245 research outputs found
A cap 0-dependent mRNA capture method to analyze the yeast transcriptome
Analysis of the protein coding transcriptome by the
RNA sequencing requires either enrichment of the
desired fraction of coding transcripts or depletion
of the abundant non-coding fraction consisting
mainly of rRNA. We propose an alternative mRNA
enrichment strategy based on the RNA-binding
properties of the human IFIT1, an antiviral protein
recognizing cap 0 RNA. Here, we compare for
Saccharomyces cerevisiae an IFIT1-based mRNA
pull-down with yeast targeted rRNA depletion by
the RiboMinus method. IFIT1-based RNA capture
depletes rRNA more effectively, producing high
quality RNA-seq data with an excellent coverage of
the protein coding transcriptome, while depleting
cap-less transcripts such as mitochondrial or some
non-coding RNAs. We propose IFIT1 as a cost
effective and versatile tool to prepare mRNA libraries
for a variety of organisms with cap 0 mRNA
ends, including diverse plants, fungi and eukaryotic
microbes
Background Light in Potential Sites for the ANTARES Undersea Neutrino Telescope
The ANTARES collaboration has performed a series of {\em in situ}
measurements to study the background light for a planned undersea neutrino
telescope. Such background can be caused by K decays or by biological
activity. We report on measurements at two sites in the Mediterranean Sea at
depths of 2400~m and 2700~m, respectively. Three photomultiplier tubes were
used to measure single counting rates and coincidence rates for pairs of tubes
at various distances. The background rate is seen to consist of three
components: a constant rate due to K decays, a continuum rate that
varies on a time scale of several hours simultaneously over distances up to at
least 40~m, and random bursts a few seconds long that are only correlated in
time over distances of the order of a meter. A trigger requiring coincidences
between nearby photomultiplier tubes should reduce the trigger rate for a
neutrino telescope to a manageable level with only a small loss in efficiency.Comment: 18 pages, 8 figures, accepted for publication in Astroparticle
Physic
Social media in democratic transitions and consolidations: what can we learn from the case of Tunisia?
© 2018, © 2018 Informa UK Limited, trading as Taylor & Francis Group. The aim of this paper is to analyse the use of social media in the stages of uprising, democratic transition and democratic consolidation using the case study of Tunisia. While the impact of social media in uprisings has been widely documented in past research about the MENA region, Tunisia provides new evidence to the use of Internet in the processes of democratisation. Consequently, this research focuses in detail on the benefits but also the pitfalls of social media in transitions and consolidations. Data collection was based on interviews with Tunisian social media activists. The analysis is valuable to social media practitioners and researchers alike
Transgenic Expression of Nonclassically Secreted FGF Suppresses Kidney Repair
FGF1 is a signal peptide-less nonclassically released growth factor that is involved in angiogenesis, tissue repair, inflammation, and carcinogenesis. The effects of nonclassical FGF export in vivo are not sufficiently studied. We produced transgenic mice expressing FGF1 in endothelial cells (EC), which allowed the detection of FGF1 export to the vasculature, and studied the efficiency of postischemic kidney repair in these animals. Although FGF1 transgenic mice had a normal phenotype with unperturbed kidney structure, they showed a severely inhibited kidney repair after unilateral ischemia/reperfusion. This was manifested by a strong decrease of postischemic kidney size and weight, whereas the undamaged contralateral kidney exhibited an enhanced compensatory size increase. In addition, the postischemic kidneys of transgenic mice were characterized by hyperplasia of interstitial cells, paucity of epithelial tubular structures, increase of the areas occupied by connective tissue, and neutrophil and macrophage infiltration. The continuous treatment of transgenic mice with the cell membrane stabilizer, taurine, inhibited nonclassical FGF1 export and significantly rescued postischemic kidney repair. It was also found that similar to EC, the transgenic expression of FGF1 in monocytes and macrophages suppresses kidney repair. We suggest that nonclassical export may be used as a target for the treatment of pathologies involving signal peptide-less FGFs
Spatio-temporal assessment of illicit drug use at large scale: evidence from 7 years of international wastewater monitoring
Spatio-temporal assessment of illicit drug use at large scale: evidence from 7 years of international wastewater monitoring
The DIRC Particle Identification System for the BABAR Experiment
A new type of ring-imaging Cherenkov detector is being used for hadronic particle identification in the BABAR experiment at the SLAC B Factory (PEP-II). This detector is called DIRC, an acronym for Detection of Internally Reflected Cherenkov (Light). This paper will discuss the construction, operation and performance of the BABAR DIRC in detail
Response to correspondence on Reproducibility of CRISPR-Cas9 Methods for Generation of Conditional Mouse Alleles: A Multi-Center Evaluation
The Physics of the B Factories
This work is on the Physics of the B Factories. Part A of this book contains a brief description of the SLAC and KEK B Factories as well as their detectors, BaBar and Belle, and data taking related issues. Part B discusses tools and methods used by the experiments in order to obtain results. The results themselves can be found in Part C
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