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2020 – today
- 2023
[j24]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)- [i1]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 abs/2307.08958 (2023) - 2022
- [j23]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) - [j22]H. Busra Cagirici, Hikmet Budak, Taner Z. Sen:
G4Boost: a machine learning-based tool for quadruplex identification and stability prediction. BMC Bioinform. 23(1): 240 (2022) - [j21]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: 830170 (2022) - 2021
- [j20]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): 205 (2021) - 2020
- [j19]Eric Yao, Robert M. 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) - [c2]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: 79:1-79:2 - [c1]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: 1-2
2010 – 2019
- 2019
- [j18]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: baz065 (2019) - [j17]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): 4184-4186 (2019) - [j16]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): D1146-D1154 (2019) - 2018
- [j15]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: bay037 (2018) - [j14]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 D. Farmer, Stephen P. Ficklin, David M. 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: bay088 (2018) - 2017
- [j13]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: bax031 (2017) - 2016
- [j12]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: 129:1-129:9 (2016) - [j11]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): 1195-1201 (2016) - 2014
- [j10]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: 115 (2014) - 2011
- [j9]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) - [j8]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) - 2010
- [j7]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) - [j6]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): 434-436 (2010)
2000 – 2009
- 2009
- [j5]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) - 2007
- [j4]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): 2628-2630 (2007) - 2006
- [j3]Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jernigan:
Functional clustering of yeast proteins from the protein-protein interaction network. BMC Bioinform. 7: 355 (2006) - 2005
- [j2]Taner Z. Sen, Robert L. Jernigan, Jean Garnier, Andrzej Kloczkowski:
GOR V server for protein secondary structure prediction. Bioinform. 21(11): 2787-2788 (2005) - 2004
- [j1]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: 205 (2004)
Coauthor Index
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