Results 71 to 80 of about 2,481,819 (312)
BOA: A partitioned view of genome assembly
iScience, 2022 Abstract De novo genome assembly is a fundamental problem in computational molecular biology that aims to reconstruct an unknown genome sequence from a set of short DNA sequences (or reads ) obtained from the genome.Priyanka Ghosh, Xiaojing An, Patrick Keppler, Sureyya Emre Kurt, Ümit V. Çatalyürek, Sriram Krishnamoorthy, P. Sadayappan, Aravind Sukumaran Rajam, Ananth Kalyanaraman +8 moreopenaire +3 more sourcesFully phased human genome assembly without parental data using single-cell strand sequencing and long reads [PDF]
, 2021 Human genomes are typically assembled as consensus sequences that lack information on parental haplotypes. Here we describe a reference-free workflow for diploid de novo genome assembly that combines the chromosome-wide phasing and scaffolding ...Sorensen, Melanie, Ebler, Jana, Marijon, P., Ebert, Peter, Sanders, A.D., Pierre Marijon, Mitchell R. Vollger, Korbel, J., Marijon, Pierre, Paten, B., Harvey, W.T., Melanie Sorensen, Benedict Paten, Ashley D. Sanders, Marschall, T., Sulovari, A., Haukness, Marina, Lee, Charles, Maryam Ghareghani, Audano, P., Peter A. Audano, Scott E. Devine, Structural Variation Consortium, Human Genome, Ebert, P., Marschall, Tobias, Paten, Benedict, Katherine M. Munson, Ebler, J., Harvey, W., Peter Ebert, Lansdorp, P., David Porubsky, Jan O. Korbel, Chaisson, Mark J P, Haukness, M., William T. Harvey, Eichler, E.E., Arvis Sulovari, Eichler, E., Chaisson, M.J.P., Chaisson, M., Vollger, Mitchell R, Vollger, M.R., Sanders, Ashley D, Evan E. Eichler, Ghareghani, M., Harvey, William T, Tobias Marschall, Jana Ebler, Peter M. Lansdorp, Mark J. P. Chaisson, Devine, Scott E, Lansdorp, P.M., Sanders, A., Audano, P.A., Eichler, Evan E, Porubsky, D., Sulovari, Arvis, Devine, S.E., Devine, S., Ghareghani, Maryam, Porubsky, David, Munson, K.M., Vollger, M., Sorensen, M., Audano, Peter A, Charles Lee, Lansdorp, Peter M, Munson, Katherine M, Munson, K., Korbel, J.O., Marina Haukness, Korbel, Jan O, Lee, C. +73 morecore +1 more sourceGAML: Genome Assembly by Maximum Likelihood [PDF]
Algorithms for Molecular Biology, 2014 Resolution of repeats and scaffolding of shorter contigs are critical parts of genome assembly. Modern assemblers usually perform such steps by heuristics, often tailored to a particular technology for producing paired or long reads.We propose a new framework that allows systematic combination of diverse sequencing datasets into a single assembly.Vladimír Boza, Brona Brejová, Tomás Vinar +2 moreopenaire +3 more sourcesGenome sequence of the pea aphid Acyrthosiphon pisum [PDF]
, 2010 Aphids are important agricultural pests and also biological models for studies of insect-plant interactions, symbiosis, virus vectoring, and the developmental causes of extreme phenotypic plasticity.Fenton, Brian, Schneider, M., Nazareth, LV, Smagghe, G., Eisen, Jonathan A., Hilgarth, RS, Hlavina, W., Gordon, K., Christiaens, Olivier, Moen, C., Jiang, H., Williamson, Michael, Vellozo, A, Altincicek, B, Gilbert, Don, Cortes, T, Wright, Rita A., Bickel, Ryan D, Aguilar, J, Wilson, Alex CC, Dang, P.M., Davis, G.K., Brault, V, Hilgarth, Roland S., Lu, Hsiao-Ling, Patel, BM, Vilcinskas, A, Parker, Ben J., Gerardo, Nicole M, Chacko, Joseph, The International Aphid Genomics Consortium, Duncan, Elizabeth J, Evans, J, Davies, T. G. E., Chen, H.