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Publications

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E
Assessing structural variation in a personal genome-towards a human reference diploid genome., English, Adam C., Salerno William J., Hampton Oliver A., Gonzaga-Jauregui Claudia, Ambreth Shruthi, Ritter Deborah I., Beck Christine R., Davis Caleb F., Dahdouli Mahmoud, Ma Singer, et al. , BMC genomics, 2015 Apr 11, Volume 16, Issue 1, p.286, (2015) Abstract
Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology., English, Adam C., Richards Stephen, Han Yi, Wang Min, Vee Vanesa, Qu Jiaxin, Qin Xiang, Muzny Donna M., Reid Jeffrey G., Worley Kim C., et al. , PloS one, 2012, Volume 7, Issue 11, p.e47768, (2012) Abstract
PBHoney: identifying genomic variants via long-read discordance and interrupted mapping., English, Adam C., Salerno William J., and Reid Jeffrey G. , BMC bioinformatics, 2014, Volume 15, p.180, (2014) Abstract
B
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project., Birney, Ewan, Stamatoyannopoulos John A., Dutta Anindya, Guigó Roderic, Gingeras Thomas R., Margulies Elliott H., Weng Zhiping, Snyder Michael, Dermitzakis Emmanouil T., Thurman Robert E., et al. , Nature, 2007 Jun 14, Volume 447, Issue 7146, p.799-816, (2007) Abstract
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project., Birney, Ewan, Stamatoyannopoulos John A., Dutta Anindya, Guigó Roderic, Gingeras Thomas R., Margulies Elliott H., Weng Zhiping, Snyder Michael, Dermitzakis Emmanouil T., Thurman Robert E., et al. , Nature, 2007 Jun 14, Volume 447, Issue 7146, p.799-816, (2007) Abstract
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project., Birney, Ewan, Stamatoyannopoulos John A., Dutta Anindya, Guigó Roderic, Gingeras Thomas R., Margulies Elliott H., Weng Zhiping, Snyder Michael, Dermitzakis Emmanouil T., Thurman Robert E., et al. , Nature, 2007 Jun 14, Volume 447, Issue 7146, p.799-816, (2007) Abstract
E
Community annotation: procedures, protocols, and supporting tools., Elsik, Christine G., Worley Kim C., Zhang Lan, Milshina Natalia V., Jiang Huaiyang, Reese Justin T., Childs Kevin L., Venkatraman Anand, Dickens Michael C., Weinstock George M., et al. , Genome research, 2006 Nov, Volume 16, Issue 11, p.1329-33, (2006) Abstract
Potassium channels in C. elegans, Eisenmann, David M., and Fawcett G. , WormBook, 2005, (2005)
Fine structure of the human FMR1 gene., Eichler, E. E., Richards S., Gibbs R. A., and Nelson D. L. , Human molecular genetics, 1994 Apr, Volume 3, Issue 4, p.684-5, (1994)
Duplication of a gene-rich cluster between 16p11.1 and Xq28: a novel pericentromeric-directed mechanism for paralogous genome evolution., Eichler, E. E., Lu F., Shen Y., Antonacci R., Jurecic V., Doggett N. A., Moyzis R. K., Baldini A., Gibbs R. A., and Nelson D. L. , Human molecular genetics, 1996 Jul, Volume 5, Issue 7, p.899-912, (1996) Abstract
Fine structure of the human FMR1 gene., Eichler, E. E., Richards S., Gibbs R. A., and Nelson D. L. , Human molecular genetics, 1993 Aug, Volume 2, Issue 8, p.1147-53, (1993) Abstract
The genome of the social amoeba Dictyostelium discoideum., Eichinger, L., Pachebat J. A., Glöckner G., Rajandream M. - A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., et al. , Nature, 2005 May 5, Volume 435, Issue 7038, p.43-57, (2005) Abstract
Variation in GRM3 affects cognition, prefrontal glutamate, and risk for schizophrenia., Egan, Michael F., Straub Richard E., Goldberg Terry E., Yakub Imtiaz, Callicott Joseph H., Hariri Ahmad R., Mattay Venkata S., Bertolino Alessandro, Hyde Thomas M., Shannon-Weickert Cynthia, et al. , Proceedings of the National Academy of Sciences of the United States of America, 2004 Aug 24, Volume 101, Issue 34, p.12604-9, (2004) Abstract
