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molecular biology

Aims: Adeno-associated virus type 2 (AAV2) is a naturally defective human parvovirus that is being developed as a gene therapy vector. In dividing cells, AAV2 DNA persists by integration into the host chromosomes. AAV2 is unique among mammalian viruses in its ability...

["Biotechnology","Molecular Biology","Virology"]

A multitude of studies have looked at the in vivo and in vitro behavior of the lac repressor binding to DNA and effector molecules in order to study transcriptional repression, however these studies are not always reconcilable. Here we use in vitro transcription...

["Biochemistry","Biophysics","Mathematical Biology","Microbiology","Molecular Biology"]

Restriction-site associated DNA sequencing (RADseq) has become a powerful and useful approach for population genomics. Currently, no software exists that utilizes both paired-end reads from RADseq data to efficiently produce population-informative variant calls,...

["Bioinformatics","Genomics","Marine Biology","Molecular Biology"]

Tlusty's topological analysis of the genetic code suggests ecosystem changes in available metabolic free energy that predated the aerobic transition enabled a punctuated sequence of increasingly complex genetic codes and protein translators, protein folding codes,...

["Biochemistry","Cell Biology","Evolutionary Studies","Molecular Biology"]

Bacteria were long assumed to be monoploid, maintaining one copy of a circular chromosome. In recent years it became obvious that the majority of species in several phylogenetic groups of prokaryotes are oligoploid or polyploid, e.g. in halophilic and methanogenic...

["Biochemistry","Genetics","Genomics","Microbiology","Molecular Biology"]

Classification of antibody Complementarity-Determining Region (CDR) conformations is an important step that drives antibody modelling and engineering, prediction from sequence, directed mutagenesis and induced-fit studies, and allows inferences on sequence-to-structure...

["Bioinformatics","Computational Biology","Molecular Biology","Immunology"]

The accurate prediction of the conformation of Complementarity-Determining Regions (CDRs) is important in modelling antibodies for protein engineering applications. Specifically, the Canonical paradigm has proved successful in predicting the CDR conformation in...

["Bioinformatics","Computational Biology","Molecular Biology","Immunology"]

Schistosomes are parasitic worms that can survive in the hostile environment of the human bloodstream where they appear refractory to both immune elimination and thrombus formation. We hypothesize that parasite migration in the bloodstream can stress the vascular...

["Biochemistry","Molecular Biology","Parasitology"]

The mutant form GGBP/H152C of the D-glucose/D-galactose-binding protein with the solvatochromic dye BADAN linked to cysteine residue Cys 152 can be used as a potential base for a sensitive element of glucose biosensor system. We investigated the influence of various...

["Bioengineering","Biophysics","Molecular Biology"]

The eukaryotic polypyrimidine tract binding protein (PTB) serves primarily as a regulator of alternative splicing of messenger RNA, but is also co-opted to other roles such as RNA localisation and translation initiation from internal ribosome entry sites. The neuronal...

["Biochemistry","Biophysics","Molecular Biology","Virology"]

Macromolecular assemblies play an important role in almost all cellular processes. However, despite several large-scale studies, our current knowledge about protein complexes is still quite limited, thus advocating the use of in silico predictions to gather information...

["Bioinformatics","Computational Biology","Evolutionary Studies","Molecular Biology","Computational Science"]

The enzyme glutamine synthetase serves key roles in central nitrogen metabolism, catalyzing the biosynthesis of glutamine, as well as regulating ammonia assimilation and integrating metabolic signals to balance nitrogen use. The budding yeast enzyme was recently...

["Cell Biology","Molecular Biology"]

Symbiodinium, a large group of dinoflagellates, live in symbiosis with marine protists, invertebrate metazoans, and free-living in the environment. Symbiodinium are functionally variable and play critical energetic roles in symbiosis. Our knowledge of Symbiodinium...

["Ecology","Evolutionary Studies","Marine Biology","Molecular Biology"]

One way to initiate the reconstruction of molecular circuits is by using automated text-mining techniques. Developing more efficient methods for such reconstruction is a topic of active research, and those methods are typically included by bioinformaticians in...

["Bioinformatics","Computational Biology","Molecular Biology"]

Background: The thickness and composition of the surface liquid lining the human lungs are maintained by a balance between epithelial secretion and absorption of ions and water. An understanding of epithelial transport pathways and the factors that regulate them...

["Bioengineering","Biophysics","Cell Biology","Molecular Biology","Respiratory Medicine"]

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