Dataset Information

Sweet google O' mine-The importance of online search engines for MS-facilitated, database-independent identification of peptide-encoded book prefaces: A EUPA YPIC challenge entry.

ABSTRACT: In the recent year, we felt like we were not truly showing our full potential in our PhD projects, and so we were very happy and excited when YPIC announced the ultimate proteomics challenge. This gave us the opportunity of showing off and procrastinating at the same time:) The challenge was to identify the amino acid sequence of 19 synthetic peptides made up from an English text and then find the book that it came from. For this task we chose to run on an Orbitrap Fusion™ Lumos™ Tribrid™ Mass Spectrometer with two different sensitive MS2 resolutions, each with both HCD and CID fragmentation consecutively. This strategy was chosen because we speculated that multiple MS2 scans at high quality would be beneficial over lower resolution, speed and quantity in the relatively sparse sample. The resulting chromatogram did not reveal 19 sharp distinct peaks and it was not clear to us where to start a manual spectra interpretation. We instead used the de novo option in the MaxQuant software and the resulting output gave us two phrases with words that were specific enough to be searched in the magic Google search engine. Google gave us the name of a very famous physicist, namely Sir Joseph John Thomson, and a reference to his book "Rays of positive electricity" from 1913. We then converted the paragraph we believed to be the right one into a FASTA format and used it with MaxQuant to do a database search. This resulted in 16 perfectly FASTA search-identified peptide sequences, one with a missing PTM and one found as a truncated version. The remaining one was identified within the MaxQuant de novo sequencing results. We thus show in this study that our workflow combining de novo spectra analysis algorithms with an online search engine is ideally suited for all applications where users want to decipher peptide-encoded prefaces of 20th century science books.

SUBMITTER: Hogrebe A

PROVIDER: S-EPMC6924292 | biostudies-literature | 2019 Mar

REPOSITORIES: biostudies-literature

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Sweet google O' mine-The importance of online search engines for MS-facilitated, database-independent identification of peptide-encoded book prefaces: A EUPA YPIC challenge entry.

Hogrebe Alexander A Jersie-Christensen Rosa R RR

EuPA open proteomics 20190301

In the recent year, we felt like we were not truly showing our full potential in our PhD projects, and so we were very happy and excited when YPIC announced the ultimate proteomics challenge. This gave us the opportunity of showing off and procrastinating at the same time:) The challenge was to identify the amino acid sequence of 19 synthetic peptides made up from an English text and then find the book that it came from. For this task we chose to run on an Orbitrap Fusion™ Lumos™ Tribrid™ Mass S ...[more]

PMID: 31890548

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Project description:BACKGROUND:Online information on electronic cigarettes (e-cigarettes) may influence people's perception and use of e-cigarettes. Websites with information on e-cigarettes in the Chinese language have not been systematically assessed. OBJECTIVE:The aim of this study was to assess and compare the types and credibility of Web-based information on e-cigarettes identified from Google (in English) and Baidu (in Chinese) search engines. METHODS:We used the keywords vaping or e-cigarettes to conduct a search on Google and the equivalent Chinese characters for Baidu. The first 50 unique and relevant websites from each of the two search engines were included in this analysis. The main characteristics of the websites, credibility of the websites, and claims made on the included websites were systematically assessed and compared. RESULTS:Compared with websites on Google, more websites on Baidu were owned by manufacturers or retailers (15/50, 30% vs 33/50, 66%; P<.001). None of the Baidu websites, compared to 24% (12/50) of Google websites, were provided by public or health professional institutions. The Baidu websites were more likely to contain e-cigarette advertising (P<.001) and less likely to provide information on health education (P<.001). The overall credibility of the included Baidu websites was lower than that of the Google websites (P<.001). An age restriction warning was shown on all advertising websites from Google (15/15) but only on 10 of the 33 (30%) advertising websites from Baidu (P<.001). Conflicting or unclear health and social claims were common on the included websites. CONCLUSIONS:Although conflicting or unclear claims on e-cigarettes were common on websites from both Baidu and Google search engines, there was a lack of online information from public health authorities in China. Unbiased information and evidence-based recommendations on e-cigarettes should be provided by public health authorities to help the public make informed decisions regarding the use of e-cigarettes.

Dataset Information

Sweet google O' mine-The importance of online search engines for MS-facilitated, database-independent identification of peptide-encoded book prefaces: A EUPA YPIC challenge entry.

Publications

Sweet google O' mine-The importance of online search engines for MS-facilitated, database-independent identification of peptide-encoded book prefaces: A EUPA YPIC challenge entry.

Similar Datasets

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