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A longitudinal study of amoebic gill disease on a marine atlantic salmon farm utilising a real-time pcr assay for the detection of neoparamoeba perurans (2018)

Downes, JK; Henshilwood, K; Collins, EM; Ryan, A; O’Connor, I; Rodger, HD; MacCarthy, E...

Mark

A novel hybrid cfh/cfhr3 gene generated by a microhomology-mediated deletion in familial atypical hemolytic uremic syndrome (2018)

Francis, N. J.; McNicholas, B.; Awan, A.; Waldron, M.; Reddan, D.; Sadlier, D.; Kavanag...

Mark

Assessing the zoantharian diversity of the tropical eastern pacific through an integrative approach (2018)

Jaramillo, Karla B.; Reverter, Miriam; Guillen, Paul O.; McCormack, Grace; Rodriguez, J...

Mark

Bacterial microcompartment-directed polyphosphate kinase promotes stable polyphosphate accumulation in E. coli (2017)

Liang, Mingzhi; Frank, Stefanie; Lünsdorf, Heinrich; Warren, Martin J.; Prentice, Micha...

Mark

Biodistribution and retention of locally administered human mesenchymal stromal cells: Quantitative polymerase chain reaction–based detection of human DNA in murine organs (2019)

Creane, Michael; Howard, Linda; O'Brien, Timothy; Coleman, Cynthia M.

Mark

Biohackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains (2018)

Katayama, Toshiaki; Wilkinson, Mark D; Aoki-Kinoshita, Kiyoko F; Kawashima, Shuichi; Ya...

Biohackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains (2018)

Katayama, Toshiaki; Wilkinson, Mark D; Aoki-Kinoshita, Kiyoko F; Kawashima, Shuichi; Yamamoto, Yasunori; Yamaguchi, Atsuko; Okamoto, Shinobu; Kawano, Shin; Kim, Jin-Dong; Wang, Yue; Wu, Hongyan; Kano, Yoshinobu; Ono, Hiromasa; Bono, Hidemasa; Kocbek, Simon; Aerts, Jan; Akune, Yukie; Antezana, Erick; Arakawa, Kazuharu; Aranda, Bruno

Abstract:

The application of semantic technologies to the integration of biological data and the interoperability of bioinformatics analysis and visualization tools has been the common theme of a series of annual BioHackathons hosted in Japan for the past five years. Here we provide a review of the activities and outcomes from the BioHackathons held in 2011 in Kyoto and 2012 in Toyama. In order to efficiently implement semantic technologies in the life sciences, participants formed various sub-groups and worked on the following topics: Resource Description Framework (RDF) models for specific domains, text mining of the literature, ontology development, essential metadata for biological databases, platforms to enable efficient Semantic Web technology development and interoperability, and the development of applications for Semantic Web data. In this review, we briefly introduce the themes covered by these sub-groups. The observations made, conclusions drawn, and software development projects t...

http://hdl.handle.net/10379/12159

Mark

Bioreactor scalability: laboratory-scale bioreactor design influences performance, ecology, and community physiology in expanded granular sludge bed bioreactors (2017)

Connelly, Stephanie; Shin, Seung Gu; Dillon, Robert J.; Ijaz, Umer Zeeshan; Quince, Chr...

Mark

Bioreactor scalability: laboratory-scale bioreactor design influences performance, ecology, and community physiology in expanded granular sludge bed bioreactors (2018)

Connelly, Stephanie; Shin, Seung G.; Dillon, Robert J.; Ijaz, Umer Z.; Quince, Christop...

Mark

Comparison of approaches for rational siRNA design leading to a new efficient and transparent method (2007)

Matveeva, Olga; Nechipurenko, Yury; Rossi, Leo; Moore, Barry; Saetrom, Pal; Ogurtsov, A...

Mark

Computational approach for calculating the probability of eukaryotic translation initiation from ribo-seq data that takes into account leaky scanning (2014)

Michel, Audrey M.; Andreev, Dmitry E.; Baranov, Pavel V.

Irish Research Council for Science Engineering and Technology

Mark

Differences in EPG contact dynamics between voiced and voiceless lingual fricatives (2013)

Liker, Marko; Gibbon, Fiona E.

Mark

Gut microbiota composition correlates with diet and health in the elderly (2012)

Claesson, Marcus J.; Jeffery, Ian B.; Conde, Susana; Power, Susan E.; O'Connor, Ei...

