Abstract Place cells in the mammalian hippocampus signal self-location with sparse spatially stable firing fields. Based on observation of place cell activity it is possible to accurately decode an animal’s location. The precision of this decoding sets a lower bound for the amount of information that the hippocampal population conveys about the location of the
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Syntactic and semantic conventions 1. Taxa are models, concepts are mimics. We typically refrain from using the terms “taxon”, “taxa”, or “clade(s)”. We take taxa to constitute evolutionary, causally sustained entities whose members are manifested in the natural realm. The task for systematics is to successively approximate the identities and limits of these entities. Thus,
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Despite widespread infection, some frog populations are surviving a deadly disease that is the equivalent of humankind’s Ebola virus. The reason — genetic diversity. That’s the finding of a new study published this week in the journal Immunogenetics. Anna Savage, an assistant professor of biology at the University of Central Florida, is the lead author
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Neural stimulation is a developing technology that has beneficial therapeutic effects in neurological disorders, such as Parkinson’s disease. While many advancements have been made, the implanted devices deteriorate over time and cause scarring in neural tissue. In a recently published paper, the University of Pittsburgh’s Takashi D. Y. Kozai detailed a less invasive method of
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The analysis of single-cell RNA sequencing (scRNAseq) data plays an important role in understanding the intrinsic and extrinsic cellular processes in biological and biomedical research. One significant effort in this area is the detection of differentially expressed (DE) genes. scRNAseq data, however, are highly heterogeneous and have a large number of zero counts, which introduces
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Astronomy & Astrophysics publishes the work of researchers from the University of Vienna, who have found a river of stars, a stellar stream in astronomical parlance, covering most of the southern sky. The stream is relatively nearby and contains at least 4000 stars that have been moving together in space since they formed, about 1
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Like going from a pinhole camera to a Polaroid, a significant mathematical update to the formula for a popular bioinformatics data visualization method will allow researchers to develop snapshots of single-cell gene expression not only several times faster but also at much higher-resolution. Published in Nature Methods, this innovation by Yale mathematicians will reduce the
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1. Hoglinger, GU, G Respondek and GG Kovacs. New classification of tauopathies. Rev Neurol (Paris) 2018. https://doi.org/10.1016/j.neurol.2018.07.001. 2. Lebouvier T, Pasquier F, Buee L. Update on tauopathies. Curr Opin Neurol. 2017;30:589–98. 3. Morris M, Maeda S, Vossel K, Mucke L. The many faces of tau. Neuron. 2011;70:410–26. 4. Höglinger GU, Melhem NM, Dickson DW, et
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The analytical approach presented above was implemented using R-shiny. The typical analysis is performed by three interaction steps: i) input of gene lists and modifications, ii) graphical visualization of enriched terms and iii) interactive navigation of the results. A step-by-step user manual is available in Additional file 1. In the first step, the application provides a
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The analytical approach presented above was implemented using R-shiny. The typical analysis is performed by three interaction steps: i) input of gene lists and modifications, ii) graphical visualization of enriched terms and iii) interactive navigation of the results. A step-by-step user manual is available in Additional file 1. In the first step, the application provides a
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Identifying and counting individual cells from cell cultures form the basis of numerous biological and biomedical research applications [1, 2]. Determining numbers of cells reflecting the growth, survival, and death of cell populations form the foundations of e.g. basic cancer research and early drug development. Currently, the most commonly used methods for counting cells in
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The advent of massively parallel sequencing (MPS) technologies in the past decade has revolutionized the field of genomics, enabling fast and cost-effective generation of a large amount of sequence data. This technological innovation leads to the accumulation of vast quantities of genomic data, posing a tremendous challenge to scientists for effective mining of data to
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1. Niforou K, Cheimonidou C, Trougakos IP. Molecular chaperones and proteostasis regulation during redox imbalance. Redox Biol. 2014;2:323–32. 2. Powers ET, Balch WE. Diversity in the origins of proteostasis networks–a driver for protein function in evolution. Nat Rev Mol Cell Biol. 2013;14:237–48. 3. Bayer TA. Proteinopathies, a core concept for understanding and ultimately treating degenerative
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Conversion of 8-mer architecture into 24-mer nanocage As a standard structural component among protein nanocages, ferritin exists ubiquitously in both prokaryotes and eukaryotes. It is a nearly spherical 24-subunits protein with an exterior diameter of about 12 nm and a hollow cavity of 8 nm30,31. Owing to its cage-like morphology and highly symmetrical structure, ferritin has been
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Chemicals Paracetamol and paracetamol-D4 internal standard were purchased from Sigma (Sigma-Aldrich Chemie B.V., Zwijndrecht, The Netherlands). UPLC/MS grade MeOH was purchased from Biosolve (Biosolve B.V., Valkenswaard, The Netherlands). Purified water (H2O) was retrieved from PURELAB (Veolia Water Technologies B.V., Ede, The Netherlands). Zebrafish husbandry All experiments were planned and executed in compliance with European regulation6.
