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With the accelerating development of science and technology, the academic papers being published in various fields are increasing rapidly. Academic papers specially in science and technology fields are a crucial media for researchers who develop new technologies by identifying knowledge regarding the latest technological trends and conduct derivative studies in science and technology. Therefore, the continual collection of extensive academic papers, structuring of metadata, and construction of databases are significant tasks. However, research on automatic metadata extraction from Korean papers is not being actively conducted currently owing to insufficient Korean training data. We automatically constructed the largest labeled corpus in South Korea to date from 315,320 PDF papers belonging to 503 Korean academic journals and this labeled corpus can be used for training the models of automatic extraction for 12 metadata types from PDF papers. This labeled corpus is available at https://doi.org/10.23057/48. Moreover, we developed inspection process and guidelines for the automatically constructed data and performed a full inspection of the validation and testing data. The reliability of the inspected data was verified through the inter-annotator agreement measurement. Using our corpus, we trained and evaluated the BERT based transfer learning model to verify its reliability. Furthermore, we proposed new training methods that can improve the metadata extraction performance of Korean papers, and through these methods, we developed KorSciBERT-ME-J and KorSciBERT-ME-J+C models. The KorSciBERT-ME-J showed the highest performance with an F1 score of 99.36%, as well as robust performance in automatic metadata extraction from Korean academic papers in various formats.