-C., Fitzroy, Carol I. J., Monsion, Baptiste, Seah, S., Butts, Thomas, Anselme, C, Hurwitz, B., Robertson, Hugh M, Wilson, Megan, Pechuan, X., Rahbe, Yvan, Dombrovsky, A., Cass, Bodil, Pérez-Brocal, V., Carolan, J.C., Miyagishima, S-Y, Ollivier, M., Leonardo, Teresa, Wilson, M, Jones, D.H., Futami, R, Kushlan, P.F., Zhang, Jingkun, Gabisi, R.A., Douglas, AE, Price, D.R.G., Lu, H.-L., Gatehouse, John A., Price, Daniel R.G., Hauser, F, Ortiz-Rivas, Benjamin, Richards, S, He, X-L, Collin, O., Chandrabose, Mimi N, Thibaud-Nissen, Françoise Françoise, Futami, R., Chen, H-C, Pechuan, X, et al., Joshi, V, Tamborindeguy, Cecilia, Kamins, A, Ollivier, Morgane, Smith, J., Kiryutin, B, Collin, Olivier, Atsushi, Nakabachi, Huerta-Cepas, Jaime, Dinh, HH, Schwartz, Julia, Kaloshian, I., Ishikawa, Asano, Sattelle, D., Smagghe, G, Vieira, Filipe G, Dang, Phat M., van der Zee, Maurijn, Gilbert, D, Veenstra, Jan A., Fowler, Gerald R, Ermolaeva, O., Lee, SL, Tamames, J., Walsh, T.K., de Vos, Martin, Evans, Jay, Legeai, F, Ashton, Peter D., Gabisi, RA, Hlavina, W, Moen, Charles, Hunnicutt, L., Jaubert-Possamai, S, Kamins, A., Barribeau, Seth M., Hedges, D, Heckel, David G., Lozado, Ryan J, Liu, Y-S, Diaz, J, Nikoh, N, Singh, K, Zhou, J-J, Hilgarth, R.S., Wilson, Alexandra, Souvorov, Alexandre, Hume, J, Tamarit, Daniel,, Stafflinger, E, Colella, S., Stanke, M, Huerta-Cepas, J., Consortium, The International Aphid Genomics, Davies, TG Emyr, Wilson, ACC, Huerta-Cepas, J, Williams Jr., R.L., Kosarev, P., Miyagishima, Shin-ya, Nakabachi, A., Christiaens, O, Rispe, C., Singh, Karam, Davies, TGE, Lewis, Lora R., Dinh, H.H., Camara, F, Schwartz, J., Barribeau, S.M., Ishikawa, A, Gauthier, Jean Pierre, Caillaud, Marina, Ren, Q., Rozas, Julio, Muzny, D, Cass, B, Monsion, B, Parker, BJ, Mariotti, M., Leonardo, T., Douglas, Angela, Muzny, Donna, Srinivasan, Dayalan, Gerardo, NM, Reeck, Gerald R, Sagot, MF, Campbell, Peter, Jaubert-Possamai, S., Hunnicutt, Laura, Hitchens, Matthew E, Kamphuis, Lars G., Miura, T, Wilson, Alex C. C., Davis, Gregory K., Gabaldon, Toni, Ermolaeva, O, Vattathil, Selina, Davies, T G Emyr, Joshi, V., Ju, Ho-Jong, Field, Linda M, Schneider, Martina, Carolan, James C, Price, Daniel RG, Cortes, Teresa, Reardon, Karen T., Brisson, J.A., Morioka, M., Velarde, R., Williamson, Martin S, Moya, A., Charles, Hubert, Moya, A, Kapustin, Yuri, Pruitt, K., Heckel, David G, Santibanez, Jireh, Field, Linda M., Fowler, GR, Lee, Sandra L., Chacko, J, Chandrabose, M.N., Huybrechts, Jurgen, Hansen, Karina K, Robertson, HM, Parker, Ben J, Fitzroy, Carol I.J., Zhou, Jing-Jiang, Jr, WRL, Vincent-Monegat, Carole, Miura, T., Câmara, F., Smith, James, Macdonald, S., Heckel, D.G., Muzny, D., Cree, A, Iga, M, Chacko, J., Hunter, W, Cree, Andy, Jiang, H, Wilkinson, T.L., Gauthier, Jean-Pierre, Pechuan, Ximo, Kudo, Toshiaki, Grimmelikhuijzen, C.J.P., Morioka, M, Robertson, H.M., Kamphuis, L.G., Morioka, Mizue, Thomas, G., Tagu, Denis, Hitchens, Matthew E., Degnan, P, Van