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De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

author

Olga Dudchenko

Marie Hoeger

Muhammad S Shamim

Ido Machol

Eric Lander

1957 -

Aviva Presser Aiden

Erez Lieberman Aiden

1980 -

published in: Science

date of publication: 2017-03-23

language: English

main subject: Aedes aegypti

Cites articles 36

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Genome evolution in the allotetraploid frog Xenopus laevis

Oleg Simakov, Daniel S. Rokhsar, Jane Grimwood, Georgios Georgiou, Shuuji Mawaribuchi, Sahar V Mozaffari, Ian Quigley, Haruki Ochi, Taejoon Kwon, Yuuri Yasuoka, Yoshikazu Haramoto, Simon J van Heeringen, Yuzuru Ito, Takuya Nakayama, Makoto Asashima, Gert Jan C Veenstra, Ryan Lister, Naoto Ueno, Jacques Robert, Sven Heinz, Nicholas Putnam, Uffe Hellsten, Jay Shendure, Joshua Fortriede, Peter D. Vize, Jerry Jenkins, Jeremy Schmutz, Jessica B Lyons, Adam M Session, Therese Mitros, Darwin S Dichmann, Yuko Ohta, Aaron M Zorn, Shuji Takahashi, Shengqiang Shu, Michihiko Ito, Yoichi Matsuda, Masanori Taira, John B. Wallingford
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Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom

Eric Lander, Jill P. Mesirov, Muhammad S Shamim, Erez Lieberman Aiden
2016-07-01

Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments

Eric Lander, Muhammad S Shamim, Erez Lieberman Aiden, Suhas S.P. Rao
2016-03-05

Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly

Daniel Neafsey, Nora Besansky
2016-02-04

Chromosome-scale shotgun assembly using an in vitro method for long-range linkage

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2016-10-17

Phased diploid genome assembly with single-molecule real-time sequencing

Chen-Shan Chin, Fritz Sedlazeck, Christopher Dunn, Grant Cramer, Joseph R. Ecker, Dario Cantu
2016-07-18

Deletion of DXZ4 on the human inactive X chromosome alters higher-order genome architecture

Eric Lander, Muhammad S Shamim, Emily M Darrow, Erez Lieberman Aiden, Olga Dudchenko
2015-12-19

Ensembl 2016

Magali Ruffier, Thibaut Hourlier, Andrew D Yates, Wasiu Akanni, Konstantinos Billis, Denise Carvalho Silva, Carla A Cummins, Laurent Gil, Sarah E. Hunt, Sophie H Janacek, Thomas Juettemann, Stephen Keenan, Ilias Lavidas, Fergal J Martin, Thomas Maurel, William M McLaren, Daniel N Murphy, Rishi Nag, Michael Nuhn, Mateus Patricio, Dan Sheppard, Kieron Taylor, Anja Thormann, Alessandro Vullo, Steven P Wilder, Ewan Birney, Matthieu Muffato, Emily Pritchard, Stephen Trevanion, Fiona Cunningham, Bronwen Aken, Daniel R Zerbino, Paul Flicek, Jennifer Harrow, Carlos García Girón, M Ridwan Amode, Harpreet Singh Riat, Daniel Barrell, Miguel Pignatelli, Giulietta Spudich
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Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes

Eric Lander, Erez Lieberman Aiden, Andreas Gnirke, Suhas S.P. Rao
2015-06-06

A standard cytogenetic map of Culex quinquefasciatus polytene chromosomes in application for fine-scale physical mapping

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Correction: Mitotic-Chromosome-Based Physical Mapping of the Culex quinquefasciatus Genome

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2015-05-04

Accurate identification of centromere locations in yeast genomes using Hi-C.

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A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping

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High-quality genome (re)assembly using chromosomal contact data

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2014-01-30

Assembly of the genome of the disease vector Aedes aegypti onto a genetic linkage map allows mapping of genes affecting disease transmission

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Paired-end sequencing of Fosmid libraries by Illumina

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Genome sequence of Aedes aegypti, a major arbovirus vector

Ewan Birney, Chad Nusbaum, Hadi Quesneville, Bruce Birren, Martin Shumway, Peter Arensburger, Jonathan Crabtree, Evan Mauceli, Manfred Grabherr, George Dimopoulos, Karyn Megy, Linda Hannick, Mihaela Pertea, Stefan Wyder, Horacio Naveira, James Galagan, Daniel Lawson, Michael C. Schatz, Ana Lucia Nascimento, Jennifer R Wortman, Suely L Gomes, Sergio Verjovski Almeida, Steven Salzberg, Ian T. Paulsen, Jason R. Miller, Brendan Loftus, Vishvanath Nene, David Severson, Frank H Collins, Carlos F. Menck, Javier Costas, Alexander S. Raikhel, Neil F Lobo, Claire M. Fraser, Evgeny M. Zdobnov, Hean L. Koo, Charles M. Roth, Peter W Atkinson, Jim Biedler, Shelby L. Bidwell, Qiandong Zeng, Joshua Ore, Paolo Amedeo, Owen White, Aqueasha Martin-Hammond, Jose M C Tubio, Zhiyong Xi, Brian J Haas, Chinnappa D Kodira
2007-12-01

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Malcolm Ferguson-Smith
2005-08-01

Assembly of polymorphic genomes: algorithms and application to Ciona savignyi

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Article - wd:Q29051440

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