Automated DNA sequencing methods for detection and analysis of mutations: applications to the Lesch-Nyhan syndrome., Edwards, A., Gibbs R. A., Nguyen P. N., Ansorge W., and Caskey C. T. , Transactions of the Association of American Physicians, 1989, Volume 102, p.185-94, (1989)
Multiplex PCR: advantages, development, and applications., Edwards, M. C., and Gibbs R. A. , PCR methods and applications, 1994 Feb, Volume 3, Issue 4, p.S65-75, (1994)
Pentanucleotide repeat length polymorphism at the human CD4 locus., Edwards, M. C., Clemens P. R., Tristan M., Pizzuti A., and Gibbs R. A. , Nucleic acids research, 1991 Sep 11, Volume 19, Issue 17, p.4791, (1991)
A human dimorphism resulting from loss of an Alu., Edwards, M. C., and Gibbs R. A. , Genomics, 1992 Nov, Volume 14, Issue 3, p.590-7, (1992) Abstract
D
The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse., Durfee, Tim, Nelson Richard, Baldwin Schuyler, Plunkett Guy, Burland Valerie, Mau Bob, Petrosino Joseph F., Qin Xiang, Muzny Donna M., Ayele Mulu, et al. , Journal of bacteriology, 2008 Apr, Volume 190, Issue 7, p.2597-606, (2008) Abstract
Widespread lateral gene transfer from intracellular bacteria to multicellular eukaryotes., Dunning Hotopp, Julie C., Clark Michael E., Oliveira Deodoro C. S. G., Foster Jeremy M., Fischer Peter, Muñoz Torres Mónica C., Giebel Jonathan D., Kumar Nikhil, Ishmael Nadeeza, Wang Shiliang, et al. , Science (New York, N.Y.), 2007 Sep 21, Volume 317, Issue 5845, p.1753-6, (2007) Abstract
Complete genome sequence of citrus huanglongbing bacterium, 'Candidatus Liberibacter asiaticus' obtained through metagenomics., Duan, Yongping, Zhou Lijuan, Hall David G., Li Wenbin, Doddapaneni Harshavardhan, Lin Hong, Liu Li, Vahling Cheryl M., Gabriel Dean W., Williams Kelly P., et al. , Molecular plant-microbe interactions : MPMI, 2009 Aug, Volume 22, Issue 8, p.1011-20, (2009) Abstract
Mutations in the TGF-β repressor SKI cause Shprintzen-Goldberg syndrome with aortic aneurysm., Doyle, Alexander J., Doyle Jefferson J., Bessling Seneca L., Maragh Samantha, Lindsay Mark E., Schepers Dorien, Gillis Elisabeth, Mortier Geert, Homfray Tessa, Sauls Kimberly, et al. , Nature genetics, 2012 Nov, Volume 44, Issue 11, p.1249-54, (2012) Abstract
Untangling the influences of unmodeled evolutionary processes on phylogenetic signal in a forensically important HIV-1 transmission cluster., Doyle, Vinson P., Andersen John J., Nelson Bradley J., Metzker Michael L., and Brown Jeremy M. , Molecular phylogenetics and evolution, 2014 Feb 28, Volume 75C, p.126-137, (2014) Abstract
Comparison and integration of deleteriousness prediction methods for nonsynonymous SNVs in whole exome sequencing studies., Dong, Chengliang, Wei Peng, Jian Xueqiu, Gibbs Richard, Boerwinkle Eric, Wang Kai, and Liu Xiaoming , Human molecular genetics, 2015 Apr 15, Volume 24, Issue 8, p.2125-37, (2015) Abstract
MLH1-silenced and non-silenced subgroups of hypermutated colorectal carcinomas have distinct mutational landscapes., Donehower, Lawrence A., Creighton Chad J., Schultz Nikolaus, Shinbrot Eve, Chang Kyle, Gunaratne Preethi H., Muzny Donna, Sander Chris, Hamilton Stanley R., Gibbs Richard A., et al. , The Journal of pathology, 2013 Jan, Volume 229, Issue 1, p.99-110, (2013) Abstract
The use of primers from highly conserved pol regions to identify uncharacterized retroviruses by the polymerase chain reaction., Donehower, L. A., Bohannon R. C., Ford R. J., and Gibbs R. A. , Journal of virological methods, 1990 Apr, Volume 28, Issue 1, p.33-46, (1990) Abstract


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