Pesquisa | Biblioteca Virtual em Saúde

1.

The developmental transcriptome of Drosophila melanogaster.

Graveley, Brenton R; Brooks, Angela N; Carlson, Joseph W; Duff, Michael O; Landolin, Jane M; Yang, Li; Artieri, Carlo G; van Baren, Marijke J; Boley, Nathan; Booth, Benjamin W; Brown, James B; Cherbas, Lucy; Davis, Carrie A; Dobin, Alex; Li, Renhua; Lin, Wei; Malone, John H; Mattiuzzo, Nicolas R; Miller, David; Sturgill, David; Tuch, Brian B; Zaleski, Chris; Zhang, Dayu; Blanchette, Marco; Dudoit, Sandrine; Eads, Brian; Green, Richard E; Hammonds, Ann; Jiang, Lichun; Kapranov, Phil; Langton, Laura; Perrimon, Norbert; Sandler, Jeremy E; Wan, Kenneth H; Willingham, Aarron; Zhang, Yu; Zou, Yi; Andrews, Justen; Bickel, Peter J; Brenner, Steven E; Brent, Michael R; Cherbas, Peter; Gingeras, Thomas R; Hoskins, Roger A; Kaufman, Thomas C; Oliver, Brian; Celniker, Susan E.

Nature ; 471(7339): 473-9, 2011 Mar 24.

Artigo em Inglês | MEDLINE | ID: mdl-21179090

2.

Marine algae and land plants share conserved phytochrome signaling systems.

Duanmu, Deqiang; Bachy, Charles; Sudek, Sebastian; Wong, Chee-Hong; Jiménez, Valeria; Rockwell, Nathan C; Martin, Shelley S; Ngan, Chew Yee; Reistetter, Emily N; van Baren, Marijke J; Price, Dana C; Wei, Chia-Lin; Reyes-Prieto, Adrian; Lagarias, J Clark; Worden, Alexandra Z.

Proc Natl Acad Sci U S A ; 111(44): 15827-32, 2014 Nov 04.

Artigo em Inglês | MEDLINE | ID: mdl-25267653

3.

Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants.

van Baren, Marijke J; Bachy, Charles; Reistetter, Emily Nahas; Purvine, Samuel O; Grimwood, Jane; Sudek, Sebastian; Yu, Hang; Poirier, Camille; Deerinck, Thomas J; Kuo, Alan; Grigoriev, Igor V; Wong, Chee-Hong; Smith, Richard D; Callister, Stephen J; Wei, Chia-Lin; Schmutz, Jeremy; Worden, Alexandra Z.

BMC Genomics ; 17: 267, 2016 Mar 31.

Artigo em Inglês | MEDLINE | ID: mdl-27029936

4.

Intron Invasions Trace Algal Speciation and Reveal Nearly Identical Arctic and Antarctic Micromonas Populations.

Simmons, Melinda P; Bachy, Charles; Sudek, Sebastian; van Baren, Marijke J; Sudek, Lisa; Ares, Manuel; Worden, Alexandra Z.

Mol Biol Evol ; 32(9): 2219-35, 2015 Sep.

Artigo em Inglês | MEDLINE | ID: mdl-25998521

5.

The transcriptional diversity of 25 Drosophila cell lines.

Cherbas, Lucy; Willingham, Aarron; Zhang, Dayu; Yang, Li; Zou, Yi; Eads, Brian D; Carlson, Joseph W; Landolin, Jane M; Kapranov, Philipp; Dumais, Jacqueline; Samsonova, Anastasia; Choi, Jeong-Hyeon; Roberts, Johnny; Davis, Carrie A; Tang, Haixu; van Baren, Marijke J; Ghosh, Srinka; Dobin, Alexander; Bell, Kim; Lin, Wei; Langton, Laura; Duff, Michael O; Tenney, Aaron E; Zaleski, Chris; Brent, Michael R; Hoskins, Roger A; Kaufman, Thomas C; Andrews, Justen; Graveley, Brenton R; Perrimon, Norbert; Celniker, Susan E; Gingeras, Thomas R; Cherbas, Peter.

