Taner Z. Sen

Publication Activity (10 Years)

Years Active: 2004-2023
Publications (10 Years): 17

Top Topics

High Throughput

Machine Learning

Protein Sequences

Top Venues

Database J. Biol. Databases Curation

BMC Syst. Biol.

Nucleic Acids Res.

Publications

Jennifer L. Clarke, Laurel D. Cooper, Monica F. Poelchau, Tanya Z. Berardini, Justin Elser, Andrew D. Farmer, Stephen P. Ficklin, Sunita Kumari, Marie-Angélique Laporte, Rex T. Nelson, Rie Sadohara, Peter Selby, Anne E. Thessen, Brandon Whitehead, Taner Z. Sen
Data sharing and ontology use among agricultural genetics, genomics, and breeding databases and resources of the Agbiodata Consortium. Database J. Biol. Databases Curation 2023 (2023)
Jennifer L. Clarke, Laurel D. Cooper, Monica F. Poelchau, Tanya Z. Berardini, Justin Elser, Andrew D. Farmer, Stephen P. Ficklin, Sunita Kumari, Marie-Angélique Laporte, Rex T. Nelson, Rie Sadohara, Peter Selby, Anne E. Thessen, Brandon Whitehead, Taner Z. Sen
Data sharing and ontology use among agricultural genetics, genomics, and breeding databases and resources of the AgBioData Consortium. CoRR (2023)
Eric Yao, Victoria C. Blake, Laurel Cooper, Charlene P. Wight, Steve L. Michel, H. Busra Cagirici, Gerard R. Lazo, Clayton L. Birkett, David J. Waring, Jean-Luc Jannink, Ian H. Holmes, Amanda J. Waters, David P. Eickholt, Taner Z. Sen
GrainGenes: a data-rich repository for small grains genetics and genomics. Database J. Biol. Databases Curation 2022 (2022) (2022)
Kyoung Tak Cho, Taner Z. Sen, Carson M. Andorf
Predicting Tissue-Specific mRNA and Protein Abundance in Maize: A Machine Learning Approach. Frontiers Artif. Intell. 5 (2022)
H. Busra Cagirici, Hikmet Budak, Taner Z. Sen
G4Boost: a machine learning-based tool for quadruplex identification and stability prediction. BMC Bioinform. 23 (1) (2022)
Sagnik Banerjee, Priyanka Bhandary, Margaret Woodhouse, Taner Z. Sen, Roger P. Wise, Carson M. Andorf
FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences. BMC Bioinform. 22 (1) (2021)
Laurel Cooper, Marie-Angélique Laporte, Justin Elser, Victoria Carollo Blake, Taner Z. Sen, Chris Mungall, Elizabeth Arnaud, Pankaj Jaiswal
The Plant Trait Ontology Links Wheat Traits for Crop Improvement and Genomics (short paper). ICBO/ODLS (2020)
Sagnik Banerjee, Margaret Woodhouse, Roger P. Wise, Priyanka Bhandary, Taner Z. Sen, Carson M. Andorf
FINDER: A fully automated pipeline to FIND accurate gene structures from proteins and RNA-Seq expression data. BCB (2020)
Eric Yao, Robert Buels, Lincoln Stein, Taner Z. Sen, Ian H. Holmes
JBrowse Connect: A server API to connect JBrowse instances and users. PLoS Comput. Biol. 16 (8) (2020)
Bremen L. Braun, David A. Schott, John L. Portwood II, Carson M. Andorf, Taner Z. Sen
PedigreeNet: a web-based pedigree viewer for biological databases. Bioinform. 35 (20) (2019)
John L. Portwood II, Margaret Woodhouse, Ethalinda K. S. Cannon, Jack M. Gardiner, Lisa C. Harper, Mary L. Schaeffer, Jesse R. Walsh, Taner Z. Sen, Kyoung Tak Cho, David A. Schott, Bremen L. Braun, Miranda Dietze, Brittney Dunfee, Christine G. Elsik, Nancy Manchanda, Ed Coe, Marty Sachs, Philip Stinard, Josh Tolbert, Shane Zimmerman, Carson M. Andorf
MaizeGDB 2018: the maize multi-genome genetics and genomics database. Nucleic Acids Res. 47 (Database-Issue) (2019)
Victoria C. Blake, Margaret Woodhouse, Gerard R. Lazo, Sarah G. Odell, Charlene P. Wight, Nicholas A Tinker, Yi Wang, Yong Q. Gu, Clayton L. Birkett, Jean-Luc Jannink, Dave E. Matthews, David L. Hane, Steve L. Michel, Eric Yao, Taner Z. Sen
GrainGenes: centralized small grain resources and digital platform for geneticists and breeders. Database J. Biol. Databases Curation 2019 (2019)
Lisa C. Harper, Jacqueline D. Campbell, Ethalinda K. S. Cannon, Sook Jung, Monica Poelchau, Ramona L. Walls, Carson M. Andorf, Elizabeth Arnaud, Tanya Z. Berardini, Clayton L. Birkett, Steven B. Cannon, James D. Carson, Bradford Condon, Laurel Cooper, Nathan A. Dunn, Christine G. Elsik, Andrew Farmer, Stephen P. Ficklin, David Grant, Emily S. Grau, Nic Herndon, Zhi-Liang Hu, Jodi L. Humann, Pankaj Jaiswal, Clément Jonquet, Marie-Angélique Laporte, Pierre Larmande, Gerard R. Lazo, Fiona McCarthy, Naama Menda, Christopher J. Mungall, Monica C. Munoz-Torres, Sushma Naithani, Rex T. Nelson, Daureen Nesdill, Carissa A. Park, James M. Reecy, Leonore Reiser, Lacey-Anne Sanderson, Taner Z. Sen, Margaret Staton, Sabarinath Subramaniam, Marcela Karey Tello-Ruiz, Victor Unda, Deepak R. Unni, Liya Wang, Doreen Ware, Jill L. Wegrzyn, Jason Williams, Margaret Woodhouse, Jing Yu, Doreen Main
