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Profiling the Lipidome requires quality control

William Griffiths Orcid Logo

Swansea University Author: William Griffiths Orcid Logo

DOI (Published version): 10.5281/zenodo.4672232

Abstract

A recent publication from Vasilopoulou et al. reports on the full lipidome profiling by a combination of trapped ion mobility spectrometry (TIMS), parallel accumulation serial fragmentation (PASEF) and nano HPLC. While this is altogether an impressive technological advance, having the potential to i...

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Published: This manuscript is submitted by the international Lipidomics community under the category 'Matters Arising' in Nature Communications in response to Vasilopoulou et al., Nature Comm, 11: ArtNo 331 (2020).
URI: https://cronfa.swan.ac.uk/Record/cronfa56656
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first_indexed 2021-04-15T09:28:38Z
last_indexed 2022-01-11T04:25:09Z
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spelling 2022-01-10T12:06:37.6165727 v2 56656 2021-04-15 Profiling the Lipidome requires quality control 3316b1d1b524be1831790933eed1c26e 0000-0002-4129-6616 William Griffiths William Griffiths true false 2021-04-15 BMS A recent publication from Vasilopoulou et al. reports on the full lipidome profiling by a combination of trapped ion mobility spectrometry (TIMS), parallel accumulation serial fragmentation (PASEF) and nano HPLC. While this is altogether an impressive technological advance, having the potential to increase lipidome coverage and lower detection limits for individual lipids, the interpretation of the acquired spectra is a matter of serious concern. Specifically, the authors exclusively relied on software-assisted lipid assignments that were not confirmed by an independent inspection of matched spectra to recognize abundant structurally unique lipid fragments or by correlation of retention times of identified species with available lipid standards – essential measures typically employed in lipidomics to reduce false-positive assignments. However, manual inspection of the dataset performed by us suggested that, in fact, the identification of at least 510 out of 1108 features reported as ‘unique lipids’ required additional experimental evidence. This, in turn, compromised the assignment of CCS values for 1856 features that will likely be used by others for identifying lipids. Other This manuscript is submitted by the international Lipidomics community under the category 'Matters Arising' in Nature Communications in response to Vasilopoulou et al., Nature Comm, 11: ArtNo 331 (2020). 0 0 0 0001-01-01 10.5281/zenodo.4672232 COLLEGE NANME Biomedical Sciences COLLEGE CODE BMS Swansea University 2022-01-10T12:06:37.6165727 2021-04-15T10:22:34.7502620 Faculty of Medicine, Health and Life Sciences Swansea University Medical School - Medicine William Griffiths 0000-0002-4129-6616 1 56656__19764__aac4cbbba6a9439f8bb24b614f5be12c.pdf Matters Arising.pdf 2021-04-27T13:47:03.1247171 Output 1812169 application/pdf Author's Original true false
title Profiling the Lipidome requires quality control
spellingShingle Profiling the Lipidome requires quality control
William Griffiths
title_short Profiling the Lipidome requires quality control
title_full Profiling the Lipidome requires quality control
title_fullStr Profiling the Lipidome requires quality control
title_full_unstemmed Profiling the Lipidome requires quality control
title_sort Profiling the Lipidome requires quality control
author_id_str_mv 3316b1d1b524be1831790933eed1c26e
author_id_fullname_str_mv 3316b1d1b524be1831790933eed1c26e_***_William Griffiths
author William Griffiths
author2 William Griffiths
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institution Swansea University
doi_str_mv 10.5281/zenodo.4672232
publisher This manuscript is submitted by the international Lipidomics community under the category 'Matters Arising' in Nature Communications in response to Vasilopoulou et al., Nature Comm, 11: ArtNo 331 (2020).
college_str Faculty of Medicine, Health and Life Sciences
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hierarchy_top_id facultyofmedicinehealthandlifesciences
hierarchy_top_title Faculty of Medicine, Health and Life Sciences
hierarchy_parent_id facultyofmedicinehealthandlifesciences
hierarchy_parent_title Faculty of Medicine, Health and Life Sciences
department_str Swansea University Medical School - Medicine{{{_:::_}}}Faculty of Medicine, Health and Life Sciences{{{_:::_}}}Swansea University Medical School - Medicine
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description A recent publication from Vasilopoulou et al. reports on the full lipidome profiling by a combination of trapped ion mobility spectrometry (TIMS), parallel accumulation serial fragmentation (PASEF) and nano HPLC. While this is altogether an impressive technological advance, having the potential to increase lipidome coverage and lower detection limits for individual lipids, the interpretation of the acquired spectra is a matter of serious concern. Specifically, the authors exclusively relied on software-assisted lipid assignments that were not confirmed by an independent inspection of matched spectra to recognize abundant structurally unique lipid fragments or by correlation of retention times of identified species with available lipid standards – essential measures typically employed in lipidomics to reduce false-positive assignments. However, manual inspection of the dataset performed by us suggested that, in fact, the identification of at least 510 out of 1108 features reported as ‘unique lipids’ required additional experimental evidence. This, in turn, compromised the assignment of CCS values for 1856 features that will likely be used by others for identifying lipids.
published_date 0001-01-01T04:08:08Z
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