Analysis of nanopore data using hidden Markov models.
Published in Bioinformatics (Oxford, England)
The data, output, scripts and tutorials replicating the analysis are available at https://github.com/UCSCNanopore/Data/tree/master/Automation.
Cancer/Testis Antigen PASD1 Silences the Circadian Clock.
Published in Molecular cell
The circadian clock orchestrates global changes in transcriptional regulation on a daily basis via the bHLH-PAS transcription factor CLOCK:BMAL1. Pathways driven by other bHLH-PAS transcription factors have a homologous repressor that modulates activity on a tissue-specific basis, but none have been identified for CLOCK:BMAL1. We show here that the...
Hematopoietic development at high altitude: blood stem cells put to the test.
Published in Development (Cambridge, England)
In February 2015, over 200 scientists gathered for the Keystone Hematopoiesis meeting, which was held at the scenic Keystone Resort in Keystone, Colorado, USA. The meeting organizers, Patricia Ernst, Hanna Mikkola and Timm Schroeder, put together an exciting program, during which field leaders and new investigators presented discoveries that spanne...
Vibrio cholerae Response Regulator VxrB Controls Colonization and Regulates the Type VI Secretion System.
Published in PLoS pathogens
Two-component signal transduction systems (TCS) are used by bacteria to sense and respond to their environment. TCS are typically composed of a sensor histidine kinase (HK) and a response regulator (RR). The Vibrio cholerae genome encodes 52 RR, but the role of these RRs in V. cholerae pathogenesis is largely unknown. To identify RRs that control V...
C-Myb(+) erythro-myeloid progenitor-derived fetal monocytes give rise to adult tissue-resident macrophages.
...
Published in Immunity
Although classified as hematopoietic cells, tissue-resident macrophages (MFs) arise from embryonic precursors that seed the tissues prior to birth to generate a self-renewing population, which is maintained independently of adult hematopoiesis. Here we reveal the identity of these embryonic precursors using an in utero MF-depletion strategy and fat...
The Diversity of Meningococcal Carriage Across the African Meningitis Belt and the Impact of Vaccination With a Group A ...
Published in The Journal of Infectious Diseases
Identification and characterization of VpsR and VpsT binding sites in Vibrio cholerae.
Published in Journal of bacteriology
The ability to form biofilms is critical for environmental survival and transmission of Vibrio cholerae, a facultative human pathogen responsible for the disease cholera. Biofilm formation is controlled by several transcriptional regulators and alternative sigma factors. In this study, we report that the two main positive regulators of biofilm form...
Brave new RNA world.
Published in RNA (New York, N.Y.)
Coffee with Ribohipster.
Published in RNA (New York, N.Y.)
Impact of ferromanganese alloy plants on household dust manganese levels: implications for childhood exposure.
Published in Environmental research
Adolescents living in communities with ferromanganese alloy plant activity have been shown to exhibit deficits in olfactory and fine motor function. Household dust may serve as an important manganese (Mn) exposure pathway to children, though dust Mn concentrations have not previously been measured to assess household contamination from ferromangane...
