Brooks, Angela N Choi, Peter S de Waal, Luc Sharifnia, Tanaz Imielinski, Marcin Saksena, Gordon Pedamallu, Chandra Sekhar Sivachenko, Andrey Rosenberg, Mara Chmielecki, Juliann
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Published in
PloS one
Although recurrent somatic mutations in the splicing factor U2AF1 (also known as U2AF35) have been identified in multiple cancer types, the effects of these mutations on the cancer transcriptome have yet to be fully elucidated. Here, we identified splicing alterations associated with U2AF1 mutations across distinct cancers using DNA and RNA sequenc...
Forsberg, E Camilla Passegué, Emmanuelle Prohaska, Susan S Wagers, Amy J Koeva, Martina Stuart, Joshua M Weissman, Irving L
Published in
PloS one
Hematopoietic stem cells (HSC) are rare, multipotent cells capable of generating all specialized cells of the blood system. Appropriate regulation of HSC quiescence is thought to be crucial to maintain their lifelong function; however, the molecular pathways controlling stem cell quiescence remain poorly characterized. Likewise, the molecular event...
Ferraro, Claire F Trotter, Caroline L Nascimento, Maria C Jusot, Jean-François Omotara, Babatunji A Hodgson, Abraham Ali, Oumer Alavo, Serge Sow, Samba Daugla, Doumagoum Moto
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Published in
PloS one
To describe the variation in household crowding and social mixing patterns in the African meningitis belt and to assess any association with self-reported recent respiratory symptoms. In 2010, the African Meningococcal Carriage Consortium (MenAfriCar) conducted cross-sectional surveys in urban and rural areas of seven countries. The number of house...
Long, Xi Stone, Michael D
Published in
PloS one
Telomeres are specialized chromatin structures found at the end of chromosomes and are crucial to the maintenance of eukaryotic genome stability. Human telomere DNA is comprised of the repeating sequence (T2AG3)n, which is predominantly double-stranded but terminates with a 3' single-stranded tail. The guanine-rich tail can fold into secondary stru...
Onodera, Courtney S Underwood, Jason G Katzman, Sol Jacobs, Frank Greenberg, David Salama, Sofie R Haussler, David
Published in
PloS one
Enhancers and antisense RNAs play key roles in transcriptional regulation through differing mechanisms. Recent studies have demonstrated that enhancers are often associated with non-coding RNAs (ncRNAs), yet the functional role of these enhancer:ncRNA associations is unclear. Using RNA-Sequencing to interrogate the transcriptomes of undifferentiate...
Lowe, Craig B Haussler, David
Published in
PloS one
Recent research supports the view that changes in gene regulation, as opposed to changes in the genes themselves, play a significant role in morphological evolution. Gene regulation is largely dependent on transcription factor binding sites. Researchers are now able to use the available 29 mammalian genomes to measure selective constraint at the le...
Basta, Nicole E Stuart, James M Nascimento, Maria C Manigart, Olivier Trotter, Caroline Hassan-King, Musa Chandramohan, Daniel Sow, Samba O Berthe, Abdoulaye Bedru, Ahmed
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Published in
PloS one
Detection of meningococcal carriers is key to understanding the epidemiology of Neisseria meningitidis, yet no gold standard has been established. Here, we directly compare two methods for collecting pharyngeal swabs to identify meningococcal carriers. We conducted cross-sectional surveys of schoolchildren at multiple sites in Africa to compare swa...
Manigart, Olivier Trotter, Caroline Findlow, Helen Assefa, Abraham Mihret, Wude Moti Demisse, Tesfaye Yeshitela, Biruk Osei, Isaac Hodgson, Abraham Quaye, Stephen Laryea
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Published in
PloS one
The pattern of epidemic meningococcal disease in the African meningitis belt may be influenced by the background level of population immunity but this has been measured infrequently. A standardised enzyme-linked immunosorbent assay (ELISA) for measuring meningococcal serogroup A IgG antibodies was established at five centres within the meningitis b...
