Results 91 to 100 of about 3,563,004 (328)

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., Mau, Bob, Perna, Nicole T.   +2 more
core  

Cell‐free DNA aneuploidy score as a dynamic early response marker in prostate cancer

Molecular Oncology, EarlyView.
mFast‐SeqS‐based genome‐wide aneuploidy scores are concordant with aneuploidy scores obtained by whole genome sequencing from tumor tissue and can predict response to ARSI treatment at baseline and, at an early time point, to ARSI and taxanes. This assay can be easily performed at low cost and requires little input of cfDNA. Cell‐free circulating tumor
Khrystany T. Isebia, Anouk C. de Jong, Lisanne F. van Dessel, Vanja de Weerd, Corine Beaufort, Jean Helmijr, José Alberto Nakauma‐González, Job van Riet, Paul Hamberg, Daniel Vis, Michiel S. van der Heijden, Nick Beije, Martijn P. Lolkema, Teoman Deger, Saskia M. Wilting, Ronald de Wit, Maurice P. H. M. Jansen, John W. M. Martens   +17 more
wiley   +1 more source

Comparing self‐reported race and genetic ancestry for identifying potential differentially methylated sites in endometrial cancer: insights from African ancestry proportions using machine learning models

Molecular Oncology, EarlyView.
Integrating ancestry, differential methylation analysis, and machine learning, we identified robust epigenetic signature genes (ESGs) and Core‐ESGs in Black and White women with endometrial cancer. Core‐ESGs (namely APOBEC1 and PLEKHG5) methylation levels were significantly associated with survival, with tumors from high African ancestry (THA) showing ...
Huma Asif, J. Julie Kim
wiley   +1 more source

novoBreak: local assembly for breakpoint detection in cancer genomes. [PDF]

, 2017
We present novoBreak, a genome-wide local assembly algorithm that discovers somatic and germline structural variation breakpoints in whole-genome sequencing data.
Boutros, Paul, Chen, Junjie, Chen, Ken, Chen, Tenghui, Chong, Zechen, Ding, Li, Fan, Xian, Gao, Min, Lee, Anna Y, Ruan, Jue, Zhou, Wanding   +10 more
core  

A large‐scale retrospective study in metastatic breast cancer patients using circulating tumour DNA and machine learning to predict treatment outcome and progression‐free survival

Molecular Oncology, EarlyView.
There is an unmet need in metastatic breast cancer patients to monitor therapy response in real time. In this study, we show how a noninvasive and affordable strategy based on sequencing of plasma samples with longitudinal tracking of tumour fraction paired with a statistical model provides valuable information on treatment response in advance of the ...
Emma J. Beddowes, Mario Ortega Duran, Solon Karapanagiotis, Alistair Martin, Meiling Gao, Riccardo Masina, Ramona Woitek, James Tanner, Fleur Tippin, Justine Kane, Jonathan Lay, Anja Brouwer, Stephen‐John Sammut, Suet‐Feung Chin, Davina Gale, Dana W. Y. Tsui, Sarah‐Jane Dawson, Nitzan Rosenfeld, Maurizio Callari, Oscar M. Rueda, Carlos Caldas   +20 more
wiley   +1 more source

Metabolic co-dependence drives the evolutionarily ancient Hydra–Chlorella symbiosis

eLife, 2018
Many multicellular organisms rely on symbiotic associations for support of metabolic activity, protection, or energy. Understanding the mechanisms involved in controlling such interactions remains a major challenge.
Mayuko Hamada, Katja Schröder, Jay Bathia, Ulrich Kürn, Sebastian Fraune, Mariia Khalturina, Konstantin Khalturin, Chuya Shinzato, Nori Satoh, Thomas CG Bosch   +9 more
doaj   +1 more source

High-Quality Genome Assembly of Peronospora destructor, the Causal Agent of Onion Downy Mildew

Molecular Plant-Microbe Interactions, 2020
Peronospora destructor is an obligate biotrophic oomycete that causes downy mildew on onion (Allium cepa). Onion is an important crop worldwide, but its production is affected by this pathogen. We sequenced the genome of P.
Karthi Natesan, Ji Yeon Park, Cheol-Woo Kim, Dong Suk Park, Young-Seok Kwon, Chang-Gi Back, Heejung Cho   +6 more
doaj   +1 more source

Syngenta -- The Genome Giant? [PDF]

, 2005
Swiss gene giant Syngenta, the world's largest agrochemical corporation and third largest seed company (see tables) has applied for patents that could effectively allow the company to monopolize key gene sequences that are vital for rice breeding as well

core  

A Computational Method for the Rate Estimation of Evolutionary Transpositions

, 2015
Genome rearrangements are evolutionary events that shuffle genomic architectures. Most frequent genome rearrangements are reversals, translocations, fusions, and fissions.
J. Ma, J. Ranz, J.H. Nadeau, L. Bulteau, M. Alekseyev, M. Bader, M.A. Alekseyev, P.A. Pevzner, S. Yancopoulos   +8 more
core   +1 more source

Multidimensional OMICs reveal ARID1A orchestrated control of DNA damage, splicing, and cell cycle in normal‐like and malignant urothelial cells

Molecular Oncology, EarlyView.
Loss of the frequently mutated chromatin remodeler ARID1A, a subunit of the SWI/SNF cBAF complex, results in less open chromatin, alternative splicing, and the failure to stop cells from progressing through the cell cycle after DNA damage in bladder (cancer) cells. Created in BioRender. Epigenetic regulators, such as the SWI/SNF complex, with important
Rebecca M. Schlösser, Florian Krumbach, Eyleen Corrales, Geoffroy Andrieux, Christian Preisinger, Franziska Liss, Alexandra Golzmann, Melanie Boerries, Kerstin Becker, Ruth Knüchel, Stefan Garczyk, Bernhard Lüscher   +11 more
wiley   +1 more source