Search Results - "CLAESSON, J."

Comparing Apples and Oranges?: Next Generation Sequencing and Its Impact on Microbiome Analysis by Clooney, Adam G, Fouhy, Fiona, Sleator, Roy D, O' Driscoll, Aisling, Stanton, Catherine, Cotter, Paul D, Claesson, Marcus J

“…Rapid advancements in sequencing technologies along with falling costs present widespread opportunities for microbiome studies across a vast and diverse array…”
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Gut microbiome, big data and machine learning to promote precision medicine for cancer by Cammarota, Giovanni, Ianiro, Gianluca, Ahern, Anna, Carbone, Carmine, Temko, Andriy, Claesson, Marcus J., Gasbarrini, Antonio, Tortora, Giampaolo

“…The gut microbiome has been implicated in cancer in several ways, as specific microbial signatures are known to promote cancer development and influence…”
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Diversity of bifidobacteria within the infant gut microbiota by Turroni, Francesca, Peano, Clelia, Pass, Daniel A, Foroni, Elena, Severgnini, Marco, Claesson, Marcus J, Kerr, Colm, Hourihane, Jonathan, Murray, Deirdre, Fuligni, Fabio, Gueimonde, Miguel, Margolles, Abelardo, De Bellis, Gianluca, O'Toole, Paul W, van Sinderen, Douwe, Marchesi, Julian R, Ventura, Marco

“…The human gastrointestinal tract (GIT) represents one of the most densely populated microbial ecosystems studied to date. Although this microbial consortium…”
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16S rRNA gene sequencing of mock microbial populations- impact of DNA extraction method, primer choice and sequencing platform by Fouhy, Fiona, Clooney, Adam G, Stanton, Catherine, Claesson, Marcus J, Cotter, Paul D

“…Next-generation sequencing platforms have revolutionised our ability to investigate the microbiota composition of complex environments, frequently through 16S…”
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Comparative analysis of pyrosequencing and a phylogenetic microarray for exploring microbial community structures in the human distal intestine by Claesson, M.J, O'Sullivan, O, Wang, Q, Nikkilä, J, Marchesi, J.R, Smidt, H, Vos, W.M. de, Ross, R.P, O'Toole, P.W

“…Variations in the composition of the human intestinal microbiota are linked to diverse health conditions. High-throughput molecular technologies have recently…”
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Regulation of prefrontal cortex myelination by the microbiota by Hoban, A E, Stilling, R M, Ryan, F J, Shanahan, F, Dinan, T G, Claesson, M J, Clarke, G, Cryan, J F

“…The prefrontal cortex (PFC) is a key region implicated in a range of neuropsychiatric disorders such as depression, schizophrenia and autism. In parallel, the…”
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Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions by Claesson, Marcus J, Wang, Qiong, O'Sullivan, Orla, Greene-Diniz, Rachel, Cole, James R, Ross, R. Paul, O'Toole, Paul W

“…High-throughput molecular technologies can profile microbial communities at high resolution even in complex environments like the intestinal microbiota. Recent…”
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Applications of Machine Learning in Human Microbiome Studies: A Review on Feature Selection, Biomarker Identification, Disease Prediction and Treatment by Marcos-Zambrano, Laura Judith, Karaduzovic-Hadziabdic, Kanita, Loncar Turukalo, Tatjana, Przymus, Piotr, Trajkovik, Vladimir, Aasmets, Oliver, Berland, Magali, Gruca, Aleksandra, Hasic, Jasminka, Hron, Karel, Klammsteiner, Thomas, Kolev, Mikhail, Lahti, Leo, Lopes, Marta B, Moreno, Victor, Naskinova, Irina, Org, Elin, Paciência, Inês, Papoutsoglou, Georgios, Shigdel, Rajesh, Stres, Blaz, Vilne, Baiba, Yousef, Malik, Zdravevski, Eftim, Tsamardinos, Ioannis, Carrillo de Santa Pau, Enrique, Claesson, Marcus J, Moreno-Indias, Isabel, Truu, Jaak

“…The number of microbiome-related studies has notably increased the availability of data on human microbiome composition and function. These studies provide the…”
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Colonic microbiota is associated with inflammation and host epigenomic alterations in inflammatory bowel disease by Ryan, F. J., Ahern, A. M., Fitzgerald, R. S., Laserna-Mendieta, E. J., Power, E. M., Clooney, A. G., O’Donoghue, K. W., McMurdie, P. J., Iwai, S., Crits-Christoph, A., Sheehan, D., Moran, C., Flemer, B., Zomer, A. L., Fanning, A., O’Callaghan, J., Walton, J., Temko, A., Stack, W., Jackson, L., Joyce, S. A., Melgar, S., DeSantis, T. Z., Bell, J. T., Shanahan, F., Claesson, M. J.