Genome Res ; 21(2): 301-14, 2011 Feb.

Artigo em Inglês | MEDLINE | ID: mdl-21177962

6.

The completion of the Mammalian Gene Collection (MGC).

Temple, Gary; Gerhard, Daniela S; Rasooly, Rebekah; Feingold, Elise A; Good, Peter J; Robinson, Cristen; Mandich, Allison; Derge, Jeffrey G; Lewis, Jeanne; Shoaf, Debonny; Collins, Francis S; Jang, Wonhee; Wagner, Lukas; Shenmen, Carolyn M; Misquitta, Leonie; Schaefer, Carl F; Buetow, Kenneth H; Bonner, Tom I; Yankie, Linda; Ward, Ming; Phan, Lon; Astashyn, Alex; Brown, Garth; Farrell, Catherine; Hart, Jennifer; Landrum, Melissa; Maidak, Bonnie L; Murphy, Michael; Murphy, Terence; Rajput, Bhanu; Riddick, Lillian; Webb, David; Weber, Janet; Wu, Wendy; Pruitt, Kim D; Maglott, Donna; Siepel, Adam; Brejova, Brona; Diekhans, Mark; Harte, Rachel; Baertsch, Robert; Kent, Jim; Haussler, David; Brent, Michael; Langton, Laura; Comstock, Charles L G; Stevens, Michael; Wei, Chaochun; van Baren, Marijke J; Salehi-Ashtiani, Kourosh.

Genome Res ; 19(12): 2324-33, 2009 Dec.

Artigo em Inglês | MEDLINE | ID: mdl-19767417

7.

A community challenge to evaluate RNA-seq, fusion detection, and isoform quantification methods for cancer discovery.

Creason, Allison; Haan, David; Dang, Kristen; Chiotti, Kami E; Inkman, Matthew; Lamb, Andrew; Yu, Thomas; Hu, Yin; Norman, Thea C; Buchanan, Alex; van Baren, Marijke J; Spangler, Ryan; Rollins, M Rick; Spellman, Paul T; Rozanov, Dmitri; Zhang, Jin; Maher, Christopher A; Caloian, Cristian; Watson, John D; Uhrig, Sebastian; Haas, Brian J; Jain, Miten; Akeson, Mark; Ahsen, Mehmet Eren; Stolovitzky, Gustavo; Guinney, Justin; Boutros, Paul C; Stuart, Joshua M; Ellrott, Kyle.

Cell Syst ; 12(8): 827-838.e5, 2021 08 18.

Artigo em Inglês | MEDLINE | ID: mdl-34146471

8.

Full-length transcript characterization of SF3B1 mutation in chronic lymphocytic leukemia reveals downregulation of retained introns.

Tang, Alison D; Soulette, Cameron M; van Baren, Marijke J; Hart, Kevyn; Hrabeta-Robinson, Eva; Wu, Catherine J; Brooks, Angela N.

Nat Commun ; 11(1): 1438, 2020 03 18.

Artigo em Inglês | MEDLINE | ID: mdl-32188845

9.

Responses of the picoprasinophyte Micromonas commoda to light and ultraviolet stress.

Cuvelier, Marie L; Guo, Jian; Ortiz, Alejandra C; van Baren, Marijke J; Tariq, Muhammad Akram; Partensky, Frédéric; Worden, Alexandra Z.

PLoS One ; 12(3): e0172135, 2017.

Artigo em Inglês | MEDLINE | ID: mdl-28278262

10.

Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla.

Waltman, Peter H; Guo, Jian; Reistetter, Emily Nahas; Purvine, Samuel; Ansong, Charles K; van Baren, Marijke J; Wong, Chee-Hong; Wei, Chia-Lin; Smith, Richard D; Callister, Stephen J; Stuart, Joshua M; Worden, Alexandra Z.

