Search Results - Holt, Carson

MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects by Holt, Carson, Yandell, Mark

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Quantitative measures for the management and comparison of annotated genomes by Eilbeck, Karen, Moore, Barry, Holt, Carson, Yandell, Mark

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Genome Annotation and Curation Using MAKER and MAKER-P by Campbell, Michael S., Holt, Carson, Moore, Barry, Yandell, Mark

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Predicting gene structure changes resulting from genetic variants via exon definition features by Majoros, William H, Holt, Carson, Campbell, Michael S, Ware, Doreen, Yandell, Mark, Reddy, Timothy E

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A ROR2 coding variant is associated with craniofacial variation in domestic pigeons by Boer, Elena F., Van Hollebeke, Hannah F., Maclary, Emily T., Holt, Carson, Yandell, Mark, Shapiro, Michael D.

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High-throughput interpretation of gene structure changes in human and nonhuman resequencing data, using ACE by Majoros, William H, Campbell, Michael S, Holt, Carson, DeNardo, Erin K, Ware, Doreen, Allen, Andrew S, Yandell, Mark, Reddy, Timothy E

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Two Genomic Loci Control Three Eye Colors in the Domestic Pigeon (Columba livia) by Maclary, Emily T, Phillips, Bridget, Wauer, Ryan, Boer, Elena F, Bruders, Rebecca, Gilvarry, Tyler, Holt, Carson, Yandell, Mark, Shapiro, Michael D

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MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes by Cantarel, Brandi L., Korf, Ian, Robb, Sofia M.C., Parra, Genis, Ross, Eric, Moore, Barry, Holt, Carson, Sánchez Alvarado, Alejandro, Yandell, Mark

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The Pinus taeda genome is characterized by diverse and highly diverged repetitive sequences by Kovach, Allen, Wegrzyn, Jill L, Parra, Genis, Holt, Carson, Bruening, George E, Loopstra, Carol A, Hartigan, James, Yandell, Mark, Langley, Charles H, Korf, Ian, Neale, David B

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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.

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XPAT: a toolkit to conduct cross-platform association studies with heterogeneous sequencing datasets by Yu, Yao, Hu, Hao, Bohlender, Ryan J, Hu, Fulan, Chen, Jiun-Sheng, Holt, Carson, Fowler, Jerry, Guthery, Stephen L, Scheet, Paul, Hildebrandt, Michelle A T, Yandell, Mark, Huff, Chad D

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Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia) by Holt, Carson, Campbell, Michael, Keays, David A., Edelman, Nathaniel, Kapusta, Aurélie, Maclary, Emily, T. Domyan, Eric, Suh, Alexander, Warren, Wesley C., Yandell, Mark, Gilbert, M. Thomas P., Shapiro, Michael D.

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MAKER-P: A Tool Kit for the Rapid Creation, Management, and Quality Control of Plant Genome Annotations(1)([W])([OPEN]) by Campbell, Michael S., Law, MeiYee, Holt, Carson, Stein, Joshua C., Moghe, Gaurav D., Hufnagel, David E., Lei, Jikai, Achawanantakun, Rujira, Jiao, Dian, Lawrence, Carolyn J., Ware, Doreen, Shiu, Shin-Han, Childs, Kevin L., Sun, Yanni, Jiang, Ning, Yandell, Mark

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Automated Update, Revision, and Quality Control of the Maize Genome Annotations Using MAKER-P Improves the B73 RefGen_v3 Gene Models and Identifies New Genes by Law, MeiYee, Childs, Kevin L., Campbell, Michael S., Stein, Joshua C., Olson, Andrew J., Holt, Carson, Panchy, Nicholas, Lei, Jikai, Jiao, Dian, Andorf, Carson M., Lawrence, Carolyn J., Ware, Doreen, Shiu, Shin-Han, Sun, Yanni, Jiang, Ning, Yandell, Mark

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The Douglas-Fir Genome Sequence Reveals Specialization of the Photosynthetic Apparatus in Pinaceae by Neale, David B., McGuire, Patrick E., Wheeler, Nicholas C., Stevens, Kristian A., Crepeau, Marc W., Cardeno, Charis, Zimin, Aleksey V., Puiu, Daniela, Pertea, Geo M., Sezen, U. Uzay, Casola, Claudio, Koralewski, Tomasz E., Paul, Robin, Gonzalez-Ibeas, Daniel, Zaman, Sumaira, Cronn, Richard, Yandell, Mark, Holt, Carson, Langley, Charles H., Yorke, James A., Salzberg, Steven L., Wegrzyn, Jill L.

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The sea lamprey germline genome provides insights into programmed genome rearrangement and vertebrate evolution by Smith, Jeramiah J., Timoshevskaya, Nataliya, Ye, Chengxi, Holt, Carson, Keinath, Melissa C., Parker, Hugo J., Cook, Malcolm E., Hess, Jon E., Narum, Shawn R., Lamanna, Francesco, Kaessmann, Henrik, Timoshevskiy, Vladimir A., Waterbury, Courtney K. M., Saraceno, Cody, Wiedemann, Leanne M., Robb, Sofia M. C., Baker, Carl, Eichler, Evan E., Hockman, Dorit, Sauka-Spengler, Tatjana, Yandell, Mark, Krumlauf, Robb, Elgar, Greg, Amemiya, Chris T.

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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.

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Comprehensive variant calling from whole‐genome sequencing identifies a complex inversion that disrupts ZFPM2 in familial congenital diaphragmatic hernia by Nicholas, Thomas J., Al‐Sweel, Najla, Farrell, Andrew, Mao, Rong, Bayrak‐Toydemir, Pinar, Miller, Christine E., Bentley, Dawn, Palmquist, Rachel, Moore, Barry, Hernandez, Edgar J., Cormier, Michael J., Fredrickson, Eric, Noble, Katherine, Rynearson, Shawn, Holt, Carson, Karren, Mary Anne, Bonkowsky, Joshua L., Tristani‐Firouzi, Martin, Yandell, Mark, Marth, Gabor, Quinlan, Aaron R., Brunelli, Luca, Toydemir, Reha M., Shayota, Brian J., Carey, John C., Boyden, Steven E., Malone Jenkins, Sabrina

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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

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Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire by Lévesque, C André, Brouwer, Henk, Cano, Liliana, Hamilton, John P, Holt, Carson, Huitema, Edgar, Raffaele, Sylvain, Robideau, Gregg P, Thines, Marco, Win, Joe, Zerillo, Marcelo M, Beakes, Gordon W, Boore, Jeffrey L, Busam, Dana, Dumas, Bernard, Ferriera, Steve, Fuerstenberg, Susan I, Gachon, Claire MM, Gaulin, Elodie, Govers, Francine, Grenville-Briggs, Laura, Horner, Neil, Hostetler, Jessica, Jiang, Rays HY, Johnson, Justin, Krajaejun, Theerapong, Lin, Haining, Meijer, Harold JG, Moore, Barry, Morris, Paul, Phuntmart, Vipaporn, Puiu, Daniela, Shetty, Jyoti, Stajich, Jason E, Tripathy, Sucheta, Wawra, Stephan, van West, Pieter, Whitty, Brett R, Coutinho, Pedro M, Henrissat, Bernard, Martin, Frank, Thomas, Paul D, Tyler, Brett M, De Vries, Ronald P, Kamoun, Sophien, Yandell, Mark, Tisserat, Ned, Buell, C Robin

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