“…Studies of inflammatory bowel disease (IBD) have been inconclusive in relating microbiota with distribution of inflammation. We report microbiota, host…”
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Categorization of the gut microbiota: enterotypes or gradients? by Jeffery, Ian B., Claesson, Marcus J., O'Toole, Paul W., Shanahan, Fergus

“…Grouping the microbiota of individual subjects into compositional categories, or enterotypes, based on the dominance of certain genera may have oversimplified…”
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Composition, variability, and temporal stability of the intestinal microbiota of the elderly by Claesson, Marcus J, Cusack, Siobhán, O'Sullivan, Orla, Greene-Diniz, Rachel, de Weerd, Heleen, Flannery, Edel, Marchesi, Julian R, Falush, Daniel, Dinan, Timothy, Fitzgerald, Gerald, Stanton, Catherine, van Sinderen, Douwe, O'Connor, Michael, Harnedy, Norma, O'Connor, Kieran, Henry, Colm, O'Mahony, Denis, Fitzgerald, Anthony P, Shanahan, Fergus, Twomey, Cillian, Hill, Colin, Ross, R. Paul, O'Toole, Paul W

“…Alterations in the human intestinal microbiota are linked to conditions including inflammatory bowel disease, irritable bowel syndrome, and obesity. The…”
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A comparison of the gut microbiome between long‐term users and non‐users of proton pump inhibitors by Clooney, A. G., Bernstein, C. N, Leslie, W. D., Vagianos, K., Sargent, M., Laserna‐Mendieta, E. J., Claesson, M. J., Targownik, L. E.

“…Summary Background Proton pump inhibitor (PPI) use is associated with an increased risk of Clostridium difficile infection (CDI), though the mechanism is…”
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Piphillin predicts metagenomic composition and dynamics from DADA2-corrected 16S rDNA sequences by Narayan, Nicole R, Weinmaier, Thomas, Laserna-Mendieta, Emilio J, Claesson, Marcus J, Shanahan, Fergus, Dabbagh, Karim, Iwai, Shoko, DeSantis, Todd Z

“…Shotgun metagenomic sequencing reveals the potential in microbial communities. However, lower-cost 16S ribosomal RNA (rRNA) gene sequencing provides taxonomic,…”
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Esophageal microbiome in active eosinophilic esophagitis and changes induced by different therapies by Laserna-Mendieta, E. J., FitzGerald, J. A., Arias-Gonzalez, L., Ollala, J. M., Bernardo, D., Claesson, M. J., Lucendo, A. J.

“…Eosinophilic esophagitis (EoE) is a chronic, immune-mediated inflammatory esophageal disease triggered by food antigens. Cumulative evidence supports the…”
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Strain-Level Metagenomic Analysis of the Fermented Dairy Beverage Nunu Highlights Potential Food Safety Risks by Walsh, Aaron M, Crispie, Fiona, Daari, Kareem, O'Sullivan, Orla, Martin, Jennifer C, Arthur, Cornelius T, Claesson, Marcus J, Scott, Karen P, Cotter, Paul D

“…The rapid detection of pathogenic strains in food products is essential for the prevention of disease outbreaks. It has already been demonstrated that…”
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Sequence-Based Characterization of Intratumoral Bacteria-A Guide to Best Practice by Walker, Sidney P, Tangney, Mark, Claesson, Marcus J

“…Tumors are hospitable environments to bacteria and several recent studies on cancer patient samples have introduced the concept of an endogenous tumor…”
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Volatility as a Concept to Understand the Impact of Stress on the Microbiome by Bastiaanssen, Thomaz F.S, Gururajan, Anand, van de Wouw, Marcel, Moloney, Gerard M, Ritz, Nathaniel L, Long-Smith, Caitriona M, Wiley, Niamh C, Murphy, Amy B, Lyte, Joshua M, Fouhy, Fiona, Stanton, Catherine, Claesson, Marcus J, Dinan, Timothy G, Cryan, John F

“…•The gut microbiome is sensitive the effects of chronic stress.•We examined the stress-induced temporal effects on the composition of the microbiome, which we…”
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Diversity of bacteria populations associated with different thallus regions of the brown alga Laminaria digitata by Ihua, Maureen W, FitzGerald, Jamie A, Guihéneuf, Freddy, Jackson, Stephen A, Claesson, Marcus J, Stengel, Dagmar B, Dobson, Alan D W

“…Stipitate kelp species such as Laminaria digitata dominate most cold-water subtidal rocky shores and form underwater forests which are among the most…”
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Functional genome analysis of Bifidobacterium breve UCC2003 reveals type IVb tight adherence (Tad) pili as an essential and conserved host-colonization factor by O'Connell Motherway, Mary, Zomer, Aldert, Leahy, Sinead C, Reunanen, Justus, Bottacini, Francesca, Claesson, Marcus J, O'Brien, Frances, Flynn, Kiera, Casey, Patrick G, Moreno Munoz, Jose Antonio, Kearney, Breda, Houston, Aileen M, O'Mahony, Caitlin, Higgins, Des G, Shanahan, Fergus, Palva, Airi, de Vos, Willem M, Fitzgerald, Gerald F, Ventura, Marco, O'Toole, Paul W, van Sinderen, Douwe

“…Development of the human gut microbiota commences at birth, with bifidobacteria being among the first colonizers of the sterile newborn gastrointestinal tract…”
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Microbial Succession and Flavor Production in the Fermented Dairy Beverage Kefir by Walsh, Aaron M, Crispie, Fiona, Kilcawley, Kieran, O'Sullivan, Orla, O'Sullivan, Maurice G, Claesson, Marcus J, Cotter, Paul D

“…Kefir is a putatively health-promoting dairy beverage that is produced when a kefir grain, consisting of a consortium of microorganisms, is added to milk to…”
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