Combined retinal proteome datasets in response to atropine treatment using iTRAQ and SWATH-MS based proteomics approaches in guinea pig myopia model

Ying Zhu, Jingfang Bian, Daqian Lu, Qiong Wang, Boteng Gong, King Kit Li, Fengjuan Yu, Jimmy Ka Wai Cheung, Xiaowen Ji, Hongmei Zhang, Bei Du, Hong Nian, Chi ho To, Ruihua Wei, Thomas Chuen Lam

Research output: Journal article publicationJournal articleAcademic researchpeer-review

2 Citations (Scopus)


Atropine, a non-selective muscarinic antagonist, is known to slow down myopia progression in human adolescents and in several animal models. However, its underlying molecular mechanism is unclear. The present work built a monocular form-deprivation myopia (FDM) guinea pig model, using facemasks as well as atropine treatment on FDM eyes for 2 and 4 weeks. Retinal protein changes in response to the FDM and effects of topical administration of atropine were screened for the two periods using fractionated isobaric tags for a relative and absolute quantification (iTRAQ) approach coupled with nano-liquid chromatography-tandem mass spectrometry (nano-LC–MS/MS) (n=24, 48 eyes). Retinal tissues from another cohort receiving 4-weeks FDM with atropine treatment (n=12, 24 eyes) with more significant changes were subjected to sequential window acquisition of all theoretical mass spectra (SWATH-MS) proteomics for further protein target confirmation. A total of 1695 proteins (8875 peptides) and 5961 proteins (51871 peptides) were identified using iTRAQ and SWATH approaches, respectively. Using the Paragon algorithm in the ProteinPilotTM software, the three most significantly up-regulated and down-regulated proteins that were commonly found in both ITRAQ and SWATH experiments are presented. All raw data generated from the work were submitted and published in the Peptide Atlas public repository ( for general release (Data ID PASS01507).

Original languageEnglish
Article number106526
JournalData in Brief
Publication statusPublished - Dec 2020


  • Atropine
  • FDM
  • Guinea pigs
  • iTRAQ

ASJC Scopus subject areas

  • General

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