constantina, Spencer, Joel A., Yeh, Shu-Chi A., Turcotte, Raphaël, Kokkaliaris, Konstantinos D., Panero, Riccardo, Ramos, Azucena, Guo, Guoji, Seyedhassantehrani, Negar, Esipova, Tatiana V., Vinogradov, Sergei A., Rudzinskas, Sarah, Zhang, Yi, Perkins, Archibald S., Orkin, Stuart H., Calogero, Raffaele A., Schroeder, Timm, Lin, Charles P., Camargo, Fernando D.

“…The biology of haematopoietic stem cells (HSCs) has predominantly been studied under transplantation conditions 1 , 2 . It has been particularly challenging to…”
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Regenerative Reprogramming of the Intestinal Stem Cell State via Hippo Signaling Suppresses Metastatic Colorectal Cancer by Cheung, Priscilla, Xiol, Jordi, Dill, Michael T., Yuan, Wei-Chien, Panero, Riccardo, Roper, Jatin, Osorio, Fernando G., Maglic, Dejan, Li, Qi, Gurung, Basanta, Calogero, Raffaele A., Yilmaz, Ömer H., Mao, Junhao, Camargo, Fernando D.

“…Although the Hippo transcriptional coactivator YAP is considered oncogenic in many tissues, its roles in intestinal homeostasis and colorectal cancer (CRC)…”
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Histone methyltransferase MMSET/NSD2 alters EZH2 binding and reprograms the myeloma epigenome through global and focal changes in H3K36 and H3K27 methylation by Popovic, Relja, Martinez-Garcia, Eva, Giannopoulou, Eugenia G, Zhang, Quanwei, Zhang, Qingyang, Ezponda, Teresa, Shah, Mrinal Y, Zheng, Yupeng, Will, Christine M, Small, Eliza C, Hua, Youjia, Bulic, Marinka, Jiang, Yanwen, Carrara, Matteo, Calogero, Raffaele A, Kath, William L, Kelleher, Neil L, Wang, Ji-Ping, Elemento, Olivier, Licht, Jonathan D

“…Overexpression of the histone methyltransferase MMSET in t(4;14)+ multiple myeloma patients is believed to be the driving factor in the pathogenesis of this…”
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The Hippo Transducer YAP1 Transforms Activated Satellite Cells and Is a Potent Effector of Embryonal Rhabdomyosarcoma Formation by Tremblay, Annie M., Missiaglia, Edoardo, Galli, Giorgio G., Hettmer, Simone, Urcia, Roby, Carrara, Matteo, Judson, Robert N., Thway, Khin, Nadal, Gema, Selfe, Joanna L., Murray, Graeme, Calogero, Raffaele A., De Bari, Cosimo, Zammit, Peter S., Delorenzi, Mauro, Wagers, Amy J., Shipley, Janet, Wackerhage, Henning, Camargo, Fernando D.

“…The role of the Hippo pathway effector YAP1 in soft tissue sarcomas is poorly defined. Here we report that YAP1 activity is elevated in human embryonal…”
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NUAK2 is a critical YAP target in liver cancer by Yuan, Wei-Chien, Pepe-Mooney, Brian, Galli, Giorgio G., Dill, Michael T., Huang, Hai-Tsang, Hao, Mingfeng, Wang, Yumeng, Liang, Han, Calogero, Raffaele A., Camargo, Fernando D.

“…The Hippo-YAP signaling pathway is a critical regulator of proliferation, apoptosis, and cell fate. The main downstream effector of this pathway, YAP, has been…”
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Mesenchymal stem cell-derived microvesicles protect against acute tubular injury by Bruno, Stefania, Grange, Cristina, Deregibus, Maria Chiara, Calogero, Raffaele A, Saviozzi, Silvia, Collino, Federica, Morando, Laura, Busca, Alessandro, Falda, Michele, Bussolati, Benedetta, Tetta, Ciro, Camussi, Giovanni

“…Administration of mesenchymal stem cells (MSCs) improves the recovery from acute kidney injury (AKI). The mechanism may involve paracrine factors promoting…”
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State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues? by Carrara, Matteo, Beccuti, Marco, Cavallo, Federica, Donatelli, Susanna, Lazzarato, Fulvio, Cordero, Francesca, Calogero, Raffaele A