Der Zee, M., Barribeau, Seth M, Kaloshian, Isgouhi, Atamian, H., Gatehouse, John A, Stafflinger, E., Schneider, M, Alioto, T, Tamborindeguy, C, Maglott, Donna, Hines, S., Vilcinskas, A., Williamson, M.S., Lewis, Lora R, Marcet-Houben, M, Solovyev, V., Duncan, EJ, Wolstenholme, A, Maglott, D, Guigó, R., Martinez-Torres, D, Rider, Stanley Dean, Duncan, E., Hansen, Karina K., Gerardo, Nicole M., Lozado, Ryan J., Morgan, Margaret B., Dale, RP, Price, Daniel R. G., Ermolaeva, Olga, Murphy, T, Hedges, Dale, Jiang, Huaiyang, Rispe, Claude, Chavez, D, Dale, R.P., Gauthier, J-P, Vieira, F.G., Heddi, Abdelaziz, Miyagishima, S.-Y., Martinez-Torres, David, Kaloshian, I, Nikoh, Naruo, Stanke, Mario, International Aphid Genomics Consortium, Vos, Martin, De, Kiryutin, B., Lozado, RJ, Davies, T. G. Emyr, Field, L.M., Ferrier, David, Dinh, Huyen H, Legeai, F., Jhangian, Shalini N., Wright, R.A., Fitzroy, CIJ, Hume, J., Ren, Q, de Vos, M, Wilkinson, TL, Ortiz-Rivas, B., Carolan, JC, Walsh, TK, McCutcheon, John P., Pruitt, K, Pruitt, Kim, Okwuonu, Geoffrey O, Caillaud, M, Heckel, D., Bickel, R.D., Thomas, G, Chen, Hsiu Chuan, Ghanim, M, Gabisi, Ramatu Ayiesha, Ashton, Peter D, Fenton, B, Robertson, Hugh M., Heckel, DG, Sagot, Marie France, Burke, G., Colella, S, Jones, A., Tamarit, D., Gordon, K, Atamian, H, Altincicek, B., Thibaud-Nissen, F., Koga, R., Duncan, Elizabeth, van Fleet, Eric, Anselme, Caroline, Williams, Rex L., Hansen, KK, Joshi, Vandita, Patel, B.M., Fitzroy, C.I.J., Brault, Veronique, Williamson, Martin S., Rizk, Guillaume, Kushlan, Philip F, Ramsey, J, Latorre, A., Pu, L.-L., Camara, Francisco, Butts, T., Liu, Y.-S., Williamson, MS, Cottret, Ludovic, Price, DRG, Smith, J, Burke, Gaelen, Zhou, Jing Jiang, Cazzamali, G., Reardon, Karen T, Hansen, K.K., Alioto, T., Cazzamali, Giuseppe, Abdel-latief, Mohatmed, Wilson, M., Permal, E., Williamson, M., Wilson, A.C.C., Janssen, R., Hines, Sandra, Stafflinger, Elisabeth, Hunter, W., Permal, E, Nazareth, L.V., McCutcheon, John P, Moran, Nancy A, Brault, V., Velarde, R, Chavez, D., Fenton, B., Lozado, R.J., Llorens, Carlos, Jones, DH, Dang, Phat M, Ashton, PD, Nazareth, Lynne V, McGregor, A, Jones, Andrew, Williamson, S, Dao, Marvin Diep, Gauthier, J.-P., Lavenier, D., Dearden, Peter, Price, Daniel R G, Pu, Ling-Ling, Nguyen, Ngoc Bich, Ashton, P., Nicolas, Jacques, Jones, A, Rizk, G., Williamson, M, Thomas, Gavin, Morgan, MB, Edwards, Owain R., Channels, Ion, Campbell, P., Huybrechts, J, Reeck, GR, Jhangian, SN, Vattathil, S, Kosarev, P, Williamson, S., Morgan, M.B., Perez-Brocal, Vicente, Christiaens, O., Huang, W., Hedges, D., Jhangian, S.N., Moen, C, Hurwitz, B, Reeck, G.R., Permal, Emmanuelle, Spragg, Chelsea J., Llorens, C., Kapustin, Y, Pu, L-L, Gabaldon, T, Davis, GK, Grimmelikhuijzen, Cornelis J. P., Vieira, Filipe G., Gerardo, N.M., Gordon, Karl, Brisson, Jennifer A., Williamson, Sally, Charles, H, Seah, S, Zhang, Lan, Fowler, Gerald R., Hitchens, ME, Zee, Maurijn, Van Der, Srinivasan, D., Chavez, Dean, Douglas, A, Ruiz, San Juana, Liu, R, Kapustin, Y., Santibanez, J, Jr, RSD, Walsh, Thomas K, Willson, Alex C.C., Dao, M.D., Huang, Wenting, Edwards, OR, Chang, C.