Less label, more free: approaches in label‐free quantitative mass spectrometry

KA Neilson, NA Ali, S Muralidharan, M Mirzaei… - …, 2011 - Wiley Online Library
In this review we examine techniques, software, and statistical analyses used in label‐free
quantitative proteomics studies for area under the curve and spectral counting approaches …

Carbohydrate metabolism in Archaea: current insights into unusual enzymes and pathways and their regulation

C Bräsen, D Esser, B Rauch… - … and Molecular Biology …, 2014 - Am Soc Microbiol
The metabolism of Archaea, the third domain of life, resembles in its complexity those of
Bacteria and lower Eukarya. However, this metabolic complexity in Archaea is accompanied …

Toll-like receptor mediated inflammation requires FASN-dependent MYD88 palmitoylation

YC Kim, SE Lee, SK Kim, HD Jang, I Hwang… - Nature chemical …, 2019 - nature.com
Abstract Toll-like receptor (TLR)/myeloid differentiation primary response protein (MYD88)
signaling aggravates sepsis by impairing neutrophil migration to infection sites. However …

Modeling the postmerger gravitational wave signal and extracting binary properties from future binary neutron star detections

KW Tsang, T Dietrich, C Van Den Broeck - Physical Review D, 2019 - APS
Gravitational wave astronomy has established its role in measuring the equation of state
governing cold supranuclear matter. To date and in the near future, gravitational wave …

Comparative genomics in acid mine drainage biofilm communities reveals metabolic and structural differentiation of co-occurring archaea

AP Yelton, LR Comolli, NB Justice, C Castelle… - BMC genomics, 2013 - Springer
Background Metal sulfide mineral dissolution during bioleaching and acid mine drainage
(AMD) formation creates an environment that is inhospitable to most life. Despite dominance …

Comprehensive proteomic profiling of outer membrane vesicles from Campylobacter jejuni

KS Jang, MJ Sweredoski, RLJ Graham, S Hess… - Journal of …, 2014 - Elsevier
Gram-negative bacteria constitutively release outer membrane vesicles (OMVs) during cell
growth that play significant roles in bacterial survival, virulence and pathogenesis. In this …

Comparison of membrane proteins of Mycobacterium tuberculosisH37Rv and H37Ra strains

H Målen, GA De Souza, S Pathak, T Søfteland… - BMC microbiology, 2011 - Springer
Background The potential causes for variation in virulence between distinct M. tuberculosis
strains are still not fully known. However, differences in protein expression are probably an …

Comprehensive proteomics

M Beck, M Claassen, R Aebersold - Current opinion in biotechnology, 2011 - Elsevier
Extensive proteome discovery projects using a variety of mass spectrometric techniques
have identified proteins matching to 50–70% of the predicted gene models of various …

Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

DK Kesavan, A Vasudevan, L Wu, J Chen, Z Su… - BMC microbiology, 2020 - Springer
Background Acinetobacter baumannii is a multidrug-resistant (MDR) hazardous bacterium
with very high antimicrobial resistance profiles. Outer membrane vesicles (OMVs) help …

Evaluation of normalization methods on GeLC-MS/MS label-free spectral counting data to correct for variation during proteomic workflows

E Gokce, CM Shuford, WL Franck… - Journal of the …, 2011 - ACS Publications
Normalization of spectral counts (SpCs) in label-free shotgun proteomic approaches is
important to achieve reliable relative quantification. Three different SpC normalization …