Genome assembly forensics: finding the elusive mis-assembly
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* Corresponding author: Mihai Pop mpop@umiacs.umd.edu
Genome Biology 2008, 9:R55 doi:10.1186/gb-2008-9-3-r55
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BioMed Central: 7 citations
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Research
Complete Columbian mammoth mitogenome suggests interbreeding with woolly mammoths Jacob Enk, Alison Devault, Regis Debruyne, Christine E King, Todd Treangen, Dennis O'Rourke, Steven L Salzberg, Daniel Fisher, Ross MacPhee, Hendrik Poinar Genome Biology 2011, 12:R51 (31 May 2011) A surprising mtDNA phylogeny suggests that North American woolly mammoths bred with the distinct Columbian mammoth species
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Method
Detection and correction of false segmental duplications caused by genome mis-assembly David R Kelley, Steven L Salzberg Genome Biology 2010, 11:R28 (10 March 2010) A method for determining false segmental duplications in vertebrate genomes, thus correcting mis-assemblies and providing more accurate estimates of duplications. |
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Research
Genomic characterization of the Yersinia genus Peter E Chen, Christopher Cook, Andrew C Stewart, Niranjan Nagarajan, Dan D Sommer, Mihai Pop, Brendan Thomason, Maureen Thomason, Shannon Lentz, Nichole Nolan, Shanmuga Sozhamannan, Alexander Sulakvelidze, Alfred Mateczun, Lei Du, Michael E Zwick, Timothy D Read Genome Biology 2010, 11:R1 (4 January 2010) Comparative |
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Proceedings
The Mycoplasma conjunctivae genome sequencing, annotation and analysis Sandra P Calderon-Copete, George Wigger, Christof Wunderlin, Tobias Schmidheini, Joachim Frey, Michael A Quail, Laurent Falquet BMC Bioinformatics 2009, 10(Suppl 6):S7 (16 June 2009) |
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Opinion
Back to Bermuda: how is science best served? Deanna M Church, LaDeana W Hillier Genome Biology 2009, 10:105 (24 April 2009) Two bovine genome assemblies from the same data suggest it is time to revisit the spirit of the Bermuda and Fort Lauderdale agreements. |
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Research
A whole-genome assembly of the domestic cow, Bos taurus Aleksey V Zimin, Arthur L Delcher, Liliana Florea, David R Kelley, Michael C Schatz, Daniela Puiu, Finnian Hanrahan, Geo Pertea, Curtis P Van Tassell, Tad S Sonstegard, Guillaume Marçais, Michael Roberts, Poorani Subramanian, James A Yorke, Steven L Salzberg Genome Biology 2009, 10:R42 (24 April 2009) A cow whole-genome assembly of 2.86 billion base pairs that closes gaps and corrects previously-described inversions and deletions as well as describing a portion of the Y chromosome.
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Research article
A genome survey of Moniliophthora perniciosa gives new insights into Witches' Broom Disease of cacao Jorge MC Mondego, Marcelo F Carazzolle, Gustavo GL Costa, Eduardo F Formighieri, Lucas P Parizzi, Johana Rincones, Carolina Cotomacci, Dirce M Carraro, Anderson F Cunha, Helaine Carrer, Ramon O Vidal, Raíssa C Estrela, Odalys García, Daniela PT Thomazella, Bruno V de Oliveira, Acássia BL Pires, Maria Rio, Marcos Araújo, Marcos H de Moraes, Luis AB Castro, Karina P Gramacho, Marilda S Gonçalves, José Neto, Aristóteles Neto, Luciana V Barbosa, Mark J Guiltinan, Bryan A Bailey, Lyndel W Meinhardt, Julio CM Cascardo, Gonçalo AG Pereira BMC Genomics 2008, 9:548 (18 November 2008) Much of the genome of Moniliophthora perniciosa, the fungus that causes Witches' broom disease in cocoa plants, is involved in stress adaptation and plant necrosis, giving insights into this economically-important disease.
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