scholarly journals Molecular Interactions between the Specialist HerbivoreManduca sexta (Lepidoptera, Sphingidae) and Its Natural Host Nicotiana attenuata. I. Large-Scale Changes in the Accumulation of Growth- and Defense-Related Plant mRNAs

2001 ◽  
Vol 125 (2) ◽  
pp. 683-700 ◽  
Author(s):  
Dieter Hermsmeier ◽  
Ursula Schittko ◽  
Ian T. Baldwin
Keyword(s):  
Molecular Interactions ◽  
Large Scale ◽  
Natural Host ◽  
Nicotiana Attenuata ◽  
Related Plant

scholarly journals Molecular Interactions between the Specialist Herbivore Manduca sexta (Lepidoptera, Sphingidae) and Its Natural Host Nicotiana attenuata. VII. Changes in the Plant's Proteome

2006 ◽  
Vol 142 (4) ◽  
pp. 1621-1641 ◽  
Author(s):  
Ashok P. Giri ◽  
Hendrik Wünsche ◽  
Sirsha Mitra ◽  
Jorge A. Zavala ◽  
Alexander Muck ◽  
...  
Keyword(s):  
Manduca Sexta ◽  
Molecular Interactions ◽  
Natural Host ◽  
Nicotiana Attenuata ◽  
Specialist Herbivore

scholarly journals Simulating Molecular Interactions of Carbon Nanoparticles with a Double-Stranded DNA Fragment

2015 ◽  
Vol 2015 ◽  
pp. 1-6 ◽  
Author(s):  
Zhuang Wang ◽  
Hao Fang ◽  
Se Wang ◽  
Fan Zhang ◽  
Degao Wang
Keyword(s):  
Carbon Nanotube ◽  
Quantum Dot ◽  
Molecular Interactions ◽  
Carbon Nanoparticles ◽  
Large Scale ◽  
Electrostatic Force ◽  
Md Simulations ◽  
Single Walled Carbon Nanotube ◽  
Double Stranded Dna ◽  
Dna Fragment

Molecular interactions between carbon nanoparticles (CNPs) and a double-stranded deoxyribonucleic acid (dsDNA) fragment were investigated using molecular dynamics (MD) simulations. Six types of CNPs including fullerenes (C60and C70), (8,0) single-walled carbon nanotube (SWNT), (8,0) double-walled carbon nanotube (DWNT), graphene quantum dot (GQD), and graphene oxide quantum dot (GOQD) were studied. Analysis of the best geometry indicates that the dsDNA fragment can bind to CNPs through pi-stacking and T-shape. Moreover, C60, DWNT, and GOQD bind to the dsDNA molecules at the minor groove of the nucleotide, and C70, SWNT, and GQD bind to the dsDNA molecules at the hydrophobic ends. Estimated interaction energy implies that van der Waals force may mainly contribute to the mechanisms for the dsDNA-C60, dsDNA-C70, and dsDNA-SWNT interactions and electrostatic force may contribute considerably to the dsDNA-DWNT, dsDNA-GQD, and dsDNA-GOQD interactions. On the basis of the results from large-scale MD simulations, it was found that the presence of the dsDNA enhances the dispersion of C60, C70, and SWNT in water and has a slight impact on DWNT, GQD, and GOQD.

scholarly journals PsicquicGraph, a BioJS component to visualize molecular interactions from PSICQUIC servers

F1000Research ◽  
2014 ◽  
Vol 3 ◽  
pp. 44 ◽  
Author(s):  
Jose M. Villaveces ◽  
Rafael C. Jimenez ◽  
Bianca H. Habermann
Keyword(s):  
Small Molecules ◽  
Molecular Interactions ◽  
Large Scale ◽  
Protein Interaction Networks ◽  
Interaction Networks ◽  
Web Based ◽  
High Throughput Data ◽  
Link Type ◽  
Large Scale Data ◽  
Scale Data

Summary: Protein interaction networks have become an essential tool in large-scale data analysis, integration, and the visualization of high-throughput data in the context of complex cellular networks. Many individual databases are available that provide information on binary interactions of proteins and small molecules. Community efforts such as PSICQUIC aim to unify and standardize information emanating from these public databases. Here we introduce PsicquicGraph, an open-source, web-based visualization component for molecular interactions from PSIQUIC services. Availability: PsicquicGraph is freely available at the BioJS Registry for download and enhancement. Instructions on how to use the tool are available here http://goo.gl/kDaIgZ and the source code can be found at http://github.com/biojs/biojs and DOI:10.5281/zenodo.7709.

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