Using proteomics to quantify metabolic pathways

Elsemman IE, Rodriguez Prado A, Grigaitis P, Garcia Albornoz M, Harman V, Holman SW, van Heerden J, Bruggeman FJ, Bisschops MMM, Sonnenschein N, Hubbard S, Beynon R, Daran-Lapujade P, Nielsen J, Teusink B. (2022) Whole-cell modeling in yeast predicts compartment-specific proteome constraints that drive metabolic strategies. [PUBMED] [Abstract...]

March of the acronyms.. ALACATs (a la carte proteomics)

James Johnson, Victoria M Harman, Catarina Franco, Edward Emmott, Nichola Rockliffe, Yaqi Sun, Lu-Ning Liu, Ayako Takemori, Nobuaki Takemori, Robert J Beynon (2021) Construction of à la carte QconCAT protein standards for multiplexed quantification of user-specified target proteins (2021) BMC Biol 2021 Sep 8;19(1):195. doi: 10.1186/s12915-021-01135-9. [PDF] [PUBMED] [DOI] [Abstract...]

Using QconCATs to establish protein complex stoichiometry

Mengru Yang, Deborah M Simpson, Nicolas Wenner, Philip Brownridge, Victoria M Harman, Jay C D Hinton, Robert J Beynon, Lu-Ning Liu (2020) Decoding the stoichiometric composition and organisation of bacterial metabolosomes [PDF] [PUBMED] [DOI] [Abstract...]

MS from gels, top down or bottom up

Ayako Takemori, David S Butcher, Victoria M Harman, Philip Brownridge, Keisuke Shima, Daisuke Higo, Jun Ishizaki, Hitoshi Hasegawa, Junpei Suzuki, Masakatsu Yamashita, Joseph A Loo, Rachel R Ogorzalek Loo, Robert J Beynon, Lissa C Anderson, Nobuaki Takemori (2020) PEPPI-MS: Polyacrylamide-Gel-Based Prefractionation for Analysis of Intact Proteoforms and Protein Complexes by Mass Spectrometry [PDF] [PUBMED] [DOI] [Abstract...]

REIMS for the analysis of bacterial protein production

Joscelyn Sarsby, Lynn McLean, Victoria M Harman, Robert J Beynon (2019) Monitoring recombinant protein expression in bacteria by rapid evaporative ionisation mass spectrometry. [PDF] [PUBMED] [DOI] [Abstract...]

Using proteomics to identify targets for schistosomiasis

Leandro X Neves, R Alan Wilson, Philip Brownridge, Victoria M Harman, Stephen W Holman, Robert J Beynon, Claire E Eyers, Ricardo DeMarco, William Castro-Borges (2020) Quantitative Proteomics of Enriched Esophageal and Gut Tissues from the Human Blood Fluke Schistosoma mansoni Pinpoints Secreted Proteins for Vaccine Development. [PDF] [PUBMED] [DOI] [Abstract...]

Nextgen QconCATs - MEERCAT!

Takemori N, Takemori A, Tanaka Y, Endo Y, Hurst JL, Gómez-Baena G, Harman VM, Beynon RJ. (2017) MEERCAT: Multiplexed Efficient Cell Free Expression of Recombinant QconCATs For Large Scale Absolute Proteome Quantification. [PDF] [PUBMED] [Abstract...]

The joys of running a training course!

A short article, written for the Biochemist, explaining the role of the Society in training provision and our experiences of running the Quantitative Proteomics Course [PDF] [Abstract...]

QconCATs in equine wound healing

Bundgaard L, Bendixen E, Sørensen MA, Harman VM, Beynon RJ, Petersen LJ, Jacobsen S. (2016) A selected reaction monitoring based analysis of acute phase proteins in interstitial fluids from experimental equine wounds healing by secondary intention. [PUBMED] [PDF] [Abstract...]

The biggest absolute quantification study ever! A tale of 100 QconCATs for nearly 2,000 proteins

Lawless C, Holman SW, Brownridge P, Lanthaler K, Harman VM, Watkins R, Hammond DE, Miller RL, Sims PF, Grant CM, Eyers CE, Beynon RJ, Hubbard SJ. (2016) Direct and Absolute Quantification of over 1800 Yeast Proteins via Selected Reaction Monitoring. [Abstract...]

Of mice, mups and mass spectrometry

Robert J. Beynon, Stuart D. Armstrong, Amy J. Claydon, Amanda J. Davidson, Claire E. Eyers, James I. Langridge, Guadalupe Gómez-Baena, Victoria M. Harman, Jane L. Hurst, Victoria Lee, Lynn McLean, Rebecca Pattison, Sarah A. Roberts, Deborah M. Simpson, Jenny Unsworth, Matthias Vonderach, Jonathan Williams and Yvonne E. Woolerton (2015) Mass spectrometry for structural analysis and quantification of the Major Urinary Proteins of the house mouse. [PDF] [NotEvenIndexedInPubmed?] [Abstract...]

QconCAT for equine acute phase proteins

Bundgaard L, Jacobsen S, Dyrlund TF, Sørensen MA, Harman VM, Beynon RJ, Brownridge PJ, Petersen LJ, Bendixen E. (2014) Development of a method for absolute quantification of equine acute phase proteins using concatenated peptide standards and selected reaction monitoring. [PUBMED][PDF]

Who's got the biggest workload? Analysis of chaperone abundance and workload

Brownridge P, Lawless C, Payapilly AB, Lanthaler K, Holman SW, Harman VM, Grant CM, Beynon RJ, Hubbard SJ. Quantitative analysis of chaperone network throughput in budding yeast (2012). [PUBMED][PDF] [Abstract...]

QconCATs for mastitis research

Bislev SL, Kusebauch U, Codrea MC, Beynon RJ, Harman VM, Røntved CM, Aebersold R, Moritz RL, Bendixen E. (2012) Quantotypic properties of QconCAT peptides targeting bovine host response to Streptococcus uberis. [PUBMED][PDF] [Abstract...]

Extending Progenesis to embrace SILAC and Hi3

Qi, D., Brownridge, P., Xia, D., Mackay, K., Gonzalez-Galarza, F.F., Kenyani, J., Harman, V., Beynon, R.J. & Jones, A.R. (2012) A software toolkit and interface for performing stable isotope labelling and top3 quantification using Progenesis LC-MS OMICS [PUBMED] [PDF] [Abstract...]

Global proteome quantification: dreams or reality?

Brownridge, P., Holman, S.W., Gaskell, S.J., Grant, C., Harman, V.M., Lanthaler, K., Lawless, C., O’cualain, R., Sims, P., Watkins, R & Beynon, R.J. (2011) Global absolute quantification of a proteome: Challenges in the deployment of a QconCAT strategy. Proteomics, 11, 2957-2970 [PUBMED][PDF] [Abstract...]