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However, MSCs from different sources exhibit only 60% similarity of proteins they secrete, suggesting that unique proteins may offer distinct therapeutic properties based on their origin. Amniotic fluid-derived MSCs (AFSCs) are promising for treating degenerative diseases and are unique in providing sufficient cells for fetal therapies. Nevertheless, their proteomic profiles remain largely undefined. This study investigated the proteomic profiles of bioactive molecules secreted by AFSCs (AFSC-se) using liquid chromatography and mass spectrometry, along with bioinformatics tools for protein function analysis. We identified over 2000 proteins in the AFSC-se that are involved in various mechanisms supporting organ development and function. The top three proteins identified were associated with organelle fusion, forebrain morphogenesis, and response to parathyroid hormone. Our findings indicate that AFSC-se has the ability to inhibit inflammation and apoptosis, which corresponds to 7.8% of the identified proteins involved in pathways related to these therapeutic effects. Furthermore, we discovered that 20% of identified proteins are associated with brain functions including synaptogenesis, neurogenesis, and neuroprotection. In conclusion, the proteomic profile of AFSC-se indicates its potential therapeutic effects. The significant presence of neuro-related proteins in AFSC-se suggests that AFSC-se may be a promising candidate for treating neurological diseases. Our work addresses existing knowledge gaps in this field.<\/jats:p>","DOI":"10.1007\/s00441-025-03984-0","type":"journal-article","created":{"date-parts":[[2025,6,6]],"date-time":"2025-06-06T22:04:45Z","timestamp":1749247485000},"page":"275-286","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Proteomic analysis of secreted proteins derived from amniotic fluid stem cells"],"prefix":"10.1007","volume":"401","author":[{"given":"Tatsanee","family":"Phermthai","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Puttachart","family":"Chuaynarong","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Suparat","family":"Wichitwiengrat","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kamonpat","family":"Phermthai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sittiruk","family":"Roytrakul","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thanuch","family":"Chitthira","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sasiprapa","family":"Thongbopit","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,6,7]]},"reference":[{"key":"3984_CR1","first-page":"965","volume":"38","author":"Y Abe","year":"2023","unstructured":"Abe Y, Sato Y, Tanaka M, Ochiai D (2023) Development of a new treatment for preterm birth complications using amniotic fluid stem cell therapy. 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