Biochemistry, Biophysics and Molecular Biology

Editors' Picks

Improved plaque assay for human coronaviruses 229E and OC43
Rogerio Sotelo-Mundo –– The method proposed by Bracci et al. provides a practical assay to evaluate antiviral compounds using a cellular assay that does not rely on reverse transcriptase-PCR. The use of milder human coronavirus strains HCoV-229E and OC43 in BSL-2 biosafety conditions will permit the evaluation of potential drugs in an in vitro antiviral assay.
Differentially expressed serum proteins in children with or without asthma as determined using isobaric tags for relative and absolute quantitation proteomics
Abhiram Maddi –– This article is probably one of the very few to examine differentially expressed serum proteins in asthma patients. It may provide significant information related to diagnosis and therapy.
qPCR multiplex detection of microRNA and messenger RNA in a single reaction
Rogerio Sotelo-Mundo –– This novel method of mRNA and miRNA has lots of potential for application in many areas of biological research.
DeepBindPoc: a deep learning method to rank ligand binding pockets using molecular vector representation
Walter de Azevedo Jr. –– In this research paper, Zhang et al. report the development of a new computational tool to assess protein-ligand interaction using machine-learning techniques. This new approach can rank ligand-binding pockets using molecular vector representation. The predictive power of this new method has been determined using high-resolution crystallography structures of protein-ligand complexes. The authors demonstrated that their computational approach has a complementary advantage over the popular Fpocket score in many test cases.
Upregulation of SPOCK2 inhibits the invasion and migration of prostate cancer cells by regulating the MT1-MMP/MMP2 pathway
Cheng-Chia Yu –– SPOCK2 is associated with the progression of prostate cancer and upregulation of SPOCK2 can inhibit invasion and metastasis.
P5CR1 protein expression and the effect of gene-silencing on lung adenocarcinoma
Cheng-Chia Yu –– PYCR1 plays a critical role in cisplatin resistance of lung adenocarcinoma as to be a potential therapeutic target
Chemical composition, antioxidant and hepatoprotective activities of methanol extracts from leaves of Terminalia bellirica and Terminalia sericea (Combretaceae)
Maria Cristina Albertini –– The results published in this article are interesting and well analyzed with the use of innovative techniques.
Evaluation of buriti endocarp as lignocellulosic substrate for second generation ethanol production
Valsaraj KT –– The use of lignocellulosic ethanol is a promising alternative to fossil fuels and this paper describes a unique method using a renewable material, viz., the fruit pericarp of buriti fruit, widely grown in sub-tropical areas.
PBxplore: a tool to analyze local protein structure and deformability with Protein Blocks
Walter de Azevedo Jr. –– The authors report the development and application of a suite of tools, called PBxplore. This computational tool can be used to analyze the dynamics and deformability of protein structures using Protein Blocks (PBs). It is an interesting development for scientists interesting in molecular dynamics simulations of protein structures.
Validation of picogram- and femtogram-input DNA libraries for microscale metagenomics
Hauke Smidt –– The method described here allows to probe the metagenomes of low-biomass ecosystems at significantly reduced bias.
Biochemistry, Biophysics and Molecular Biology

Section discussions

Just published @PeerJLife study examines the long-term effects of non-biodegradable polyelectrolyte microcapsules on fish internal organs with histopathologic analysis Read the full article #Aquaculture #Fisheries #Biochemistry #Biotechnology

Research from Langenfeld et al. @UMich compares ultrafiltration and iron chloride flocculation in the preparation of aquatic viromes from contrasting sample types Read the full @PeerJLife article @envirophage #Microbiology #MolecularBiology #Virology

3 days ago
Analysis of Odonata #DNAbarcode library today in @thePeerJ #Entomology #MolecularBiology #Taxonomy #Zoology #FreshwaterBiology