-C., Lewis, L.R., van der Zee, M, Douglas, A.E., McCutcheon, JP, Wilkinson, Thomas L., Parker, B.J., Lu, H-L, Murphy, T., Stanke, M., Kitts, P, Jander, G., Zhang, L, Rider, Stanley Dean, Jr., Zhang, J, Mariotti, M, Bell, S.N., Marcet-Houben, Marina, Dearden, P, Duncan, E.J., Chen, Hsiu-Chuan, Macdonald, Sandy, Janssen, R, Fukatsu, Takema, Gibbs, Richard A, Worley, K.C., Reeck, Gerald R., Rispe, C, Dao, MD, Diaz, J., Stern, David, Moya, Andres, Febvay, Gerard, Shigenobu, S, Okwuonu, GO, Macdonald, S, Reardon, KT, van Fleet, E, Shigenobu, Shuji, Cortés, T., Legeai, Fabrice, Latorre, Amparo, Atamian, Hagop, Ramsey, John, Fukatsu, T, Steffen, David, Jones, Derek H., Bell, Stephanie N, Jones, Derek H, Spragg, Chelsea J, He, Xiao Li, Richards, S., Huang, W, Gabaldón, T., Velarde, Rodrigo, Sagot, Marie-France, Tagu, D., Quesneville, H, Veenstra, JA, Miura, Toru, Febvay, G., Janssen, Ralf, Nicolas, J, Johnson, A.J., Butts, T, Ferrier, D., Febvay, G, Jhangian, Shalini N, Nakabachi, A, Hauser, F., Kamphuis, Lars G, Vellozo, A., Cass, B., Bell, Stephanie N., Hunter, Wayne, Vilcinskas, Andreas, He, X.-L., Santibanez, J., Int Aphid Genomics Consortium, Rozas Liras, Julio A., McGregor, Alistair, Kitts, Paul, Calevro, F., Ju, H.-J., Chang, Chun Che, Latorre, A, Field, L. M., Smadja, C., Dearden, P., Moran, Nancy A., Grimmelikhuijzen, Cornelis J.P., Aguilar, J., Bickel, Ryan D., Lewis, LR, Kudo, T, Hurwitz, Bonnie, Wright, Rita A, Duncan, Elizabeth J., Zhou, J.-J., Alioto, Tyler, Smagghe, Guy, Collin, O, Kushlan, Philip F., Ortiz-Rivas, B, Anselme, C., Abdel-latief, M, Kiryutin, Boris, Rahbe, Y, Robichon, A., Colella, Stefano, Iga, M., Gibbs, R.A., Okwuonu, Geoffrey O., Huybrechts, J., Hines, S, Hitchens, M.E., Veenstra, J.A., Heddi, A., Nguyen, N.B., Ashton, P, Chang, C-C, , International Aphid Genomics Consortium, Okwuonu, G.O., Kovar, Christie, Barribeau, Seth, Wolstenholme, A., Kosarev, Peter, Davis, Clay, Tagu, D, Tamborindeguy, C., Liu, Yih-shin, Wilson, Alex C.C., Fleet, Eric, Van, Sapojnikov, V., Jaubert-Possamai, Stephanie, Zhou, J-J., Sattelle, David, Hunnicutt, L, Nakabachi, Atsushi, Dombrovsky, Aviv, Tamarit, Daniel, Ollivier, M, Monsion, B., Quesneville, Hadi, Nguyen, NB, Murphy, Terence, Koga, R, Dinh, Huyen H., Ren, Qinghu, Rahbé, Y., Reeck, Gerald, Cree, A., Diaz, Jason, Pignatelli, Miguel, Dang, PM, Gibbs, RA, Ferrier, D, Spragg, C.J., Edwards, O.R., Wilson, Alex C C, Ramsey, J., Degnan, Patrick, Sapojnikov, Victor, Jaubert, Stéphanie, Gibbs, Richard A., Nazareth, Lynne V., Hume, Jennifer, Srinivasan, D, Bickel, RD, Calevro, Federica, Guigo, Roderic, Richards, Stephen, Pu, Ling Ling, Smadja, C, Campbell, P, Chandrabose, Mimi N., Brisson, Jennifer A, Grimmelikhuijzen, Cornelis JP, Tamames, J, Lavenier, Dominique, Morgan, Margaret B, Rider Jr., Stanley Dean, Ashton, Peter, Davis, C, Chang, Chun-che, Smadja, Carole, Warren, J.T., Cottret, L., Gatehouse, JA, Guigo, R, Solovyev, Victor, Robichon, A, Jander, Georg, Robichon, Alain, Heddi, A, Calevro, F, Mariotti, Marco, Vincent-Monegat, C., Gerado, N., Aguilar, Jose, Consortium, IAG, Worley, Kim C., Williams, Rex L Jr, Janssen, Ralf,, Lee, S.L., Walsh, Thomas