A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes

por Kurtz, Stefan, Narechania, Apurva, Stein, Joshua C, Ware, Doreen
Publicado 2008

Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing

por Wang, Bo, Tseng, Elizabeth, Regulski, Michael, Clark, Tyson A, Hon, Ting, Jiao, Yinping, Lu, Zhenyuan, Olson, Andrew, Stein, Joshua C., Ware, Doreen
Publicado 2016

A Genome-Wide Characterization of MicroRNA Genes in Maize

por Zhang, Lifang, Chia, Jer-Ming, Kumari, Sunita, Stein, Joshua C., Liu, Zhijie, Narechania, Apurva, Maher, Christopher A., Guill, Katherine, McMullen, Michael D., Ware, Doreen
Publicado 2009

Gene disruption by structural mutations drives selection in US rice breeding over the last century

por Vaughn, Justin N., Korani, Walid, Stein, Joshua C., Edwards, Jeremy D., Peterson, Daniel G., Simpson, Sheron A., Youngblood, Ramey C., Grimwood, Jane, Chougule, Kapeel, Ware, Doreen H., McClung, Anna M., Scheffler, Brian E.
Publicado 2021

Gramene database in 2010: updates and extensions

por Youens-Clark, Ken, Buckler, Ed, Casstevens, Terry, Chen, Charles, DeClerck, Genevieve, Derwent, Paul, Dharmawardhana, Palitha, Jaiswal, Pankaj, Kersey, Paul, Karthikeyan, A. S., Lu, Jerry, McCouch, Susan R., Ren, Liya, Spooner, William, Stein, Joshua C., Thomason, Jim, Wei, Sharon, Ware, Doreen
Publicado 2011

Whole genome de novo assemblies of three divergent strains of rice, Oryza sativa, document novel gene space of aus and indica

por Schatz, Michael C, Maron, Lyza G, Stein, Joshua C, Wences, Alejandro Hernandez, Gurtowski, James, Biggers, Eric, Lee, Hayan, Kramer, Melissa, Antoniou, Eric, Ghiban, Elena, Wright, Mark H, Chia, Jer-ming, Ware, Doreen, McCouch, Susan R, McCombie, W Richard
Publicado 2014

Effect of sequence depth and length in long-read assembly of the maize inbred NC358

por Ou, Shujun, Liu, Jianing, Chougule, Kapeel M., Fungtammasan, Arkarachai, Seetharam, Arun S., Stein, Joshua C., Llaca, Victor, Manchanda, Nancy, Gilbert, Amanda M., Wei, Sharon, Chin, Chen-Shan, Hufnagel, David E., Pedersen, Sarah, Snodgrass, Samantha J., Fengler, Kevin, Woodhouse, Margaret, Walenz, Brian P., Koren, Sergey, Phillippy, Adam M., Hannigan, Brett T., Dawe, R. Kelly, Hirsch, Candice N., Hufford, Matthew B., Ware, Doreen
Publicado 2020

Improved maize reference genome with single-molecule technologies

por Jiao, Yinping, Peluso, Paul, Shi, Jinghua, Liang, Tiffany, Stitzer, Michelle C., Wang, Bo, Campbell, Michael S., Stein, Joshua C., Wei, Xuehong, Chin, Chen-Shan, Guill, Katherine, Regulski, Michael, Kumari, Sunita, Olson, Andrew, Gent, Jonathan, Schneider, Kevin L., Wolfgruber, Thomas K., May, Michael R., Springer, Nathan M., Antoniou, Eric, McCombie, W. Richard, Presting, Gernot G., McMullen, Michael, Ross-Ibarra, Jeffrey, Dawe, R. Kelly, Hastie, Alex, Rank, David R., Ware, Doreen
Publicado 2017

Gramene 2018: unifying comparative genomics and pathway resources for plant research

por Tello-Ruiz, Marcela K, Naithani, Sushma, Stein, Joshua C, Gupta, Parul, Campbell, Michael, Olson, Andrew, Wei, Sharon, Preece, Justin, Geniza, Matthew J, Jiao, Yinping, Lee, Young Koung, Wang, Bo, Mulvaney, Joseph, Chougule, Kapeel, Elser, Justin, Al-Bader, Noor, Kumari, Sunita, Thomason, James, Kumar, Vivek, Bolser, Daniel M, Naamati, Guy, Tapanari, Electra, Fonseca, Nuno, Huerta, Laura, Iqbal, Haider, Keays, Maria, Munoz-Pomer Fuentes, Alfonso, Tang, Amy, Fabregat, Antonio, D’Eustachio, Peter, Weiser, Joel, Stein, Lincoln D, Petryszak, Robert, Papatheodorou, Irene, Kersey, Paul J, Lockhart, Patti, Taylor, Crispin, Jaiswal, Pankaj, Ware, Doreen
Publicado 2018

Detailed Analysis of a Contiguous 22-Mb Region of the Maize Genome

por Wei, Fusheng, Stein, Joshua C., Liang, Chengzhi, Zhang, Jianwei, Fulton, Robert S., Baucom, Regina S., De Paoli, Emanuele, Zhou, Shiguo, Yang, Lixing, Han, Yujun, Pasternak, Shiran, Narechania, Apurva, Zhang, Lifang, Yeh, Cheng-Ting, Ying, Kai, Nagel, Dawn H., Collura, Kristi, Kudrna, David, Currie, Jennifer, Lin, Jinke, Kim, HyeRan, Angelova, Angelina, Scara, Gabriel, Wissotski, Marina, Golser, Wolfgang, Courtney, Laura, Kruchowski, Scott, Graves, Tina A., Rock, Susan M., Adams, Stephanie, Fulton, Lucinda A., Fronick, Catrina, Courtney, William, Kramer, Melissa, Spiegel, Lori, Nascimento, Lydia, Kalyanaraman, Ananth, Chaparro, Cristian, Deragon, Jean-Marc, Miguel, Phillip San, Jiang, Ning, Wessler, Susan R., Green, Pamela J., Yu, Yeisoo, Schwartz, David C., Meyers, Blake C., Bennetzen, Jeffrey L., Martienssen, Robert A., McCombie, W. Richard, Aluru, Srinivas, Clifton, Sandra W., Schnable, Patrick S., Ware, Doreen, Wilson, Richard K., Wing, Rod A.
Publicado 2009