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1.

Progressive Loss of Function in a Limb Enhancer during Snake Evolution.

Kvon, Evgeny Z; Kamneva, Olga K; Melo, Uirá S; Barozzi, Iros; Osterwalder, Marco; Mannion, Brandon J; Tissières, Virginie; Pickle, Catherine S; Plajzer-Frick, Ingrid; Lee, Elizabeth A; Kato, Momoe; Garvin, Tyler H; Akiyama, Jennifer A; Afzal, Veena; Lopez-Rios, Javier; Rubin, Edward M; Dickel, Diane E; Pennacchio, Len A; Visel, Axel.

Cell; 167(3): 633-642.e11, 2016 Oct 20.

Artículo en Inglés | MEDLINE | ID: mdl-27768887

2.

Rapid and pervasive changes in genome-wide enhancer usage during mammalian development.

Nord, Alex S; Blow, Matthew J; Attanasio, Catia; Akiyama, Jennifer A; Holt, Amy; Hosseini, Roya; Phouanenavong, Sengthavy; Plajzer-Frick, Ingrid; Shoukry, Malak; Afzal, Veena; Rubenstein, John L R; Rubin, Edward M; Pennacchio, Len A; Visel, Axel.

Cell; 155(7): 1521-31, 2013 Dec 19.

Artículo en Inglés | MEDLINE | ID: mdl-24360275

3.

A high-resolution enhancer atlas of the developing telencephalon.

Visel, Axel; Taher, Leila; Girgis, Hani; May, Dalit; Golonzhka, Olga; Hoch, Renee V; McKinsey, Gabriel L; Pattabiraman, Kartik; Silberberg, Shanni N; Blow, Matthew J; Hansen, David V; Nord, Alex S; Akiyama, Jennifer A; Holt, Amy; Hosseini, Roya; Phouanenavong, Sengthavy; Plajzer-Frick, Ingrid; Shoukry, Malak; Afzal, Veena; Kaplan, Tommy; Kriegstein, Arnold R; Rubin, Edward M; Ovcharenko, Ivan; Pennacchio, Len A; Rubenstein, John L R.

Cell; 152(4): 895-908, 2013 Feb 14.

Artículo en Inglés | MEDLINE | ID: mdl-23375746

4.

Coronavirus surveillance of wildlife in the Lao People's Democratic Republic detects viral RNA in rodents.

McIver, David J; Silithammavong, Soubanh; Theppangna, Watthana; Gillis, Amethyst; Douangngeun, Bounlom; Khammavong, Kongsy; Singhalath, Sinpakone; Duong, Veasna; Buchy, Philippe; Olson, Sarah H; Keatts, Lucy; Fine, Amanda E; Greatorex, Zoe; Gilbert, Martin; LeBreton, Matthew; Saylors, Karen; Joly, Damien O; Rubin, Edward M; Lange, Christian E.

Arch Virol; 165(8): 1869-1875, 2020 Aug.

Artículo en Inglés | MEDLINE | ID: mdl-32488616

5.

DNA of diverse adenoviruses detected in Cameroonian rodent and shrew species.

Diffo, Joseph; Ndze, Valantine Ngum; Ntumvi, Nkom Felix; Takuo, Jean-Michel; Mouiche, Moctar M M; Tamoufe, Ubald; Nwobegahay, Julius; LeBreton, Matthew; Gillis, Amethyst; Schneider, Bradley S; Fair, Joseph M; Monagin, Corina; McIver, David J; Joly, Damien O; Wolfe, Nathan D; Rubin, Edward M; Lange, Christian E.

Arch Virol; 164(9): 2359-2366, 2019 Sep.

Artículo en Inglés | MEDLINE | ID: mdl-31240484

6.

Insights into the phylogeny and coding potential of microbial dark matter.

Rinke, Christian; Schwientek, Patrick; Sczyrba, Alexander; Ivanova, Natalia N; Anderson, Iain J; Cheng, Jan-Fang; Darling, Aaron; Malfatti, Stephanie; Swan, Brandon K; Gies, Esther A; Dodsworth, Jeremy A; Hedlund, Brian P; Tsiamis, George; Sievert, Stefan M; Liu, Wen-Tso; Eisen, Jonathan A; Hallam, Steven J; Kyrpides, Nikos C; Stepanauskas, Ramunas; Rubin, Edward M; Hugenholtz, Philip; Woyke, Tanja.

Nature; 499(7459): 431-7, 2013 Jul 25.

Artículo en Inglés | MEDLINE | ID: mdl-23851394

7.

Transfer RNAs with novel cloverleaf structures.

Mukai, Takahito; Vargas-Rodriguez, Oscar; Englert, Markus; Tripp, H James; Ivanova, Natalia N; Rubin, Edward M; Kyrpides, Nikos C; Söll, Dieter.

Nucleic Acids Res; 45(5): 2776-2785, 2017 03 17.

