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1.

Ancient gene linkages support ctenophores as sister to other animals.

Schultz, Darrin T; Haddock, Steven H D; Bredeson, Jessen V; Green, Richard E; Simakov, Oleg; Rokhsar, Daniel S.

Nature; 618(7963): 110-117, 2023 Jun.

Artículo en Inglés | MEDLINE | ID: mdl-37198475

2.

A mouse following in the footsteps of human prehistory.

Vohr, Samuel H; Green, Richard E.

Cell; 152(4): 667-8, 2013 Feb 14.

Artículo en Inglés | MEDLINE | ID: mdl-23415216

3.

Semi-automated assembly of high-quality diploid human reference genomes.

Jarvis, Erich D; Formenti, Giulio; Rhie, Arang; Guarracino, Andrea; Yang, Chentao; Wood, Jonathan; Tracey, Alan; Thibaud-Nissen, Francoise; Vollger, Mitchell R; Porubsky, David; Cheng, Haoyu; Asri, Mobin; Logsdon, Glennis A; Carnevali, Paolo; Chaisson, Mark J P; Chin, Chen-Shan; Cody, Sarah; Collins, Joanna; Ebert, Peter; Escalona, Merly; Fedrigo, Olivier; Fulton, Robert S; Fulton, Lucinda L; Garg, Shilpa; Gerton, Jennifer L; Ghurye, Jay; Granat, Anastasiya; Green, Richard E; Harvey, William; Hasenfeld, Patrick; Hastie, Alex; Haukness, Marina; Jaeger, Erich B; Jain, Miten; Kirsche, Melanie; Kolmogorov, Mikhail; Korbel, Jan O; Koren, Sergey; Korlach, Jonas; Lee, Joyce; Li, Daofeng; Lindsay, Tina; Lucas, Julian; Luo, Feng; Marschall, Tobias; Mitchell, Matthew W; McDaniel, Jennifer; Nie, Fan; Olsen, Hugh E; Olson, Nathan D.

Nature; 611(7936): 519-531, 2022 Nov.

Artículo en Inglés | MEDLINE | ID: mdl-36261518

4.

A method to generate capture baits for targeted sequencing.

Sundararaman, Balaji; Vershinina, Alisa O; Hershauer, Samantha; Kapp, Joshua D; Dunn, Shelby; Shapiro, Beth; Green, Richard E.

Nucleic Acids Res; 51(13): e69, 2023 07 21.

Artículo en Inglés | MEDLINE | ID: mdl-37260085

5.

A complete Neandertal mitochondrial genome sequence determined by high-throughput sequencing.

Green, Richard E; Malaspinas, Anna-Sapfo; Krause, Johannes; Briggs, Adrian W; Johnson, Philip L F; Uhler, Caroline; Meyer, Matthias; Good, Jeffrey M; Maricic, Tomislav; Stenzel, Udo; Prüfer, Kay; Siebauer, Michael; Burbano, Hernán A; Ronan, Michael; Rothberg, Jonathan M; Egholm, Michael; Rudan, Pavao; Brajkovic, Dejana; Kucan, Zeljko; Gusic, Ivan; Wikström, Mårten; Laakkonen, Liisa; Kelso, Janet; Slatkin, Montgomery; Pääbo, Svante.

Cell; 134(3): 416-26, 2008 Aug 08.

Artículo en Inglés | MEDLINE | ID: mdl-18692465

6.

A computational approach for positive genetic identification and relatedness detection from low-coverage shotgun sequencing data.

Nguyen, Remy; Kapp, Joshua D; Sacco, Samuel; Myers, Steven P; Green, Richard E.

J Hered; 114(5): 504-512, 2023 08 23.

Artículo en Inglés | MEDLINE | ID: mdl-37381815

7.

Whole-genome sequence and assembly of the Javan gibbon (Hylobates moloch).

Escalona, Merly; VanCampen, Jake; Maurer, Nicholas W; Haukness, Marina; Okhovat, Mariam; Harris, Robert S; Watwood, Allison; Hartley, Gabrielle A; O'Neill, Rachel J; Medvedev, Paul; Makova, Kateryna D; Vollmers, Christopher; Carbone, Lucia; Green, Richard E.

