A comparison of sperm RNA-seq methods.

In this study, the following four commercially available RNA-seq amplification and library protocols for the preparation of low quantity/highly fragmented samples, SMARTer™ Ultra Low RNA (SU) for Illumina® Sequencing, SeqPlex RNA Amplification (SP), Ovation® RNA-Seq System V2 (OR), and Ovation® RNA-Seq Formalin Fixed Paraffin Embedded System (FFPES) were assessed using human sperm RNAs. Further investigation analyzed the effects on the end results of two different library preparation methods, Encore NGS Multiplex System I (Enc) and Ovation Ultralow Library Systems (UL), that appeared best suited to this type of RNA, along with other potential confounding factors such as FFPE preservation. Our results indicate that for each library preparation protocol, the differences in the initial amount of input RNA and choice of RNA purification step do not generate marked differences in terms of RNA profiling. However, substantial disparity is introduced by individual amplification methods prior to library construction. These significant differences may be caused by the different priming methods or amplification strategies used in each of the four different protocols examined. The observation of intra-sample variation introduced by the choice of protocol highlights the role that external factors play in planning and subsequent reliable interpretation of results of any RNA-seq experiment. PMID: 25077492 [PubMed - as supplied by publisher]
Source: Systems Biology in Reproductive Medicine - Category: Reproduction Medicine Authors: Tags: Syst Biol Reprod Med Source Type: research

Related Links:

Publication date: Available online 23 February 2020Source: Statistics &Probability LettersAuthor(s): A.I. Zeifman, Y.A. Satin, K.M. KiselevaAbstractWe study inhomogeneous continuous-time weakly ergodic Markov chains with a finite state space. We introduce the notion of a Markov chain with the regular structure of an infinitesimal matrix and study the sharp upper bounds on the rate of convergence for such class of Markov chains.
Source: Statistics and Probability Letters - Category: Statistics Source Type: research
Publication date: Available online 23 February 2020Source: Radiation Physics and ChemistryAuthor(s): A.V. PonomarevAbstractThe desired arrangement of the electron accelerator and the reaction vessel for large-scale electron-beam treatment of water at absorbed doses of several kGy is considered from a technological point of view. Each of the accelerators tested earlier showed the potential to irradiate no more than 20 thousand m3 per day, which is many times less than practical needs. At the same time, there are no power restrictions for existing high-voltage generators, which can serve as a key prerequisite for creating hi...
Source: Radiation Physics and Chemistry - Category: Physics Source Type: research
Publication date: Available online 24 February 2020Source: Physics of the Dark UniverseAuthor(s): Abolhassan Mohammadi, Tayeb Golanbari, Khaled SaaidiAbstractThe beta-function formalism is being used to study the constant-roll inflation in k-essence models. Assuming the second slow-roll parameter as a constant leads to a first-order differential equation for β-function which much easier to solve and find a solution than the second (non-linear) order equation that we have in the corresponding standard constant-roll inflation. Many cosmological models are known as a subclass of k-essence, so we will try to consider the ...
Source: Physics of the Dark Universe - Category: Physics Source Type: research
Publication date: Available online 24 February 2020Source: Physics of the Dark UniverseAuthor(s): Sandeep Kumar S., Arun Kenath, C. SivaramAbstractObservations have indicated that we do not see neutron stars (NS) of mass near the theoretical upper limit as predicted. Here we invoke the role of dark matter (DM) particles in star formation, and their role in lowering the mass of remnants eventually formed from these stars. Massive stars can capture DM particles more effectively than the lower mass stars, thus further softening the equation of state of the remnant neutron stars. We also look at the capture of DM particles by ...
Source: Physics of the Dark Universe - Category: Physics Source Type: research
Publication date: Available online 24 February 2020Source: Journal of Physics and Chemistry of SolidsAuthor(s): Shiyun Lei, Chan Qin, Xiaolong Tang, Junbo Zhong, Jianzhang Li, Jian ChenAbstractIn this work, spiral carbon fibers (SCFs) were employed to surface decoration of Bi2WO6 (BWO) through a facile hydrothermal method. The samples were characterized by X-ray diffraction (XRD), scanning electron microscopy (SEM), high resolution transmission electron microscope (HRTEM), X-ray photoelectron spectroscopy (XPS), Raman, electron spin-resonance (ESR) and surface photovoltage spectroscopy (SPS). The results reveal that SCFs c...
Source: Journal of Physics and Chemistry of Solids - Category: Physics Source Type: research
We experimentally investigate the impact of laser flicker noise and linewidth on 64 Gbaud/DP-64QAM, 96 Gbaud/DP-32QAM and 64 or 96 ...
Source: Optics Letters - Category: Physics Authors: Source Type: research
We study the statistics of polarization-dependent loss in systems, where this phenomenon is dominated by discrete optical components. Exact ...
Source: Optics Letters - Category: Physics Authors: Source Type: research
In this Letter, we report a broadband frequency/polarization demultiplexer based on parallel-plate waveguides (PPWGs) for terahertz (THz) ...
Source: Optics Letters - Category: Physics Authors: Source Type: research
We have investigated a magnet-free, nonreciprocal surface wave absorber based on high impedance surfaces (HISs) using a spatial-temporal ...
Source: Optics Letters - Category: Physics Authors: Source Type: research
Ho^3+/Pr^3+ co-doped AlF_3-based glass fibers were fabricated by using a rod-in-tube method based on the matrix glass composition of ...
Source: Optics Letters - Category: Physics Authors: Source Type: research
More News: Biology | Databases & Libraries | Reproduction Medicine | Study