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A data-independent acquisition-based global phosphoproteomics system enables deep profiling

Author

Listed:
  • Reta Birhanu Kitata

    (Academia Sinica)

  • Wai-Kok Choong

    (Academia Sinica)

  • Chia-Feng Tsai

    (Pacific Northwest National Laboratory)

  • Pei-Yi Lin

    (Academia Sinica)

  • Bo-Shiun Chen

    (Academia Sinica
    National Taiwan University)

  • Yun-Chien Chang

    (Academia Sinica
    National Taiwan University)

  • Alexey I. Nesvizhskii

    (University of Michigan Medical School)

  • Ting-Yi Sung

    (Academia Sinica)

  • Yu-Ju Chen

    (Academia Sinica
    National Taiwan University)

Abstract

Phosphoproteomics can provide insights into cellular signaling dynamics. To achieve deep and robust quantitative phosphoproteomics profiling for minute amounts of sample, we here develop a global phosphoproteomics strategy based on data-independent acquisition (DIA) mass spectrometry and hybrid spectral libraries derived from data-dependent acquisition (DDA) and DIA data. Benchmarking the method using 166 synthetic phosphopeptides shows high sensitivity (

Suggested Citation

  • Reta Birhanu Kitata & Wai-Kok Choong & Chia-Feng Tsai & Pei-Yi Lin & Bo-Shiun Chen & Yun-Chien Chang & Alexey I. Nesvizhskii & Ting-Yi Sung & Yu-Ju Chen, 2021. "A data-independent acquisition-based global phosphoproteomics system enables deep profiling," Nature Communications, Nature, vol. 12(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-22759-z
    DOI: 10.1038/s41467-021-22759-z
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