Rapid genome shrinkage in a self-fertile nematode reveals sperm competition proteins von Yin, Da, Schwarz, Erich M, Thomas, Cristel G, Felde, Rebecca L, Korf, Ian F, Cutter, Asher D, Schartner, Caitlin M, Ralston, Edward J, Meyer, Barbara J, Haag, Eric S

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Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products von Beitel, Christopher W, Froenicke, Lutz, Lang, Jenna M, Korf, Ian F, Michelmore, Richard W, Eisen, Jonathan A, Darling, Aaron E

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GC skew is a conserved property of unmethylated CpG island promoters across vertebrates von Hartono, Stella R, Korf, Ian F, Chédin, Frédéric

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Sorghum genome sequencing by methylation filtration von Bedell, Joseph A, Budiman, Muhammad A, Nunberg, Andrew, Citek, Robert W, Robbins, Dan, Jones, Joshua, Flick, Elizabeth, Rholfing, Theresa, Fries, Jason, Bradford, Kourtney, McMenamy, Jennifer, Smith, Michael, Holeman, Heather, Roe, Bruce A, Wiley, Graham, Korf, Ian F, Rabinowicz, Pablo D, Lakey, Nathan, McCombie, W Richard, Jeddeloh, Jeffrey A, Martienssen, Robert A

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Low-pass whole genome bisulfite sequencing of neonatal dried blood spots identifies a role for RUNX1 in Down syndrome DNA methylation profiles von Laufer, Benjamin I, Hwang, Hyeyeon, Jianu, Julia M, Mordaunt, Charles E, Korf, Ian F, Hertz-Picciotto, Irva, LaSalle, Janine M

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Holocentric chromosomes: convergent evolution, meiotic adaptations, and genomic analysis von Melters, Daniël P, Paliulis, Leocadia V, Korf, Ian F, Chan, Simon W. L

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Improving laboratory animal genetic reporting: LAG-R guidelines von Teboul, Lydia, Amos-Landgraf, James, Benavides, Fernando J., Birling, Marie-Christine, Brown, Steve D. M., Bryda, Elizabeth, Bunton-Stasyshyn, Rosie, Chin, Hsian-Jean, Crispo, Martina, Delerue, Fabien, Dobbie, Michael, Franklin, Craig L., Fuchtbauer, Ernst-Martin, Gao, Xiang, Golzio, Christelle, Haffner, Rebecca, Hérault, Yann, Hrabe de Angelis, Martin, Lloyd, Kevin C. Kent, Magnuson, Terry R., Montoliu, Lluis, Murray, Stephen A., Nam, Ki-Hoan, Nutter, Lauryl M. J., Pailhoux, Eric, Pardo Manuel de Villena, Fernando, Peterson, Kevin, Reinholdt, Laura, Sedlacek, Radislav, Seong, Je Kyung, Shiroishi, Toshihiko, Smith, Cynthia, Takeo, Toru, Tinsley, Louise, Vilotte, Jean-Luc, Warming, Søren, Wells, Sara, Whitelaw, C. Bruce, Yoshiki, Atsushi, Pavlovic, Guillaume

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Autosomal Trisomy and Triploidy Are Corrected During Female Meiosis in Caenorhabditis elegans von Vargas, Elizabeth, McNally, Karen, Friedman, Jacob A, Cortes, Daniel B, Wang, David Y, Korf, Ian F, McNally, Francis J

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Applying Word-Based Algorithms: The IMEter von Korf, Ian F., Rose, Alan B.

