scholarly journals DFFR: A New Method for High-Throughput Recalibration of Automatic Force-Fields for Drugs

2020 ◽  
Vol 16 (10) ◽  
pp. 6598-6608
Author(s):  
David Moreno ◽  
Sanja Zivanovic ◽  
Francesco Colizzi ◽  
Adam Hospital ◽  
Juan Aranda ◽  
...  
Keyword(s):  
High Throughput ◽  
Force Fields ◽  
New Method

scholarly journals High-throughput production of force-fields for solid-state electrolyte materials

APL Materials ◽  
2020 ◽  
Vol 8 (8) ◽  
pp. 081111
Author(s):  
Ryo Kobayashi ◽  
Yasuhiro Miyaji ◽  
Koki Nakano ◽  
Masanobu Nakayama
Keyword(s):  
Solid State ◽  
High Throughput ◽  
Force Fields ◽  
Solid State Electrolyte

scholarly journals Combining a Simple Method for DNA/RNA/Protein Co-Purification and Arabidopsis Protoplast Assay to Facilitate Viroid Research

Viruses ◽  
2019 ◽  
Vol 11 (4) ◽  
pp. 324 ◽  
Author(s):  
Jian Jiang ◽  
Junfei Ma ◽  
Bin Liu ◽  
Ying Wang
Keyword(s):  
Molecular Biology ◽  
Structure Function ◽  
High Throughput ◽  
Noncoding Rnas ◽  
Protein Precipitation ◽  
New Method ◽  
Robust Method ◽  
Simple Method ◽  
Functional Studies ◽  
Arabidopsis Protoplast

Plant–viroid interactions represent a valuable model for delineating structure–function relationships of noncoding RNAs. For various functional studies, it is desirable to minimize sample variations by using DNA, RNA, and proteins co-purified from the same samples. Currently, most of the co-purification protocols rely on TRI Reagent (Trizol as a common representative) and require protein precipitation and dissolving steps, which render difficulties in experimental handling and high-throughput analyses. Here, we established a simple and robust method to minimize the precipitation steps and yield ready-to-use RNA and protein in solutions. This method can be applied to samples in small quantities, such as protoplasts. Given the ease and the robustness of this new method, it will have broad applications in virology and other disciplines in molecular biology.

Deformability measurement of red blood cells using a microfluidic channel array and an air cavity in a driving syringe with high throughput and precise detection of subpopulations

The Analyst ◽  
2016 ◽  
Vol 141 (1) ◽  
pp. 319-330 ◽  
Author(s):  
Yang Jun Kang ◽  
Young-Ran Ha ◽  
Sang-Joon Lee
Keyword(s):  
Red Blood Cells ◽  
High Throughput ◽  
Blood Cells ◽  
Microfluidic Channel ◽  
New Method ◽  
Air Cavity ◽  
Blood Samples ◽  
Hematological Disorders

We propose a new method to measure deformability of blood samples containing hematological disorders with high throughput and precise detection of subpopulations.

High throughput in situ cultivation as a new method for cultivation of uncultivable environmental microorganisms

2009 ◽  
Vol 108 ◽  
pp. S121
Author(s):  
Yoshiteru Aoi ◽  
Tatsurou Suzuki ◽  
Takeshi Kushimoto ◽  
Hiroaki Ohta ◽  
Satoshi Tsuneda
Keyword(s):  
High Throughput ◽  
New Method

HAPLOFIND: A New Method for High-Throughput mtDNA Haplogroup Assignment

2013 ◽  
Vol 34 (9) ◽  
pp. 1189-1194 ◽  
Author(s):  
Dario Vianello ◽  
Federica Sevini ◽  
Gastone Castellani ◽  
Laura Lomartire ◽  
Miriam Capri ◽  
...  
Keyword(s):  
High Throughput ◽  
New Method ◽  
Mtdna Haplogroup ◽  
Haplogroup Assignment

scholarly journals Constructing catalyst knowledge networks from catalyst big data in oxidative coupling of methane for designing catalysts

2021 ◽  
Author(s):  
Lauren Takahashi ◽  
Thanh Nhat Nguyen ◽  
Sunao Nakanowatari ◽  
Aya Fujiwara ◽  
Toshiaki Taniike ◽  
...  
Keyword(s):  
Big Data ◽  
High Throughput ◽  
Oxidative Coupling ◽  
Oxidative Coupling Of Methane ◽  
Catalyst Design ◽  
Knowledge Networks ◽  
New Method ◽  
High Throughput Experimentation

Catalyst data created through high-throughput experimentation is transformed into catalyst knowledge networks, leading to a new method of catalyst design where successfully designed catalysts result in high C2 yields during the OCM reaction.

scholarly journals A new method for inferring timetrees from temporally sampled molecular sequences

2019 ◽  
Author(s):  
Sayaka Miura ◽  
Koichiro Tamura ◽  
Sergei L. Kosakovsky Pond ◽  
Louise A. Huuki ◽  
Jessica Priest ◽  
...  
Keyword(s):  
User Interface ◽  
High Throughput ◽  
Graphical User Interface ◽  
Bayesian Methods ◽  
New Method ◽  
Divergence Times ◽  
Bayesian Approaches ◽  
History Of ◽  
Cross Platform ◽  
Better Than

ABSTRACTPathogen timetrees are phylogenies scaled to time. They reveal the temporal history of a pathogen spread through the populations as captured in the evolutionary history of strains. These timetrees are inferred by using molecular sequences of pathogenic strains sampled at different times. That is, temporally sampled sequences enable the inference of sequence divergence times. Here, we present a new approach (RelTime with Dated Tips [RTDT]) to estimating pathogen timetrees based on the relative rate framework underlying the RelTime approach. RTDT does not require many of the priors demanded by Bayesian approaches, and it has light computing requirements. We found RTDT to be accurate on simulated datasets evolved under a variety of branch rates models. Interestingly, we found two non-Bayesian methods (RTDT and Least Squares Dating [LSD]) to perform similar to or better than the Bayesian approaches available in BEAST and MCMCTree programs. RTDT method was found to generally outperform all other methods for phylogenies in with autocorrelated evolutionary rates. In analyses of empirical datasets, RTDT produced dates that were similar to those from Bayesian analyses. Speed and accuracy of the new method, as compared to the alternatives, makes it appealing for analyzing growing datasets of pathogenic strains. Cross-platform MEGA X software, freely available from http://www.megasoftware.net, now contains the new method for use through a friendly graphical user interface and in high-throughput settings.AUTHOR SUMMARYPathogen timetrees trace the origins and evolutionary histories of strains in populations, hosts, and outbreaks. The tips of these molecular phylogenies often contain sampling time information because the sequences were generally obtained at different times during the disease outbreaks and propagation. We have developed a new method for inferring timetrees for phylogenies with tip dates, which improves on widely-used Bayesian methods (e.g., BEAST) in computational efficiency and does not require prior specification of population parameters, branch rate model, or clock model. We performed extensive computer simulation and found that RTDT performed better than the other methods for the estimation of divergence times at deep node in phylogenies where evolutionary rates were autocorrelated. The new method is available in the cross-platform MEGA software package that provides a graphical user interface, and allows use via a command line in scripting and high throughput analysis (www.megasoftware.net).

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