“…RNA-seq has the potential to discover genes created by chromosomal rearrangements. Fusion genes, also known as "chimeras", are formed by the breakage and…”
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State-of-the-Art Fusion-Finder Algorithms Sensitivity and Specificity by Calogero, Raffaele, Cordero, Francesca, Cavallo, Federica, Lazzarato, Fulvio, Beccuti, Marco, Carrara, Matteo, Donatelli, Susanna

“…Background. Gene fusions arising from chromosomal translocations have been implicated in cancer. RNA-seq has the potential to discover such rearrangements…”
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Endothelial progenitor cell–derived microvesicles activate an angiogenic program in endothelial cells by a horizontal transfer of mRNA by Deregibus, Maria Chiara, Cantaluppi, Vincenzo, Calogero, Raffaele, Lo Iacono, Marco, Tetta, Ciro, Biancone, Luigi, Bruno, Stefania, Bussolati, Benedetta, Camussi, Giovanni

“…Membrane-derived microvesicles (MVs) are released from the cell surface and are implicated in cell-to-cell communication. We evaluated whether MVs derived from…”
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Reproducible bioinformatics project: a community for reproducible bioinformatics analysis pipelines by Kulkarni, Neha, Alessandrì, Luca, Panero, Riccardo, Arigoni, Maddalena, Olivero, Martina, Ferrero, Giulio, Cordero, Francesca, Beccuti, Marco, Calogero, Raffaele A

“…Reproducibility of a research is a key element in the modern science and it is mandatory for any industrial application. It represents the ability of…”
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YAP‐TEAD signaling promotes basal cell carcinoma development via a c‐JUN/AP1 axis by Maglic, Dejan, Schlegelmilch, Karin, Dost, Antonella FM, Panero, Riccardo, Dill, Michael T, Calogero, Raffaele A, Camargo, Fernando D

“…The mammalian Hippo signaling pathway, through its effectors YAP and TAZ, coerces epithelial progenitor cell expansion for appropriate tissue development or…”
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The noninflammatory role of high mobility group box 1/toll‐like receptor 2 axis in the self‐renewal of mammary cancer stem cells by Conti, Laura, Lanzardo, Stefania, Arigoni, Maddalena, Antonazzo, Roberta, Radaelli, Enrico, Cantarella, Daniela, Calogero, Raffaele A., Cavallo, Federica

“…Cancer stem cells (CSCs) are responsible for tumor progression, metastases, resistance to therapy, and tumor recurrence. Therefore, the identification of…”
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Sparsely Connected Autoencoders: A Multi-Purpose Tool for Single Cell omics Analysis by Alessandri, Luca, Ratto, Maria Luisa, Contaldo, Sandro Gepiro, Beccuti, Marco, Cordero, Francesca, Arigoni, Maddalena, Calogero, Raffaele A

“…Biological processes are based on complex networks of cells and molecules. Single cell multi-omics is a new tool aiming to provide new incites in the complex…”
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Different miRNA Profiles in Plasma Derived Small and Large Extracellular Vesicles from Patients with Neurodegenerative Diseases by Sproviero, Daisy, Gagliardi, Stella, Zucca, Susanna, Arigoni, Maddalena, Giannini, Marta, Garofalo, Maria, Olivero, Martina, Dell'Orco, Michela, Pansarasa, Orietta, Bernuzzi, Stefano, Avenali, Micol, Cotta Ramusino, Matteo, Diamanti, Luca, Minafra, Brigida, Perini, Giulia, Zangaglia, Roberta, Costa, Alfredo, Ceroni, Mauro, Perrone-Bizzozero, Nora I, Calogero, Raffaele A, Cereda, Cristina

“…Identifying biomarkers is essential for early diagnosis of neurodegenerative diseases (NDs). Large (LEVs) and small extracellular vesicles (SEVs) are…”
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BITS2018: the fifteenth annual meeting of the Italian Society of Bioinformatics by Cordero, Francesca, Calogero, Raffaele A, Caselle, Michele

“…This preface introduces the content of the BioMed Central Bioinformatics journal Supplement related to the 15th annual meeting of the Bioinformatics Italian…”
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