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Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species von Bradnam, Keith R, Fass, Joseph N, Alexandrov, Anton, Baranay, Paul, Bechner, Michael, Birol, Inanç, Boisvert, Sébastien, Chapman, Jarrod A, Chapuis, Guillaume, Chikhi, Rayan, Chitsaz, Hamidreza, Chou, Wen-Chi, Corbeil, Jacques, Del Fabbro, Cristian, Docking, T Roderick, Durbin, Richard, Earl, Dent, Emrich, Scott, Fedotov, Pavel, Fonseca, Nuno A, Ganapathy, Ganeshkumar, Gibbs, Richard A, Gnerre, Sante, Godzaridis, Elénie, Goldstein, Steve, Haimel, Matthias, Hall, Giles, Haussler, David, Hiatt, Joseph B, Ho, Isaac Y, Howard, Jason, Hunt, Martin, Jackman, Shaun D, Jaffe, David B, Jarvis, Erich D, Jiang, Huaiyang, Kazakov, Sergey, Kersey, Paul J, Kitzman, Jacob O, Knight, James R, Koren, Sergey, Lam, Tak-Wah, Lavenier, Dominique, Laviolette, François, Li, Yingrui, Li, Zhenyu, Liu, Binghang, Liu, Yue, Luo, Ruibang, Maccallum, Iain, Macmanes, Matthew D, Maillet, Nicolas, Melnikov, Sergey, Naquin, Delphine, Ning, Zemin, Otto, Thomas D, Paten, Benedict, Paulo, Octávio S, Phillippy, Adam M, Pina-Martins, Francisco, Place, Michael, Przybylski, Dariusz, Qin, Xiang, Qu, Carson, Ribeiro, Filipe J, Richards, Stephen, Rokhsar, Daniel S, Ruby, J Graham, Scalabrin, Simone, Schatz, Michael C, Schwartz, David C, Sergushichev, Alexey, Sharpe, Ted, Shaw, Timothy I, Shendure, Jay, Shi, Yujian, Simpson, Jared T, Song, Henry, Tsarev, Fedor, Vezzi, Francesco, Vicedomini, Riccardo, Vieira, Bruno M, Wang, Jun, Worley, Kim C, Yin, Shuangye, Yiu, Siu-Ming, Yuan, Jianying, Zhang, Guojie, Zhang, Hao, Zhou, Shiguo, Korf, Ian F

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Comparative Analysis of Tandem Repeats from Hundreds of Species Reveals Unique Insights into Centromere Evolution von Melters, Daniël P, Bradnam, Keith R, Young, Hugh A, Telis, Natalie, May, Michael R, J Graham Ruby, Sebra, Robert, Peluso, Paul, Eid, John, Rank, David, Garcia, José Fernando, DeRisi, Joseph L, Smith, Timothy, Tobias, Christian, Ross-Ibarra, Jeffrey, Korf, Ian F, Chan, Simon W -L

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Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species von Bradnam, Keith R, Fass, Joseph N, Alexandrov, Anton, Baranay, Paul, Bechner, Michael, İnanç Birol, , Sébastien Boisvert, Chapman, Jarrod A, Chapuis, Guillaume, Chikhi, Rayan, Chitsaz, Hamidreza, Wen-Chi Chou, Corbeil, Jacques, Cristian Del Fabbro, Docking, T Roderick, Durbin, Richard, Dent, Earl, Emrich, Scott, Fedotov, Pavel, Fonseca, Nuno A, Ganapathy, Ganeshkumar, Gibbs, Richard A, Gnerre, Sante, Godzaridis, Élénie, Goldstein, Steve, Haimel, Matthias, Hall, Giles, Haussler, David, Hiatt, Joseph B, Ho, Isaac Y, Howard, Jason, Hunt, Martin, Jackman, Shaun D, Jaffe, David B, Jarvis, Erich, Jiang, Huaiyang, Kazakov, Sergey, Kersey, Paul J, Kitzman, Jacob O, Knight, James R, Koren, Sergey, Lam, Tak-Wah, Lavenier, Dominique, Laviolette, François, Li, Yingrui, Li, Zhenyu, Liu, Binghang, Liu, Yue, Luo, Ruibang, MacCallum, Iain, MacManes, Matthew D, Maillet, Nicolas, Melnikov, Sergey, Bruno Miguel Vieira, Naquin, Delphine, Ning, Zemin, Otto, Thomas D, Paten, Benedict, Paulo, Octávio S, Phillippy, Adam M, Pina-Martins, Francisco, Place, Michael, Przybylski, Dariusz, Qin, Xiang, Qu, Carson, Ribeiro, Filipe J, Richards, Stephen, Rokhsar, Daniel S, J. Graham Ruby, Scalabrin, Simone, Schatz, Michael C, Schwartz, David C, Sergushichev, Alexey, Sharpe, Ted, Shaw, Timothy I, Shendure, Jay, Shi, Yujian, Simpson, Jared T, Song, Henry, Tsarev, Fedor, Vezzi, Francesco, Vicedomini, Riccardo, Wang, Jun, Worley, Kim C, Yin, Shuangye, Siu-Ming Yiu, Yuan, Jianying, Zhang, Guojie, Zhang, Hao, Zhou, Shiguo, and Ian F. Korf

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Sorghum Genome Sequencing by Methylation Filtration von Joseph A Bedell, Muhammad A Budiman, Andrew Nunberg, Robert W Citek, Dan Robbins, Joshua Jones, Elizabeth Flick, Theresa Rohlfing, Jason Fries, Kourtney Bradford, Jennifer McMenamy, Michael Smith, Heather Holeman, Bruce A Roe, Graham Wiley, Ian F Korf, Pablo D Rabinowicz, Nathan Lakey, W. Richard McCombie, Jeffrey A Jeddeloh, Robert A Martienssen

