Toxicity of metal oxide nanoparticles: mechanisms, characterization, and avoiding experimental artefacts

AB Djurišić, YH Leung, AMC Ng, XY Xu, PKH Lee… - Small, 2015 - Wiley Online Library
Metal oxide nanomaterials are widely used in practical applications and represent a class of
nanomaterials with the highest global annual production. Many of those, such as TiO2 and …

'Conserved hypothetical'proteins: prioritization of targets for experimental study

MY Galperin, EV Koonin - Nucleic acids research, 2004 - academic.oup.com
Comparative genomics shows that a substantial fraction of the genes in sequenced
genomes encodes 'conserved hypothetical'proteins, ie those that are found in organisms …

A comprehensive proteome map of growing Bacillus subtilis cells

C Eymann, A Dreisbach, D Albrecht, J Bernhardt… - …, 2004 - Wiley Online Library
The proteome of growing cells of Bacillus subtilis was analyzed in order to provide the basis
for its application in microbial physiology. DNA arrays were used to calculate the number of …

Multidimensional separations-based shotgun proteomics

ML Fournier, JM Gilmore, SA Martin-Brown… - Chemical …, 2007 - ACS Publications
The proteome refers to the collection of proteins in a given biological organism or system
under a particular set of environmental conditions. The study of proteins, referred to as …

Structural and mechanistic analysis of a tripartite ATP-independent periplasmic TRAP transporter

MF Peter, JA Ruland, P Depping… - Nature …, 2022 - nature.com
Tripartite ATP-independent periplasmic (TRAP) transporters are found widely in bacteria
and archaea and consist of three structural domains, a soluble substrate-binding protein (P …

Improving sensitivity by probabilistically combining results from multiple MS/MS search methodologies

BC Searle, M Turner, AI Nesvizhskii - The Journal of Proteome …, 2008 - ACS Publications
Database-searching programs generally identify only a fraction of the spectra acquired in a
standard LC/MS/MS study of digested proteins. Subtle variations in database-searching …

Automated protein identification by tandem mass spectrometry: issues and strategies

P Hernandez, M Müller, RD Appel - Mass spectrometry reviews, 2006 - Wiley Online Library
Protein identification by tandem mass spectrometry (MS/MS) is key to most proteomics
projects and has been widely explored in bioinformatics research. Obtaining good and …

Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS

AI Nesvizhskii, R Aebersold - Drug discovery today, 2004 - Elsevier
Tandem mass spectrometry has been used increasingly for high-throughput analysis of
complex protein samples. A major challenge lies in the consistent, objective and transparent …

Sialic acid transport in Haemophilus influenzae is essential for lipopolysaccharide sialylation and serum resistance and is dependent on a novel tripartite ATP …

E Severi, G Randle, P Kivlin, K Whitfield… - Molecular …, 2005 - Wiley Online Library
Sialylation of the lipopolysaccharide (LPS) is an important mechanism used by the human
pathogen Haemophilus influenzae to evade the innate immune response of the host. We …

Proteomics: from gel based to gel free

JP Lambert, M Ethier, JC Smith, D Figeys - Analytical Chemistry, 2005 - ACS Publications
Since our last review in 2002, there have been significant changes in the field of proteomics.
The hype surrounding this field has diminished as it has matured. The initial and overly …