Gut microbiota composition correlates with diet and health in the elderly (2012)

Claesson, Marcus J.; Jeffery, Ian B.; Conde, Susana; Power, Susan E.; O'Connor, Eibhlís M.; Cusack, Siobhán; Harris, Hugh M. B.; Coakley, Mairead; Lakshminarayanan, Bhuvaneswari; O'Sullivan, Orla; Fitzgerald, Gerald F.; Deane, Jennifer; O'Connor, Michael; Harnedy, Norma; O'Connor, Kieran; O'Mahony, Denis; van Sinderen, Douwe; Wallace, Martina; Brennan, Lorraine; Stanton, Catherine

Abstract:

Alterations in intestinal microbiota composition are associated with several chronic conditions, including obesity and inflammatory diseases. The microbiota of older people displays greater inter-individual variation than that of younger adults. Here we show that the faecal microbiota composition from 178 elderly subjects formed groups, correlating with residence location in the community, day-hospital, rehabilitation or in long-term residential care. However, clustering of subjects by diet separated them by the same residence location and microbiota groupings. The separation of microbiota composition significantly correlated with measures of frailty, co-morbidity, nutritional status, markers of inflammation and with metabolites in faecal water. The individual microbiota of people in long-stay care was significantly less diverse than that of community dwellers. Loss of community-associated microbiota correlated with increased frailty. Collectively, the data support a relationship be...

http://hdl.handle.net/10468/10653

Mark

How useful are the recommended counts and indices in the systematics of the octopodidae (mollusca: cephalopoda) (2018)

Allcock, A. Louise; STRUGNELL, JAN M.; JOHNSON, MARK P.

Mark

Phylogenetic position of the coral symbiont ostreobium (ulvophyceae) inferred from chloroplast genome data (2018)

Verbruggen, Heroen; Marcelino, Vanessa R.; Guiry, Michael D.; Cremen, Ma. Chiela M.; Ja...

Mark

Place of articulation of anterior nasal versus oral stops in Croatian (2015)

Liker, Marko; Gibbon, Fiona E.

Mark

Protein and microsatellite single locus variability in salmo salar l. (atlantic salmon) (2018)

Sánchez, J A; Clabby, C; Ramos, D; Blanco, G; Flavin, F; Vázquez, E; Powell, R

Mark

Rhizospheric bacterial community of endemic rhododendron arboreum sm. ssp. delavayi along eastern himalayan slope in tawang (2018)

Debnath, Rajal; Yadav, Archana; Gupta, Vijai K.; Singh, Bhim P.; Handique, Pratap J.; S...

Mark

The Bailey chain and mock theta functions (2016)

Lovejoy, Jeremy; Osburn, Robert

Mark

The ccap knowledgebase: linking protistan and cyanobacterial biological resources with taxonomic and molecular data (2018)

Gachon, Claire M.M.; Heesch, Svenja; Küpper, Frithjof C.; Achilles-Day, Undine E.M.; Br...

The ccap knowledgebase: linking protistan and cyanobacterial biological resources with taxonomic and molecular data (2018)

Gachon, Claire M.M.; Heesch, Svenja; Küpper, Frithjof C.; Achilles-Day, Undine E.M.; Brennan, Debra; Campbell, Christine N.; Clarke, Alison; Dorrell, Richard G.; Field, Joanne; Gontarek, Steven; Rad Menendez, Cecilia; Saxon, Rachel J.; Veszelovszki, Andrea; Guiry, Michael D.; Gharbi, Karim; Blaxter, Mark; Day, John G.

Abstract:

The roles of Biological Resource Centres (BRCs), such as the Culture Collection of Algae and Protozoa (CCAP), have extended beyond their traditional maintenance and provision of curated microorganisms to the user community. A major driver for change has been the exponential increase in metagenomics and environmental sequencing data over the last few years. This has underlined a critical requirement for molecular information on reference biological materials, which would allow better taxonomic interpretation, greater biological understanding and additional exploitation of these data. This is especially relevant for the relatively poorly studied protists (algal/autotrophic as well as heterotrophic) and prokaryotic cyanobacteria, which despite their huge biodiversity, reflected in the genomic data that has been generated, are under-represented in BRCs worldwide. Here we describe the functionalities of the Culture Collection of Algae and Protozoa (CCAP) KnowledgeBase (http://www.ccap.ac...

http://hdl.handle.net/10379/11570