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Our methodological pipeline (Fig. 2) is comprised of several steps: (1) numerically represent the genomic contigs using a nucleotide mapping (Table 1). (2) MLBP is used to extract features from these numerical representations. If available, cross-sample coverage information (mean and standard deviation) is extracted separately using Bowtie 233 and can be considered as extra information to be
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Three-dimensional structure of Mtb-SecBTA in complex with ChAD In contrast with the classical export chaperone SecB, which binds and wraps unfolded presecretory protein substrates and maintains them in an unfolded conformation compatible with translocation through membrane6, previous work revealed that the Mtb-SecBTA chaperone of TAC is capable of binding to its aggregation-prone Mtb-HigA1 antitoxin substrate
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Preparing HMEC-1 cells for fluorescence imaging HMEC-1 cells were fixed using 1.7% (w/v) paraformaldehyde (Electron Microscopy Sciences) at room temperature and permeabilized by incubation with 0.02% (w/v) saponin in phosphate-buffered saline (PBS) for 10 min at room temperature. Cells were then preblocked with 3% bovine serum albumin (BSA) in PBS, incubated with anti-Clathrin primary antibody (mouse
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Abstract The dynamic nature of technological developments invites us to rethink the learning spaces. In this context, science education can be enriched by the contribution of new computational resources, making the educational process more up-to-date, challenging, and attractive. Bioinformatics is a key interdisciplinary field, contributing to the understanding of biological processes that is often underrated
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Abstract The dynamic nature of technological developments invites us to rethink the learning spaces. In this context, science education can be enriched by the contribution of new computational resources, making the educational process more up-to-date, challenging, and attractive. Bioinformatics is a key interdisciplinary field, contributing to the understanding of biological processes that is often underrated
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Abstract We seek to characterize the motility of mouse fibroblasts on 2D substrates. Utilizing automated tracking techniques, we find that cell trajectories are super-diffusive, where displacements scale faster than t1/2 in all directions. Two mechanisms have been proposed to explain such statistics in other cell types: run and tumble behavior with Lévy-distributed run times, and
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Abstract We seek to characterize the motility of mouse fibroblasts on 2D substrates. Utilizing automated tracking techniques, we find that cell trajectories are super-diffusive, where displacements scale faster than t1/2 in all directions. Two mechanisms have been proposed to explain such statistics in other cell types: run and tumble behavior with Lévy-distributed run times, and
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Abstract Next-Generation Sequencing has made available substantial amounts of large-scale Omics data, providing unprecedented opportunities to understand complex biological systems. Specifically, the value of RNA-Sequencing (RNA-Seq) data has been confirmed in inferring how gene regulatory systems will respond under various conditions (bulk data) or cell types (single-cell data). RNA-Seq can generate genome-scale gene expression profiles
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Rice University scientists have taken the next step toward the deployment of powerful, rechargeable lithium metal batteries by making them safer and simpler to manufacture. The Rice lab of chemist James Tour made test cells with a coat of red phosphorus on the separator that keeps the anode and cathode electrodes apart. The phosphorus acts
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Switching magnetic domains in magnetic memories requires normally magnetic fields which are generated by electrical currents, hence requiring large amounts of electrical power. Now, teams from France, Spain and Germany have demonstrated the feasibility of another approach at the nanoscale: “We can induce magnetic order on a small region of our sample by employing a
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Cell replacement may play an increasing role in alleviating the motor symptoms of Parkinson’s disease (PD) in future. Writing in a special supplement to the Journal of Parkinson’s Disease, experts describe how newly developed stem cell technologies could be used to treat the disease and discuss the great promise, as well as the significant challenges,
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Rice University researchers have added a new dimension to their breakthrough technique that expands the capabilities of standard laboratory microscopes. Two years ago, the Rice lab of chemist Christy Landes introduced super temporal resolution microscopy, a technique that allowed researchers to image fluorescent molecules 20 times faster than traditional lab cameras normally allow. They’ve now
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By choosing “I agree” below, you agree that NPR’s sites use cookies, similar tracking and storage technologies, and information about the device you use to access our sites to enhance your viewing, listening and user experience, personalize content, personalize messages from NPR’s sponsors, provide social media features, and analyze NPR’s traffic. This information is shared
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Like going from a pinhole camera to a Polaroid, a significant mathematical update to the formula for a popular bioinformatics data visualization method will allow researchers to develop snapshots of single-cell gene expression not only several times faster but also at much higher-resolution. Published in Nature Methods, this innovation by Yale mathematicians will reduce the rendering
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Posted by: RNA-Seq Blog in Information 21 hours ago 173 Views Sometimes, analyzing our DNA sequences isn’t quite enough. RNA-seq is a next-generation sequencing (NGS)-based technique that looks at the RNA transcripts produced from our DNA, allowing us to look into how our genes are expressed. RNA-seq has shown its worth across many fields, and
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Genetic sequence database searching is a foundational tool in bioinformatics commonly used to make new discoveries, guide annotation, and direct downstream analysis, among many other tasks. Therefore, the performance of database searching tools is crucial to high quality results in many biomedical applications. Benchmarking such tools provides a systematic comparison to aid developers and researchers
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Genetic sequence database searching is a foundational tool in bioinformatics commonly used to make new discoveries, guide annotation, and direct downstream analysis, among many other tasks. Therefore, the performance of database searching tools is crucial to high quality results in many biomedical applications. Benchmarking such tools provides a systematic comparison to aid developers and researchers
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In the past decade, next generation sequencing (NGS) technology has made great progress and personal genome sequencing has also been widely used in human disease research, clinical treatment and new drug research [1]. In the genome analysis process, variant calling is significant step to discover and obtain variants relative to reference genome, which is also
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In the past decade, next generation sequencing (NGS) technology has made great progress and personal genome sequencing has also been widely used in human disease research, clinical treatment and new drug research [1]. In the genome analysis process, variant calling is significant step to discover and obtain variants relative to reference genome, which is also
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