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3 Article(s) on File
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Systematic evaluation of spliced alignment programs for RNA-seq data
Engström PG,
Steijger T,
Sipos B,
Grant GR,
Kahles A,
Rätsch G,
Goldman N,
Hubbard TJ,
Harrow J,
Guigó R,
Bertone P,
Alioto T,
Behr J,
Bohnert R,
Campagna D,
Davis CA,
Dobin A,
Gingeras TR,
Jean G,
Kosarev P,
Li S,
Liu J,
Mason CE,
Molodtsov V,
Ning Z,
Ponstingl H,
Prins JF,
Ribeca P,
Seledtsov I,
Solovyev V,
Valle G,
Vitulo N,
Wang K,
Wu TD,
Zeller G

Nature Methods
  10 (12): 1185-1191; Dec 2013  
[Abstract]
[DOI] [Full Text]

Assessment of transcript reconstruction methods for RNA-seq
Steijger T,
Abril JF,
Engström PG,
Kokocinski F,
Akerman M,
Alioto T,
Ambrosini G,
Antonarakis SE,
Behr J,
Bertone P,
Bohnert R,
Bucher P,
Cloonan N,
Derrien T,
Djebali S,
Du J,
Dudoit S,
Gerstein M,
Gingeras TR,
Gonzalez D,
Grimmond SM,
Guigó R,
Habegger L,
Harrow J,
Hubbard TJ,
Iseli C,
Jean G,
Kahles A,
Lagarde J,
Leng J,
Lefebvre G,
Lewis S,
Mortazavi A,
Niermann P,
Rätsch G,
Reymond A,
Ribeca P,
Richard H,
Rougemont J,
Rozowsky J,
Sammeth M,
Sboner A,
Schulz MH,
Searle SM,
Solorzano ND,
Solovyev V,
Stanke M,
Stevenson BJ,
Stockinger H,
Valsesia A,
Weese D,
White S,
Wold BJ,
Wu J,
Wu TD,
Zeller G,
Zerbino D,
Zhang MQ

Nature Methods
  10 (12): 1177-1184; Nov 2013  
[Abstract]
[DOI] [Full Text]

Integrative Analysis of the Caenorhabditis elegans Genome by the modENCODE Project
Gerstein MB,
Lu ZJ,
Van Nostrand EL,
Cheng C,
Arshinoff BI,
Liu T,
Yip KY,
Robilotto R,
Rechtsteiner A,
Ikegami K,
Alves P,
Chateigner A,
Perry M,
Morris M,
Auerbach RK,
Feng X,
Leng J,
Vielle A,
Niu W,
Rhrissorrakrai K,
Agarwal A,
Alexander RP,
Barber G,
Brdlik CM,
Brennan J,
Brouillet JJ,
Carr A,
Cheung MS,
Clawson H,
Contrino S,
Dannenberg LO,
Dernburg AF,
Desai A,
Dick L,
Dose AC,
Du JA,
Egelhofer T,
Ercan S,
Euskirchen G,
Ewing B,
Feingold EA,
Gassmann R,
Good PJ,
Green P,
Gullier F,
Gutwein M,
Guyer MS,
Habegger L,
Han T,
Henikoff JG,
Henz SR,
Hinrichs A,
Holster H,
Hyman T,
Iniguez AL,
Janette J,
Jensen M,
Kato M,
Kent WJ,
Kephart E,
Khivansara V,
Khurana E,
Kim JK,
Kolasinska-Zwierz P,
Lai EC,
Latorre I,
Leahey A,
Lewis S,
Lloyd P,
Lochovsky L,
Lowdon RF,
Lubling Y,
Lyne R,
MacCoss M,
Mackowiak SD,
Mangone M,
McKay SJ,
Mecenas D,
Merrihew G,
Miller DM,
Muroyama A,
Murray JI,
Ooi SL,
Pham H,
Phippen T,
Preston EA,
Rajewsky N,
Ratsch G,
Rosenbaum H,
Rozowsky J,
Rutherford K,
Ruzanov P,
Sarov M,
Sasidharan R,
Sboner A,
Scheid P,
Segal E,
Shin HJ,
Shou C,
Slack FJ,
Slightam C,
Smith R,
Spencer WC,
Stinson EO,
Taing S,
Takasaki T,
Vafeados D,
Voronina K,
Wang GL,
Washington NL,
Whittle CM,
Wu BJ,
Yan KK,
Zeller G,
Zha Z,
Zhong M,
Zhou XL,
Ahringer J,
Strome S,
Gunsalus KC,
Micklem G,
Liu XS,
Reinke V,
Kim SK,
Hillier LW,
Henikoff S,
Piano F,
Snyder M,
Stein LD,
Lieb JD,
Waterston RH

Science
  330 (6012): 1775-1787; Dec 2010   PMC3142569
[Abstract]
[DOI] [Full Text] [PDF]


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