Results 51 to 60 of about 463,290 (301)

Ontological Realism and Classification: Structures and Concepts in the Gene Ontology [PDF]

, 2014
The Gene Ontology (GO), a scientific vocabulary widely used in molecular biology databases, is examined by an analysis of its structure, a comparison of its principles to those of traditional controlled vocabularies, and by a detailed analysis of a ...
Ashburner, Baclawski, Bard, Bard, Barrell, Bawden, Blake, Broughton, Brown, Cole, du Plessis, Dumontier, Friedman, Gene Ontology Consortium, Gene Ontology Consortium, Gene Ontology Consortium, Gene Ontology Consortium, Hill, Hjørland, Hjørland, Huvila, Kalankesh, La Barre, Leonelli, Leonelli, Leonelli, Lomax, Lord, MacMullen, Merrill, Myhre, Nelson, Rhee, Robinson, Rogers, Seki, Smith, Smith, Smith, Smith, Smith, Smith, Star, Star, Vickery   +44 more
core   +1 more source

Function‐driven design of a surrogate interleukin‐2 receptor ligand

FEBS Letters, EarlyView.
Interleukin (IL)‐2 signaling can be achieved and precisely fine‐tuned through the affinity, distance, and orientation of the heterodimeric receptors with their ligands. We designed a biased IL‐2 surrogate ligand that selectively promotes effector T and natural killer cell activation and differentiation. Interleukin (IL) receptors play a pivotal role in
Ziwei Tang, Zelin Cheng, Teng Li, Fulian Wang, Liangminghui Zhang, Xiuxiu He, Lili Liu, Wei Wang, Aibin Liang, Guang Yang   +9 more
wiley   +1 more source

Defining functional distances over Gene Ontology

BMC Bioinformatics, 2008
Background A fundamental problem when trying to define the functional relationships between proteins is the difficulty in quantifying functional similarities, even when well-structured ontologies exist regarding the activity of proteins (i.e.
del Pozo Angela, Pazos Florencio, Valencia Alfonso   +2 more
doaj   +1 more source

The neural crest‐associated gene ERRFI1 is involved in melanoma progression and resistance toward targeted therapy

Molecular Oncology, EarlyView.
ERRFI1, a neural crest (NC)‐associated gene, was upregulated in melanoma and negatively correlated with the expression of melanocytic differentiation markers and the susceptibility of melanoma cells toward BRAF inhibitors (BRAFi). Knocking down ERRFI1 significantly increased the sensitivity of melanoma cells to BRAFi.
Nina Wang, Qian Sun, Daniel Novak, Lei Zhu, Juliane Poelchen, Tamara Steinfass, Yiman Wang, Viktor Umansky, Jochen Utikal   +8 more
wiley   +1 more source

MEGO: gene functional module expression based on gene ontology

BioTechniques, 2005
Existing analysis tools to study the collective properties of gene functional modules cannot return highly homogeneous modules and do not provide quantitative measures of module activity level.
Kang Tu, Hui Yu, Mingzhu Zhu
doaj   +1 more source

The Gene Ontology: enhancements for 2011 [PDF]

, 2012
The Gene Ontology (GO) (http://www.geneontology.org) is a community bioinformatics resource that represents gene product function through the use of structured, controlled vocabularies.
Chan, J., Kishore, R., Sternberg, P., Van Auken, K.   +3 more
core  

Automated Annotation-Based Bio-Ontology Alignment with Structural Validation [PDF]

, 2009
We outline the structure of an automated process to both align multiple bio-ontologies in terms of their genomic co-annotations, and then to measure the structural quality of that alignment.
Amanda White, Antonio Sanfilippo, Bob Baddeley, Carol Bult, Cliff Joslyn, Cliff Joslyn, Judith Blake, Karin Rodland, Mary Dolan, Rick Riensche   +9 more
core   +2 more sources

PREDICTING GENE FUNCTION FROM GENE EXPRESSIONS AND ONTOLOGIES [PDF]

Biocomputing 2001, 2000
We introduce a methodology for inducing predictive rule models for functional classification of gene expressions from microarray hybridisation experiments. The basic learning method is the rough set framework for rule induction. The methodology is different from the commonly used unsupervised clustering approaches in that it exploits background ...
T R, Hvidsten, J, Komorowski, A K, Sandvik, A, Laegreid   +3 more
openaire   +2 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

Cross-Product Extensions of the Gene Ontology [PDF]

, 2009
The Gene Ontology is being normalized and extended to include computable logical definitions. These definitions are partitioned into mutually exclusive cross-product sets, many of which reference other OBO Foundry ontologies.
Amelia Ireland, Christopher J. Mungall, David P. Hill, Jane Lomax, Jennifer Deegan, Michael Bada, Midori A. Harris, Tanya Z. Berardini   +7 more
core   +1 more source