PLoS One ; 11(7): e0155839, 2016.

Artigo em Inglês | MEDLINE | ID: mdl-27434306

11.

Estimating the nucleotide diversity in Ceratodon purpureus (Ditrichaceae) from 218 conserved exon-primed, intron-spanning nuclear loci.

McDaniel, Stuart F; van Baren, Marijke J; Jones, Kelly S; Payton, Adam C; Quatrano, Ralph S.

Appl Plant Sci ; 1(4)2013 Apr.

Artigo em Inglês | MEDLINE | ID: mdl-25202534

12.

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation.

Trapnell, Cole; Williams, Brian A; Pertea, Geo; Mortazavi, Ali; Kwan, Gordon; van Baren, Marijke J; Salzberg, Steven L; Wold, Barbara J; Pachter, Lior.

Nat Biotechnol ; 28(5): 511-5, 2010 May.

Artigo em Inglês | MEDLINE | ID: mdl-20436464

13.

Using N-SCAN or TWINSCAN to predict gene structures in genomic DNA sequences.

van Baren, Marijke J; Koebbe, Brian C; Brent, Michael R.

Curr Protoc Bioinformatics ; Chapter 4: 4.8.1-4.8.16, 2007 Dec.

Artigo em Inglês | MEDLINE | ID: mdl-18428682

14.

Iterative gene prediction and pseudogene removal improves genome annotation.

van Baren, Marijke J; Brent, Michael R.

Genome Res ; 16(5): 678-85, 2006 May.

Artigo em Inglês | MEDLINE | ID: mdl-16651666

15.

The PCR suite.

van Baren, Marijke J; Heutink, Peter.

Bioinformatics ; 20(4): 591-3, 2004 Mar 01.

Artigo em Inglês | MEDLINE | ID: mdl-14751986

16.

A double RING-H2 domain in RNF32, a gene expressed during sperm formation.

van Baren, Marijke J; van der Linde, Herma C; Breedveld, Guido J; Baarends, Willy M; Rizzu, Patrizia; de Graaff, Esther; Oostra, Ben A; Heutink, Peter.

Biochem Biophys Res Commun ; 292(1): 58-65, 2002 Mar 22.

Artigo em Inglês | MEDLINE | ID: mdl-11890671

17.

Disruption of a long-range cis-acting regulator for Shh causes preaxial polydactyly.

Lettice, Laura A; Horikoshi, Taizo; Heaney, Simon J H; van Baren, Marijke J; van der Linde, Herma C; Breedveld, Guido J; Joosse, Marijke; Akarsu, Nurten; Oostra, Ben A; Endo, Naoto; Shibata, Minoru; Suzuki, Mikio; Takahashi, Eiichi; Shinka, Toshikatsu; Nakahori, Yutaka; Ayusawa, Dai; Nakabayashi, Kazuhiko; Scherer, Stephen W; Heutink, Peter; Hill, Robert E; Noji, Sumihare.

Proc Natl Acad Sci U S A ; 99(11): 7548-53, 2002 May 28.

Artigo em Inglês | MEDLINE | ID: mdl-12032320

18.

Mutations in the DJ-1 gene associated with autosomal recessive early-onset parkinsonism.

Bonifati, Vincenzo; Rizzu, Patrizia; van Baren, Marijke J; Schaap, Onno; Breedveld, Guido J; Krieger, Elmar; Dekker, Marieke C J; Squitieri, Ferdinando; Ibanez, Pablo; Joosse, Marijke; van Dongen, Jeroen W; Vanacore, Nicola; van Swieten, John C; Brice, Alexis; Meco, Giuseppe; van Duijn, Cornelia M; Oostra, Ben A; Heutink, Peter.

Science ; 299(5604): 256-9, 2003 Jan 10.

Artigo em Inglês | MEDLINE | ID: mdl-12446870

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