Results 81 to 90 of about 70,807 (316)

The BinDiscover database: a biology-focused meta-analysis tool for 156,000 GC–TOF MS metabolome samples

Journal of Cheminformatics, 2023
Metabolomics by gas chromatography/mass spectrometry (GC/MS) provides a standardized and reliable platform for understanding small molecule biology. Since 2005, the West Coast Metabolomics Center at the University of California at Davis has collated GC ...
Parker Ladd Bremer, Gert Wohlgemuth, Oliver Fiehn   +2 more
doaj   +1 more source

Development of FuGO: An ontology for functional genomics investigations [PDF]

, 2006
The development of the Functional Genomics Investigation Ontology (FuGO) is a collaborative, international effort that will provide a resource for annotating functional genomics investigations, including the study design, protocols and instrumentation ...
Brinkman, Ryan R., Causton, Helen C., Fan, Liju, Field, Dawn, Fostel, Jennifer, Fragoso, Gilberto, Gray, Tanya, Heiskana, Mervi, Hernandez-Boussard, Tina, Smith, Barry, Whetzel, Patricia L.   +10 more
core  

Relations in biomedical ontologies [PDF]

, 2005
To enhance the treatment of relations in biomedical ontologies we advance a methodology for providing consistent and unambiguous formal definitions of the relational expressions used in such ontologies in a way designed to assist developers and users in ...
Ceusters, Werner, Klagges, Bert, Kumar, Anand, Köhler, Jacob, Lomax, Jane, Mungall, Chris, Neuhaus, Fabian, Rector, Alan L, Rosse, Cornelius, Smith, Barry   +9 more
core   +4 more sources

Transcriptional network analysis of PTEN‐protein‐deficient prostate tumors reveals robust stromal reprogramming and signs of senescent paracrine communication

Molecular Oncology, EarlyView.
Combining PTEN protein assessment and transcriptomic profiling of prostate tumors, we uncovered a network enriched in senescence and extracellular matrix (ECM) programs associated with PTEN loss and conserved in a mouse model. We show that PTEN‐deficient cells trigger paracrine remodeling of the surrounding stroma and this information could help ...
Ivana Rondon‐Lorefice, Jose I. Lopez, Aitziber Ugalde‐Olano, Maite Zufiaurre, Ianire Astobiza, Natalia Martin‐Martin, Laura Bozal‐Basterra, Saioa Garcia‐Longarte, Amaia Zabala‐Letona, Sofia Rey, Aida Santos‐Martin, Miguel Unda, Ana Loizaga‐Iriarte, Mariona Graupera, Paolo Nuciforo, Arkaitz Carracedo, Isabel Mendizabal   +16 more
wiley   +1 more source

The use of concept maps during knowledge elicitation in ontology development processes – the nutrigenomics use case

BMC Bioinformatics, 2006
Background Incorporation of ontologies into annotations has enabled 'semantic integration' of complex data, making explicit the knowledge within a certain field.
Taylor Chris, Stevens Robert, Rocca-Serra Philippe, Castro Alexander, Nashar Karim, Ragan Mark A, Sansone Susanna-Assunta   +6 more
doaj   +1 more source

In Silico Approaches and the Role of Ontologies in Aging Research [PDF]

, 2013
The 2013 Rostock Symposium on Systems Biology and Bioinformatics in Aging Research was again dedicated to dissecting the aging process using in silico means.
Busch, Hauke, Börries, Melanie, de Grey, Aubrey, Fuellen, Georg, Hahn, Udo, Hiller, Thomas, Hoeflich, Andreas, Jansen, Ludger, Janssens, Georges E., Kaleta, Christoph, Meinema, Anne C., Others, Schofield, Paul N., Schäuble, Sascha, Smith, Barry   +14 more
core  

Representing and analysing molecular and cellular function in the computer [PDF]

, 2000
Determining the biological function of a myriad of genes, and understanding how they interact to yield a living cell, is the major challenge of the post genome-sequencing era.
Eldridge, M, Gilbert, D, Helden, JV, Mancuso, R, Naim, A, Wernisch, L, Wodak, SJ   +6 more
core   +1 more source

LINC01116, a hypoxia‐lncRNA marker of pathological lymphangiogenesis and poor prognosis in lung adenocarcinoma

Molecular Oncology, EarlyView.
The LINC01116 long noncoding RNA is induced by hypoxia and associated with poor prognosis and high recurrence rates in two cohorts of lung adenocarcinoma patients. Here, we demonstrate that besides its expression in cancer cells, LINC01116 is markedly expressed in lymphatic endothelial cells of the tumor stroma in which it participates in hypoxia ...
Marine Gautier‐Isola, Rafael Lopes Goncalves, Marin Truchi, Caroline Lacoux, Célia Scribe, Hugo Cadis, Laetitia Guardini, Sophie Bekisz, Marius Ilié, Paul Hofman, Georges Vassaux, Bernard Mari, Roger Rezzonico   +12 more
wiley   +1 more source

OntONeo: The Obstetric and Neonatal Ontology [PDF]

, 2016
This paper presents the Obstetric and Neonatal Ontology (OntONeo). This ontology has been created to provide a consensus representation of salient electronic health record (EHR) data and to serve interoperability of the associated data and information ...
Almeida, Mauricio, Elkin, Peter, Farinelli, Fernanda, Smith, Barry   +3 more
core  

ATF4‐mediated stress response as a therapeutic vulnerability in chordoma

Molecular Oncology, EarlyView.
We screened 5 chordoma cell lines against 100+ inhibitors of epigenetic and metabolic pathways and kinases and identified halofuginone, a tRNA synthetase inhibitor. Mechanistically halofuginone induces an integrated stress response, with eIF2alpha phosphorylation, activation of ATF4 and its target genes CHOP, ASNS, INHBE leading to cell death ...
Lucia Cottone, James Dunford, Eleanor Calcutt, Vicki Gamble, Filiz Senbabaoglu Aksu, Lorena Ligammari, Georgina Wherry, Giorgia Gaeta, John C. Christianson, Adrienne M. Flanagan, Udo Oppermann, Adam P. Cribbs   +11 more
wiley   +1 more source