Fig. 1

Schematic diagram of the development of thyroid spectral libraries. Thyroid tissues (n = 245) from nine histological types and thyroid cell lines (n = 50) from six histological types were collected and processed for protein extraction and digestion. Peptides from the same sample type were combined into a mixed pool (eight pooled samples in total) and then separated into 30 fractions. Each fraction was analyzed using four types of mass spectrometers in data-dependent acquisition (DDA) mode. DDA raw files (n = 240) from each mass spectrometer were searched and used to construct spectral libraries. The statistical information for the four established libraries is provided in the accompanying sheet.