Results 31 to 40 of about 3,702,794 (289)

Protein Function Prediction with Incomplete Annotations [PDF]

IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2014
Automated protein function prediction is one of the grand challenges in computational biology. Multi-label learning is widely used to predict functions of proteins. Most of multi-label learning methods make prediction for unlabeled proteins under the assumption that the labeled proteins are completely annotated, i.e., without any missing functions ...
Guo-Xian Yu, Huzefa Rangwala, Carlotta Domeniconi, Guoji Zhang, Zhiwen Yu 0002   +4 more
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Wide-coverage deep statistical parsing using automatic dependency structure annotation [PDF]

, 2008
A number of researchers (Lin 1995; Carroll, Briscoe, and Sanfilippo 1998; Carroll et al. 2002; Clark and Hockenmaier 2002; King et al. 2003; Preiss 2003; Kaplan et al. 2004;Miyao and Tsujii 2004) have convincingly argued for the use of dependency (rather
O'Donovan, Ruth, Cahill, Aoife, O\u27Donovan, Ruth, Riezler, Stefan, Way, Andy, van Genabith, Josef, Burke, Michael, Michael Burke, Andy Way, Aoife Cahill, Josef van Genabith, Stefan Riezler, Ruth O'Donovan   +12 more
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Phylogenetic molecular function annotation

Journal of Physics: Conference Series, 2009
It is now easier to discover thousands of protein sequences in a new microbial genome than it is to biochemically characterize the specific activity of a single protein of unknown function. The molecular functions of protein sequences have typically been predicted using homology-based computational methods, which rely on the principle that homologous ...
Barbara E, Engelhardt, Michael I, Jordan, Susanna T, Repo, Steven E, Brenner   +3 more
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Annotation compatibility working group report [PDF]

, 2006
This report explores the question of compatibility between annotation projects including translating annotation formalisms to each other or to common forms. Compatibility issues are crucial for systems that use the results of multiple annotation projects.
Fang, Alex Chengyu, Contributors A. Meyers, Kübler, Sandra, Palmer, Martha, H. Zinsmeister, Hinrichs, Erhard, Schuler, Karin Kipper, G. Penn, A. C. Fang, E. Loper, M. Poesio, T. Jia-lin, Pustejovsky, James, E. Hovy, E. Hinrichs, L. Levin, B. A. Onyshkevych, Hajicova, Eva, Dorr, Bonnie, N. Xue, Hovy, Ed, Farwell, David, Ferro, Lisa, M. Palmer, Levin, Lori, Meyers, Adam, B. Dorr, D. Farwell, Jia-Lin, Tsai, Wiebe, Janyce, J. Pustejovsky, Poesio, Massimo, Loper, Edward, Onyshkevych, Boyan A., Zinsmeister, Heike, Xue, Nianwen, E. Hajicova, L. Ferro, J. Wiebe, Penn, Gerald, A. Meyers, Dolbey, Andrew, S. Kübler, K. K. Schuler, A. Dolbey   +44 more
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Transcript annotation in FANTOM3: mouse gene catalog based on physical cDNAs. [PDF]

PLoS Genetics, 2006
The international FANTOM consortium aims to produce a comprehensive picture of the mammalian transcriptome, based upon an extensive cDNA collection and functional annotation of full-length enriched cDNAs.
Norihiro Maeda, Takeya Kasukawa, Rieko Oyama, Julian Gough, Martin Frith, Pär G Engström, Boris Lenhard, Rajith N Aturaliya, Serge Batalov, Kirk W Beisel, Carol J Bult, Colin F Fletcher, Alistair R R Forrest, Masaaki Furuno, David Hill, Masayoshi Itoh, Mutsumi Kanamori-Katayama, Shintaro Katayama, Masaru Katoh, Tsugumi Kawashima, John Quackenbush, Timothy Ravasi, Brian Z Ring, Kazuhiro Shibata, Koji Sugiura, Yoichi Takenaka, Rohan D Teasdale, Christine A Wells, Yunxia Zhu, Chikatoshi Kai, Jun Kawai, David A Hume, Piero Carninci, Yoshihide Hayashizaki   +33 more
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GenDB - an open source genome annotation system for prokaryote genomes [PDF]

, 2003
Meyer F, Goesmann A, McHardy AC, et al. GenDB - an open source genome annotation system for prokaryote genomes. Nucleic Acids Research.
Rupp, Oliver, Bartels, Daniela, Linke, Burkhard, McHardy, Alice C., Goesmann, Alexander ; https://orcid.org/, Bekel, Thomas, Kalinowski, Jörn, Giegerich, Robert, Pühler, Alfred ; https://orcid.org/, Meyer, Folker, Clausen, Jörn   +10 more
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The use of semantic similarity measures for optimally integrating heterogeneous Gene Ontology data from large scale annotation pipelines

Frontiers in Genetics, 2014
With the advancement of new high throughput sequencing technologies, there has been an increase in the number of genome sequencing projects worldwide, which has yielded complete genome sequences of human, animals and plants.
Gaston K Mazandu, Nicola eMulder
doaj   +1 more source

AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system [PDF]

, 2006
We have implemented a genome annotation system for prokaryotes called AGMIAL. Our approach embodies a number of key principles. First, expert manual annotators are seen as a critical component of the overall system; user interfaces were cyclically ...
Loux, Valentin, S. Chaillou, Hoebeke, Mark,, Maguin, Emmanuelle, K. Bryson, Loux, V., Chaillou, Stéphane, Bessières, P., Bessières, Philippe, Chaillou, Stephane,, Gibrat, J.-F., M. Van De Guchte, Chaillou, S., Gibrat, Jean-François, Hoebeke, M., Penaud, Stéphanie, van de Guchte, M., van de Guchte, Maarten,, Maguin, E., E. Maguin, Penaud, S., P. Nicolas, M. Hoebeke, van de Guchte, Maarten, Bossy, Robert,, Bryson, K., S. Penaud, V. Loux, Bossy, R., Bossy, Robert, R., R. Bossy, Hoebeke, Mark, J-f Gibrat, Nicolas, P.   +33 more
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Re‐annotation of the sequence > annotation: opportunities for the functional microbiologist [PDF]

Microbial Biotechnology, 2015
Functional annotation of proteins has been central to the development of biology in the post-genomic era. In such a way, the wealth of information encoded by genome sequences has become accessible to the broader biological community. One may even argue that this has served the purpose of democratization of science, as almost every scientist in the ...
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Comparison of three microarray probe annotation pipelines: differences in strategies and their effect on downstream analysis [PDF]

, 2009
BACKGROUND: Reliable annotation linking oligonucleotide probes to target genes is essential for functional biological analysis of microarray experiments.
Groenen, M.A., Leunissen, J.A., Neerincx, P.B.T., Groenen, M.A.M., Pierrot Casel, Casel, P., Michael Watson, Neerincx, P.B., Christophe Klopp, Klopp, C., Pieter Neerincx, Dennis Prickett, Martien Groenen, Nie, H., Jack Leunissen, Haisheng Nie, Watson, M., Leunissen, J.A.M., Prickett, D.   +18 more
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