Artículo en Inglés | MEDLINE | ID: mdl-28076288

8.

The Epigenomic Landscape of Prokaryotes.

Blow, Matthew J; Clark, Tyson A; Daum, Chris G; Deutschbauer, Adam M; Fomenkov, Alexey; Fries, Roxanne; Froula, Jeff; Kang, Dongwan D; Malmstrom, Rex R; Morgan, Richard D; Posfai, Janos; Singh, Kanwar; Visel, Axel; Wetmore, Kelly; Zhao, Zhiying; Rubin, Edward M; Korlach, Jonas; Pennacchio, Len A; Roberts, Richard J.

PLoS Genet; 12(2): e1005854, 2016 Feb.

Artículo en Inglés | MEDLINE | ID: mdl-26870957

9.

DNA indicative of human bocaviruses detected in non-human primates in the Democratic Republic of the Congo.

Kumakamba, Charles; Ngay Lukusa, Ipos; Mbala Kingebeni, Placide; N'Kawa, Frida; Atibu Losoma, Joseph; Mulembakani, Prime M; Makuwa, Maria; Muyembe Tamfum, Jean-Jacques; Belais, Raphaël; Gillis, Amethyst; Harris, Stephen; Rimoin, Anne W; Hoff, Nicole A; Fair, Joseph N; Monagin, Corina; Ayukekbong, James; Rubin, Edward M; Wolfe, Nathan D; Lange, Christian E.

J Gen Virol; 99(5): 676-681, 2018 05.

Artículo en Inglés | MEDLINE | ID: mdl-29583115

10.

High Herpesvirus Diversity in Wild Rodent and Shrew Species in Central Africa.

Ntumvi, Nkom Felix; Mbala Kingebeni, Placide; Tamoufe, Ubald; Kumakamba, Charles; Ndze, Valentine; Ngay Lukusa, Ipos; LeBreton, Matthew; Atibu Losoma, Joseph; Le Doux Diffo, Joseph; N'Kawa, Frida; Takuo, Jean-Michel; Mulembakani, Prime; Nwobegahay, Julius; Makuwa, Maria; Muyembe Tamfum, Jean J; Gillis, Amethyst; Harris, Stephen; Rimoin, Anne W; Hoff, Nicole A; Fair, Joseph M; Monagin, Corina; Ayukekbong, James; Rubin, Edward M; Wolfe, Nathan D; Lange, Christian E.

Intervirology; 61(4): 155-165, 2018.

Artículo en Inglés | MEDLINE | ID: mdl-30448834

11.

The future of DNA sequencing.

Green, Eric D; Rubin, Edward M; Olson, Maynard V.

Nature; 550(7675): 179-181, 2017 10 11.

Artículo en Inglés | MEDLINE | ID: mdl-29022931

12.

Tracking the origins of Yakutian horses and the genetic basis for their fast adaptation to subarctic environments.

Librado, Pablo; Der Sarkissian, Clio; Ermini, Luca; Schubert, Mikkel; Jónsson, Hákon; Albrechtsen, Anders; Fumagalli, Matteo; Yang, Melinda A; Gamba, Cristina; Seguin-Orlando, Andaine; Mortensen, Cecilie D; Petersen, Bent; Hoover, Cindi A; Lorente-Galdos, Belen; Nedoluzhko, Artem; Boulygina, Eugenia; Tsygankova, Svetlana; Neuditschko, Markus; Jagannathan, Vidhya; Thèves, Catherine; Alfarhan, Ahmed H; Alquraishi, Saleh A; Al-Rasheid, Khaled A S; Sicheritz-Ponten, Thomas; Popov, Ruslan; Grigoriev, Semyon; Alekseev, Anatoly N; Rubin, Edward M; McCue, Molly; Rieder, Stefan; Leeb, Tosso; Tikhonov, Alexei; Crubézy, Eric; Slatkin, Montgomery; Marques-Bonet, Tomas; Nielsen, Rasmus; Willerslev, Eske; Kantanen, Juha; Prokhortchouk, Egor; Orlando, Ludovic.

Proc Natl Acad Sci U S A; 112(50): E6889-97, 2015 Dec 15.

Artículo en Inglés | MEDLINE | ID: mdl-26598656

13.

Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome.

Pedersen, Jakob Skou; Valen, Eivind; Velazquez, Amhed M Vargas; Parker, Brian J; Rasmussen, Morten; Lindgreen, Stinus; Lilje, Berit; Tobin, Desmond J; Kelly, Theresa K; Vang, Søren; Andersson, Robin; Jones, Peter A; Hoover, Cindi A; Tikhonov, Alexei; Prokhortchouk, Egor; Rubin, Edward M; Sandelin, Albin; Gilbert, M Thomas P; Krogh, Anders; Willerslev, Eske; Orlando, Ludovic.

Genome Res; 24(3): 454-66, 2014 Mar.