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. Database J. Biol. Databases Curation 2018 (2018)
David A. Schott, Abhinav G. Vinnakota, John L. Portwood II, Carson M. Andorf, Taner Z. Sen
SNPversity: a web-based tool for visualizing diversity. Database J. Biol. Databases Curation 2018 (2018)
Taner Z. Sen, Bremen L. Braun, David A. Schott, John L. Portwood II, Mary L. Schaeffer, Lisa C. Harper, Jack M. Gardiner, Ethalinda K. S. Cannon, Carson M. Andorf
Surveying the Maize community for their diversity and pedigree visualization needs to prioritize tool development and curation. Database J. Biol. Databases Curation 2017 (2017)
Carson M. Andorf, Ethalinda K. S. Cannon, John L. Portwood II, Jack M. Gardiner, Lisa C. Harper, Mary L. Schaeffer, Bremen L. Braun, Darwin A. Campbell, Abhinav G. Vinnakota, Venktanaga V. Sribalusu, Miranda Huerta, Kyoung Tak Cho, Kokulapalan Wimalanathan, Jacqueline D. Richter, Emily D. Mauch, Bhavani S. Rao, Scott M. Birkett, Taner Z. Sen, Carolyn J. Lawrence-Dill
MaizeGDB update: new tools, data and interface for the maize model organism database. Nucleic Acids Res. 44 (Database-Issue) (2016)
Jesse R. Walsh, Mary L. Schaeffer, Peifen Zhang, Seung Yon Rhee, Julie A. Dickerson, Taner Z. Sen
The quality of metabolic pathway resources depends on initial enzymatic function assignments: a case for maize. BMC Syst. Biol. 10 (2016)
Jesse R. Walsh, Taner Z. Sen, Julie A. Dickerson
A computational platform to maintain and migrate manual functional annotations for BioCyc databases. BMC Syst. Biol. 8 (2014)
Lisa C. Harper, Mary L. Schaeffer, Jordan Thistle, Jack M. Gardiner, Carson M. Andorf, Darwin A. Campbell, Ethalinda K. S. Cannon, Bremen L. Braun, Scott M. Birkett, Carolyn J. Lawrence, Taner Z. Sen
The MaizeGDB Genome Browser tutorial: one example of database outreach to biologists via video. Database J. Biol. Databases Curation 2011 (2011)
Mary L. Schaeffer, Lisa C. Harper, Jack M. Gardiner, Carson M. Andorf, Darwin A. Campbell, Ethalinda K. S. Cannon, Taner Z. Sen, Carolyn J. Lawrence
MaizeGDB: curation and outreach go hand-in-hand. Database J. Biol. Databases Curation 2011 (2011)
Carson M. Andorf, Carolyn J. Lawrence, Lisa C. Harper, Mary L. Schaeffer, Darwin A. Campbell, Taner Z. Sen
The Locus Lookup tool at MaizeGDB: identification of genomic regions in maize by integrating sequence information with physical and genetic maps. Bioinform. 26 (3) (2010)
Taner Z. Sen, Lisa C. Harper, Mary L. Schaeffer, Carson M. Andorf, Trent E. Seigfried, Darwin A. Campbell, Carolyn J. Lawrence
Choosing a genome browser for a Model Organism Database: surveying the Maize community. Database J. Biol. Databases Curation 2010 (2010)
Taner Z. Sen, Carson M. Andorf, Mary L. Schaeffer, Lisa C. Harper, Michael E. Sparks, Jon Duvick, Volker P. Brendel, Ethalinda K. S. Cannon, Darwin A. Campbell, Carolyn J. Lawrence
MaizeGDB becomes 'sequence-centric'. Database J. Biol. Databases Curation 2009 (2009)
Haitao Cheng, Taner Z. Sen, Robert L. Jernigan, Andrzej Kloczkowski
Consensus Data Mining (CDM) Protein Secondary Structure Prediction Server: Combining GOR V and Fragment Database Mining (FDM). Bioinform. 23 (19) (2007)
Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jernigan
Functional clustering of yeast proteins from the protein-protein interaction network. BMC Bioinform. 7 (2006)
Taner Z. Sen, Robert L. Jernigan, Jean Garnier, Andrzej Kloczkowski
GOR V server for protein secondary structure prediction. Bioinform. 21 (11) (2005)
Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jernigan, Changhui Yan, Vasant G. Honavar, Kai-Ming Ho, Cai-Zhuang Wang, Yungok Ihm, Haibo Cao, Xun Gu, Drena Dobbs
Predicting binding sites of hydrolase-inhibitor complexes by combining several methods. BMC Bioinform. 5 (2004)