K., Ruiz, SJ, Kamphuis, LG, Kovar, C., Ishikawa, A., Iga, Masatoshi, Hlavina, Wratko, Kushlan, PF, Thibaud-Nissen, Francoise, Singh, K., Quesneville, H., Johnson, AJ, Spragg, CJ, He, X-L., De Vos, M., Duncan, E, Miyagishima, Shin Ya, Kudo, T., Lopez, J, Koga, Ryuichi, Warren, James T, Rozas, J., Liu, Renhu, Steffen, D, Souvorov, A, Nikoh, N., Rider, Stanley Dean Jr, Kovar, C, Liu, R., Vincent-Monegat, C, Field, LM, Vattathil, S., Wright, RA, Kamins, Alexandra, Fowler, G.R., Llorens, C, Evans, J., Lu, Hsiao Ling, Edwards, Owain R, Veenstra, Jan A, Ju, H-J, Ghanim, M., Worley, KC, Warren, James T., Wolstenholme, Adrian, Stern, D, Jander, G, Sapojnikov, V, Ruiz, S.J., Nicolas, J., Warren, JT, Williams, Rex L., Jr., Marcet-Houben, M., Williams, Rex L, Grimmelikhuijzen, CJP, Schwartz, J, Bell, SN, Caillaud, M., Sagot, M.F., Vellozo, Augusto, Burke, G, Fitzroy, Carol IJ, Abdel-Latief, M., Zhang, J., Rizk, G, Douglas, Angela E., Dale, Richard P., Fukatsu, T., Perez-Brocal, V, Van Fleet, E., Davies, T.G.E., Seah, Stuart, Gatehouse, J. A., Ferrier, David Ellard Keith, Grimmelikhuijzen, Cornelis J P, McCutcheon, J.P., The International Aphid Genomics Consortium, Iagc, Carolan, James C., Gerardo, Nichole M., Gibbs , R., Sattelle, D, Pignatelli, M., Solovyev, V, Lee, Sandra L, Kitts, P., Davis, C., Steffen, D., Zhang, L., Cazzamali, G, Tamarit, D, Ju, Ho Jong, Thibaud-Nissen, F, Liu, Yih Shin, Shigenobu, S., Reardon, K.T., Moran, Nancy, Moran, NA, Stern, D., Barribeau, SM, Souvorov, A., Rider Jr., S.D., Vieira, FG, Gatehouse, J.A., Cottret, L, McGregor, A., Chandrabose, MN, He, Xiao-Li, Hauser, Frank, Worley, Kim C, Hilgarth, Roland S, Maglott, D., Pignatelli, M, Moran, N, Gilbert, D., Brisson, JA, Wilkinson, Thomas L, Dombrovsky, A, Dale, Richard P, Futami, Ricardo, Ghanim, Murad, Tamames, Javier, Davis, Gregory K, Patel, Bella Mayurkumar, Fitzroy, Carol I J, Moran, N., Martínez-Torres, D., Lavenier, D, Williamson, M. S., Rozas, J, Lopez, J., Leonardo, T, Altincicek, Boran, Charles, H., Degnan, P., Lopez, John, Douglas, Angela E, Johnson, Angela Jolivet, Williams, RL, Rider, SD, Guigó Serra, Roderic, null null, Richards, Stephan +783 morecore +1 more sourceA high-quality chromosome-level wild rice genome of Oryza coarctata
Scientific Data, 2023 Oryza coarctata (2n = 4X = 48, KKLL) is an allotetraploid, undomesticated relative of rice and the only species in the genus Oryza with tolerance to high salinity and submergence.Hang Zhao, Wenzheng Wang, Yirong Yang, Zhiwei Wang, Jing Sun, Kaijun Yuan, S. M. Hisam Al Rabbi, Munnujan Khanam, Md. Shahjahan Kabir, Zeba I. Seraj, Md. Sazzadur Rahman, Zhiguo Zhang +11 moredoaj +1 more sourceTranslophagy—A potential link between autophagy impairment and translational errors
FEBS Letters, EarlyView.Neurodegenerative diseases are characterised by the accumulation of abnormal proteins and protein aggregates, but their origin often remains unknown. We propose that selective autophagy removes damaged protein‐making machinery, preventing errors during protein synthesis.Mykola V. Korolchuk, Gailing Ma, Robin Antrobus, Diego Manni, Marco Trevisan‐Herraz, Mustafa Khwaja, Max Brown, Gavin D. Richardson, Masaaki Komatsu, Daniel Erskine, Viktor I. Korolchuk, Tetsushi Kataura +11 morewiley +1 more source
