Protein analysis by shotgun/bottom-up proteomics

Y Zhang, BR Fonslow, B Shan, MC Baek… - Chemical …, 2013 - ACS Publications
According to Genome Sequencing Project statistics (http://www. ncbi. nlm. nih.
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …

Proteomics standards initiative at twenty years: current activities and future work

EW Deutsch, JA Vizcaíno, AR Jones… - Journal of proteome …, 2023 - ACS Publications
The Human Proteome Organization (HUPO) Proteomics Standards Initiative (PSI) has been
successfully develo** guidelines, data formats, and controlled vocabularies (CVs) for the …

Target-decoy search strategy for mass spectrometry-based proteomics

JE Elias, SP Gygi - Proteome bioinformatics, 2009 - Springer
Accurate and precise methods for estimating incorrect peptide and protein identifications are
crucial for effective large-scale proteome analyses by tandem mass spectrometry. The target …

[HTML][HTML] Protein identification using MS/MS data

JS Cottrell - Journal of proteomics, 2011 - Elsevier
The subject of this tutorial is protein identification and characterisation by database
searching of MS/MS Data. Peptide Mass Fingerprinting is excluded because it is covered in …

[HTML][HTML] The mzIdentML data standard for mass spectrometry-based proteomics results

AR Jones, M Eisenacher, G Mayer… - Molecular & cellular …, 2012 - Elsevier
We report the release of mzIdentML, an exchange standard for peptide and protein
identification data, designed by the Proteomics Standards Initiative. The format was …

[HTML][HTML] Best practice in reporting corona studies: Minimum information about Nanomaterial Biocorona Experiments (MINBE)

AJ Chetwynd, KE Wheeler, I Lynch - Nano Today, 2019 - Elsevier
Characterisation of the adsorption of biomolecules, or a biocorona, on nanomaterials has
proliferated in the past 10 years, as protein corona studies provide molecular level insight …

Proteomics standards initiative: fifteen years of progress and future work

EW Deutsch, S Orchard, PA Binz… - Journal of proteome …, 2017 - ACS Publications
The Proteomics Standards Initiative (PSI) of the Human Proteome Organization (HUPO) has
now been develo** and promoting open community standards and software tools in the …

MIRAGE: the minimum information required for a glycomics experiment

WS York, S Agravat, KF Aoki-Kinoshita, R McBride… - …, 2014 - academic.oup.com
The MIRAGE (minimum information required for a glycomics experiment) initiative was
founded in Seattle, WA, in November 2011 in order to develop guidelines for reporting the …

The human eye proteome project: updates on an emerging proteome

MT Ahmad, P Zhang, C Dufresne, L Ferrucci… - …, 2018 - Wiley Online Library
The human eye is a complex organ consisting of multiple compartments with unique and
specialized properties that reflect their varied functions. Although there have been …

[HTML][HTML] A temporal examination of the planktonic and biofilm proteome of whole cell Pseudomonas aeruginosa PAO1 using quantitative mass spectrometry

AJ Park, K Murphy, JR Krieger, D Brewer… - Molecular & Cellular …, 2014 - Elsevier
Chronic polymicrobial lung infections are the chief complication in patients with cystic
fibrosis. The dominant pathogen in late-stage disease is Pseudomonas aeruginosa, which …