MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects

by Holt, Carson, Yandell, Mark
Published 2011

WaveCNV: allele-specific copy number alterations in primary tumors and xenograft models from next-generation sequencing

by Holt, Carson, Losic, Bojan, Pai, Deepa, Zhao, Zhen, Trinh, Quang, Syam, Sujata, Arshadi, Niloofar, Jang, Gun Ho, Ali, Johar, Beck, Tim, McPherson, John, Muthuswamy, Lakshmi B.
Published 2014

Unique Features of the Loblolly Pine (Pinus taeda L.) Megagenome Revealed Through Sequence Annotation

by Wegrzyn, Jill L., Liechty, John D., Stevens, Kristian A., Wu, Le-Shin, Loopstra, Carol A., Vasquez-Gross, Hans A., Dougherty, William M., Lin, Brian Y., Zieve, Jacob J., Martínez-García, Pedro J., Holt, Carson, Yandell, Mark, Zimin, Aleksey V., Yorke, James A., Crepeau, Marc W., Puiu, Daniela, Salzberg, Steven L., de Jong, Pieter J., Mockaitis, Keithanne, Main, Doreen, Langley, Charles H., Neale, David B.
Published 2014

Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies

by Neale, David B, Wegrzyn, Jill L, Stevens, Kristian A, Zimin, Aleksey V, Puiu, Daniela, Crepeau, Marc W, Cardeno, Charis, Koriabine, Maxim, Holtz-Morris, Ann E, Liechty, John D, Martínez-García, Pedro J, Vasquez-Gross, Hans A, Lin, Brian Y, Zieve, Jacob J, Dougherty, William M, Fuentes-Soriano, Sara, Wu, Le-Shin, Gilbert, Don, Marçais, Guillaume, Roberts, Michael, Holt, Carson, Yandell, Mark, Davis, John M, Smith, Katherine E, Dean, Jeffrey FD, Lorenz, W Walter, Whetten, Ross W, Sederoff, Ronald, Wheeler, Nicholas, McGuire, Patrick E, Main, Doreen, Loopstra, Carol A, Mockaitis, Keithanne, deJong, Pieter J, Yorke, James A, Salzberg, Steven L, Langley, Charles H
Published 2014