Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma [PDF]
Cancer Cell, 2016 SummaryWe describe a comprehensive genomic characterization of adrenocortical carcinoma (ACC). Using this dataset, we expand the catalogue of known ACC driver genes to include PRKAR1A, RPL22, TERF2, CCNE1, and NF1. Genome wide DNA copy-number analysis revealed frequent occurrence of massive DNA loss followed by whole-genome doubling (WGD), which was ...
Siyuan Zheng +206 more
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Progressive Mauve: Multiple alignment of genomes with gene flux and rearrangement [PDF]
, 2009 Multiple genome alignment remains a challenging problem. Effects of recombination including rearrangement, segmental duplication, gain, and loss can create a mosaic pattern of homology even among closely related organisms.
Darling, Aaron E. +2 more
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Comparative genomics of Australian isolates of the wheat stem rust pathogen Puccinia graminis f. sp. tritici reveals extensive polymorphism in candidate effector genes [PDF]
, 2015 The wheat stem rust fungus Puccinia graminis f. sp. tritici (Pgt) is one of the most destructive pathogens of wheat. In this study, a draft genome was built for a founder Australian Pgt isolate of pathotype (pt.) 21-0 (collected in 1954) by next ...
Cuomo, Christina A +11 more
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Frontiers in Genetics, 2020 Staphylococcus epidermidis is one of the most commonly isolated species from human skin and the second leading cause of bloodstream infections. Here, we performed a large-scale comparative study without any pre-assigned reference to identify genomic ...
Fei Su +11 more
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Genome and pan-genome analysis to classify emerging bacteria
Biology Direct, 2019 Background In the recent years, genomic and pan-genomic studies have become increasingly important. Culturomics allows to study human microbiota through the use of different culture conditions, coupled with a method of rapid identification by MALDI-TOF ...
Aurélia Caputo +2 more
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The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization. [PDF]
, 2017 Sorghum bicolor is a drought tolerant C4 grass used for the production of grain, forage, sugar, and lignocellulosic biomass and a genetic model for C4 grasses due to its relatively small genome (approximately 800 Mbp), diploid genetics, diverse ...
Amirebrahimi, Mojgan +14 more
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Campylobacter species in dogs and cats and significance to public health in New Zealand : a thesis in partial fulfilment of the requirements for the degree of Doctor of Philosophy in Veterinary Science at Massey University, Palmerston North, New Zealand [PDF]
, 2016 Campylobacter spp. are a major cause of bacterial gastroenteritis in people in the developed world, including New Zealand. Many sources and transmission routes exist, as these bacteria are common in animals and the environment. C.
Bojanić, Krunoslav
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Statistics of shared components in complex component systems [PDF]
, 2018 Many complex systems are modular. Such systems can be represented as "component systems", i.e., sets of elementary components, such as LEGO bricks in LEGO sets.
Caselle, Michele +4 more
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Pan-genomics in the human genome era
Nature Reviews Genetics, 2020 Since the early days of the genome era, the scientific community has relied on a single 'reference' genome for each species, which is used as the basis for a wide range of genetic analyses, including studies of variation within and across species. As sequencing costs have dropped, thousands of new genomes have been sequenced, and scientists have come ...
Rachel M. Sherman, Steven L. Salzberg
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Current Research in Food ScienceUnderstanding the evolutionary dynamics of foodborne pathogens throughout host-associated habitats is of utmost importance. Bacterial pan-genomes, as dynamic entities, are strongly influenced by ecological lifestyles.
Yuhui Du +7 more
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