J Hered; 114(1): 35-43, 2023 03 16.

Artículo en Inglés | MEDLINE | ID: mdl-36146896

8.

One fly-one genome: chromosome-scale genome assembly of a single outbred Drosophila melanogaster.

Adams, Matthew; McBroome, Jakob; Maurer, Nicholas; Pepper-Tunick, Evan; Saremi, Nedda F; Green, Richard E; Vollmers, Christopher; Corbett-Detig, Russell B.

Nucleic Acids Res; 48(13): e75, 2020 07 27.

Artículo en Inglés | MEDLINE | ID: mdl-32491177

9.

A novel NGS library preparation method to characterize native termini of fragmented DNA.

Harkins, Kelly M; Schaefer, Nathan K; Troll, Christopher J; Rao, Varsha; Kapp, Joshua; Naughton, Colin; Shapiro, Beth; Green, Richard E.

Nucleic Acids Res; 48(8): e47, 2020 05 07.

Artículo en Inglés | MEDLINE | ID: mdl-32112100

10.

Epigenetic maintenance of topological domains in the highly rearranged gibbon genome.

Lazar, Nathan H; Nevonen, Kimberly A; O'Connell, Brendan; McCann, Christine; O'Neill, Rachel J; Green, Richard E; Meyer, Thomas J; Okhovat, Mariam; Carbone, Lucia.

Genome Res; 28(7): 983-997, 2018 07.

Artículo en Inglés | MEDLINE | ID: mdl-29914971

11.

A Fast and Efficient Single-stranded Genomic Library Preparation Method Optimized for Ancient DNA.

Kapp, Joshua D; Green, Richard E; Shapiro, Beth.

J Hered; 112(3): 241-249, 2021 05 24.

Artículo en Inglés | MEDLINE | ID: mdl-33768239

12.

An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus.

Saremi, Nedda F; Oppenheimer, Jonas; Vollmers, Christopher; O'Connell, Brendan; Milne, Shard A; Byrne, Ashley; Yu, Li; Ryder, Oliver A; Green, Richard E; Shapiro, Beth.

J Hered; 112(4): 377-384, 2021 07 15.

Artículo en Inglés | MEDLINE | ID: mdl-33882130

13.

A Reference Genome Assembly of Simmental Cattle, Bos taurus taurus.

Heaton, Michael P; Smith, Timothy P L; Bickhart, Derek M; Vander Ley, Brian L; Kuehn, Larry A; Oppenheimer, Jonas; Shafer, Wade R; Schuetze, Fred T; Stroud, Brad; McClure, Jennifer C; Barfield, Jennifer P; Blackburn, Harvey D; Kalbfleisch, Theodore S; Davenport, Kimberly M; Kuhn, Kristen L; Green, Richard E; Shapiro, Beth; Rosen, Benjamin D.

J Hered; 112(2): 184-191, 2021 03 29.

Artículo en Inglés | MEDLINE | ID: mdl-33438035

14.

A Reference Genome Assembly of American Bison, Bison bison bison.

Oppenheimer, Jonas; Rosen, Benjamin D; Heaton, Michael P; Vander Ley, Brian L; Shafer, Wade R; Schuetze, Fred T; Stroud, Brad; Kuehn, Larry A; McClure, Jennifer C; Barfield, Jennifer P; Blackburn, Harvey D; Kalbfleisch, Theodore S; Bickhart, Derek M; Davenport, Kimberly M; Kuhn, Kristen L; Green, Richard E; Shapiro, Beth; Smith, Timothy P L.

J Hered; 112(2): 174-183, 2021 03 29.

Artículo en Inglés | MEDLINE | ID: mdl-33595645

15.

Improving nanopore read accuracy with the R2C2 method enables the sequencing of highly multiplexed full-length single-cell cDNA.