Artículo en Inglés | MEDLINE | ID: mdl-24299735

14.

Tissue-specific SMARCA4 binding at active and repressed regulatory elements during embryogenesis.

Attanasio, Catia; Nord, Alex S; Zhu, Yiwen; Blow, Matthew J; Biddie, Simon C; Mendenhall, Eric M; Dixon, Jesse; Wright, Crystal; Hosseini, Roya; Akiyama, Jennifer A; Holt, Amy; Plajzer-Frick, Ingrid; Shoukry, Malak; Afzal, Veena; Ren, Bing; Bernstein, Bradley E; Rubin, Edward M; Visel, Axel; Pennacchio, Len A.

Genome Res; 24(6): 920-9, 2014 Jun.

Artículo en Inglés | MEDLINE | ID: mdl-24752179

15.

Methane yield phenotypes linked to differential gene expression in the sheep rumen microbiome.

Shi, Weibing; Moon, Christina D; Leahy, Sinead C; Kang, Dongwan; Froula, Jeff; Kittelmann, Sandra; Fan, Christina; Deutsch, Samuel; Gagic, Dragana; Seedorf, Henning; Kelly, William J; Atua, Renee; Sang, Carrie; Soni, Priya; Li, Dong; Pinares-Patiño, Cesar S; McEwan, John C; Janssen, Peter H; Chen, Feng; Visel, Axel; Wang, Zhong; Attwood, Graeme T; Rubin, Edward M.

Genome Res; 24(9): 1517-25, 2014 Sep.

Artículo en Inglés | MEDLINE | ID: mdl-24907284

16.

Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw.

Mackelprang, Rachel; Waldrop, Mark P; DeAngelis, Kristen M; David, Maude M; Chavarria, Krystle L; Blazewicz, Steven J; Rubin, Edward M; Jansson, Janet K.

Nature; 480(7377): 368-71, 2011 Nov 06.

Artículo en Inglés | MEDLINE | ID: mdl-22056985

17.

Tissue-specific RNA expression marks distant-acting developmental enhancers.

Wu, Han; Nord, Alex S; Akiyama, Jennifer A; Shoukry, Malak; Afzal, Veena; Rubin, Edward M; Pennacchio, Len A; Visel, Axel.

PLoS Genet; 10(9): e1004610, 2014 Sep.

Artículo en Inglés | MEDLINE | ID: mdl-25188404

18.

Prehistoric genomes reveal the genetic foundation and cost of horse domestication.

Schubert, Mikkel; Jónsson, Hákon; Chang, Dan; Der Sarkissian, Clio; Ermini, Luca; Ginolhac, Aurélien; Albrechtsen, Anders; Dupanloup, Isabelle; Foucal, Adrien; Petersen, Bent; Fumagalli, Matteo; Raghavan, Maanasa; Seguin-Orlando, Andaine; Korneliussen, Thorfinn S; Velazquez, Amhed M V; Stenderup, Jesper; Hoover, Cindi A; Rubin, Carl-Johan; Alfarhan, Ahmed H; Alquraishi, Saleh A; Al-Rasheid, Khaled A S; MacHugh, David E; Kalbfleisch, Ted; MacLeod, James N; Rubin, Edward M; Sicheritz-Ponten, Thomas; Andersson, Leif; Hofreiter, Michael; Marques-Bonet, Tomas; Gilbert, M Thomas P; Nielsen, Rasmus; Excoffier, Laurent; Willerslev, Eske; Shapiro, Beth; Orlando, Ludovic.

Proc Natl Acad Sci U S A; 111(52): E5661-9, 2014 Dec 30.

Artículo en Inglés | MEDLINE | ID: mdl-25512547

19.

Targeted deletion of the 9p21 non-coding coronary artery disease risk interval in mice.

Visel, Axel; Zhu, Yiwen; May, Dalit; Afzal, Veena; Gong, Elaine; Attanasio, Catia; Blow, Matthew J; Cohen, Jonathan C; Rubin, Edward M; Pennacchio, Len A.

Nature; 464(7287): 409-12, 2010 Mar 18.

Artículo en Inglés | MEDLINE | ID: mdl-20173736

20.

Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing.

Shih, Patrick M; Wu, Dongying; Latifi, Amel; Axen, Seth D; Fewer, David P; Talla, Emmanuel; Calteau, Alexandra; Cai, Fei; Tandeau de Marsac, Nicole; Rippka, Rosmarie; Herdman, Michael; Sivonen, Kaarina; Coursin, Therese; Laurent, Thierry; Goodwin, Lynne; Nolan, Matt; Davenport, Karen W; Han, Cliff S; Rubin, Edward M; Eisen, Jonathan A; Woyke, Tanja; Gugger, Muriel; Kerfeld, Cheryl A.

Proc Natl Acad Sci U S A; 110(3): 1053-8, 2013 Jan 15.

Artículo en Inglés | MEDLINE | ID: mdl-23277585

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