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GC skew at the 5' and 3' ends of human genes links R-loop formation to epigenetic regulation and transcription termination von Ginno, Paul A, Lim, Yoong Wearn, Lott, Paul L, Korf, Ian, Chédin, Frédéric

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Functional annotations of three domestic animal genomes provide vital resources for comparative and agricultural research von Kern, Colin, Wang, Ying, Xu, Xiaoqin, Pan, Zhangyuan, Halstead, Michelle, Chanthavixay, Ganrea, Saelao, Perot, Waters, Susan, Xiang, Ruidong, Chamberlain, Amanda, Korf, Ian, Delany, Mary E., Cheng, Hans H., Medrano, Juan F., Van Eenennaam, Alison L., Tuggle, Chris K., Ernst, Catherine, Flicek, Paul, Quon, Gerald, Ross, Pablo, Zhou, Huaijun

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Genome-wide identification of tissue-specific long non-coding RNA in three farm animal species von Kern, Colin, Wang, Ying, Chitwood, James, Korf, Ian, Delany, Mary, Cheng, Hans, Medrano, Juan F, Van Eenennaam, Alison L, Ernst, Catherine, Ross, Pablo, Zhou, Huaijun

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A comparative analysis of chromatin accessibility in cattle, pig, and mouse tissues von Halstead, Michelle M., Kern, Colin, Saelao, Perot, Wang, Ying, Chanthavixay, Ganrea, Medrano, Juan F., Van Eenennaam, Alison L., Korf, Ian, Tuggle, Christopher K., Ernst, Catherine W., Zhou, Huaijun, Ross, Pablo J.

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Exploring concordance and discordance for return of incidental findings from clinical sequencing von Green, Robert C., Berg, Jonathan S., Berry, Gerard T., Biesecker, Leslie G., Dimmock, David P., Evans, James P., Grody, Wayne W., Hegde, Madhuri R., Kalia, Sarah, Korf, Bruce R., Krantz, Ian, McGuire, Amy L., Miller, David T., Murray, Michael F., Nussbaum, Robert L., Plon, Sharon E., Rehm, Heidi L., Jacob, Howard J.

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Assemblathon 1: a competitive assessment of de novo short read assembly methods von Earl, Dent, Bradnam, Keith, St John, John, Darling, Aaron, Lin, Dawei, Fass, Joseph, Yu, Hung On Ken, Buffalo, Vince, Zerbino, Daniel R, Diekhans, Mark, Nguyen, Ngan, Ariyaratne, Pramila Nuwantha, Sung, Wing-Kin, Ning, Zemin, Haimel, Matthias, Simpson, Jared T, Fonseca, Nuno A, Birol, İnanç, Docking, T Roderick, Ho, Isaac Y, Rokhsar, Daniel S, Chikhi, Rayan, Lavenier, Dominique, Chapuis, Guillaume, Naquin, Delphine, Maillet, Nicolas, Schatz, Michael C, Kelley, David R, Phillippy, Adam M, Koren, Sergey, Yang, Shiaw-Pyng, Wu, Wei, Chou, Wen-Chi, Srivastava, Anuj, Shaw, Timothy I, Ruby, J Graham, Skewes-Cox, Peter, Betegon, Miguel, Dimon, Michelle T, Solovyev, Victor, Seledtsov, Igor, Kosarev, Petr, Vorobyev, Denis, Ramirez-Gonzalez, Ricardo, Leggett, Richard, MacLean, Dan, Xia, Fangfang, Luo, Ruibang, Li, Zhenyu, Xie, Yinlong, Liu, Binghang, Gnerre, Sante, MacCallum, Iain, Przybylski, Dariusz, Ribeiro, Filipe J, Yin, Shuangye, Sharpe, Ted, Hall, Giles, Kersey, Paul J, Durbin, Richard, Jackman, Shaun D, Chapman, Jarrod A, Huang, Xiaoqiu, DeRisi, Joseph L, Caccamo, Mario, Li, Yingrui, Jaffe, David B, Green, Richard E, Haussler, David, Korf, Ian, Paten, Benedict

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Characterization of the contradictory chromatin signatures at the 3' exons of zinc finger genes von Blahnik, Kimberly R, Dou, Lei, Echipare, Lorigail, Iyengar, Sushma, O'Geen, Henriette, Sanchez, Erica, Zhao, Yongjun, Marra, Marco A, Hirst, Martin, Costello, Joseph F, Korf, Ian, Farnham, Peggy J

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