Volden, Roger; Palmer, Theron; Byrne, Ashley; Cole, Charles; Schmitz, Robert J; Green, Richard E; Vollmers, Christopher.

Proc Natl Acad Sci U S A; 115(39): 9726-9731, 2018 09 25.

Artículo en Inglés | MEDLINE | ID: mdl-30201725

16.

Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling.

Rice, Edward S; Kohno, Satomi; John, John St; Pham, Son; Howard, Jonathan; Lareau, Liana F; O'Connell, Brendan L; Hickey, Glenn; Armstrong, Joel; Deran, Alden; Fiddes, Ian; Platt, Roy N; Gresham, Cathy; McCarthy, Fiona; Kern, Colin; Haan, David; Phan, Tan; Schmidt, Carl; Sanford, Jeremy R; Ray, David A; Paten, Benedict; Guillette, Louis J; Green, Richard E.

Genome Res; 27(5): 686-696, 2017 05.

Artículo en Inglés | MEDLINE | ID: mdl-28137821

17.

The complete genome sequence of a Neanderthal from the Altai Mountains.

Prüfer, Kay; Racimo, Fernando; Patterson, Nick; Jay, Flora; Sankararaman, Sriram; Sawyer, Susanna; Heinze, Anja; Renaud, Gabriel; Sudmant, Peter H; de Filippo, Cesare; Li, Heng; Mallick, Swapan; Dannemann, Michael; Fu, Qiaomei; Kircher, Martin; Kuhlwilm, Martin; Lachmann, Michael; Meyer, Matthias; Ongyerth, Matthias; Siebauer, Michael; Theunert, Christoph; Tandon, Arti; Moorjani, Priya; Pickrell, Joseph; Mullikin, James C; Vohr, Samuel H; Green, Richard E; Hellmann, Ines; Johnson, Philip L F; Blanche, Hélène; Cann, Howard; Kitzman, Jacob O; Shendure, Jay; Eichler, Evan E; Lein, Ed S; Bakken, Trygve E; Golovanova, Liubov V; Doronichev, Vladimir B; Shunkov, Michael V; Derevianko, Anatoli P; Viola, Bence; Slatkin, Montgomery; Reich, David; Kelso, Janet; Pääbo, Svante.

Nature; 505(7481): 43-9, 2014 Jan 02.

Artículo en Inglés | MEDLINE | ID: mdl-24352235

18.

A ligation-based single-stranded library preparation method to analyze cell-free DNA and synthetic oligos.

Troll, Christopher J; Kapp, Joshua; Rao, Varsha; Harkins, Kelly M; Cole, Charles; Naughton, Colin; Morgan, Jessica M; Shapiro, Beth; Green, Richard E.

BMC Genomics; 20(1): 1023, 2019 Dec 27.

Artículo en Inglés | MEDLINE | ID: mdl-31881841

19.

Natural Selection and Origin of a Melanistic Allele in North American Gray Wolves.

Schweizer, Rena M; Durvasula, Arun; Smith, Joel; Vohr, Samuel H; Stahler, Daniel R; Galaverni, Marco; Thalmann, Olaf; Smith, Douglas W; Randi, Ettore; Ostrander, Elaine A; Green, Richard E; Lohmueller, Kirk E; Novembre, John; Wayne, Robert K.

Mol Biol Evol; 35(5): 1190-1209, 2018 05 01.

Artículo en Inglés | MEDLINE | ID: mdl-29688543

20.

Genomic Evidence of Widespread Admixture from Polar Bears into Brown Bears during the Last Ice Age.

Cahill, James A; Heintzman, Peter D; Harris, Kelley; Teasdale, Matthew D; Kapp, Joshua; Soares, Andre E R; Stirling, Ian; Bradley, Daniel; Edwards, Ceiridwen J; Graim, Kiley; Kisleika, Aliaksandr A; Malev, Alexander V; Monaghan, Nigel; Green, Richard E; Shapiro, Beth.

Mol Biol Evol; 35(5): 1120-1129, 2018 05 01.

Artículo en Inglés | MEDLINE | ID: mdl-29471451

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