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Common Repository of FBS Proteins (cRFP) To Be Added to a Search Database for Mass Spectrometric Analysis of Cell Secretome.
Shin, Jihye; Kwon, Yumi; Lee, Seonjeong; Na, Seungjin; Hong, Eun Young; Ju, Shinyeong; Jung, Hyun-Gyo; Kaushal, Prashant; Shin, Sungho; Back, Ji Hyun; Choi, Seon Young; Kim, Eun Hee; Lee, Su Jin; Park, Yae Eun; Ahn, Hee-Sung; Ahn, Younghee; Kabir, Mohammad Humayun; Park, Seong-Jun; Yang, Won Suk; Yeom, Jeonghun; Bang, Oh Young; Ha, Chul-Won; Lee, Jin-Won; Kang, Un-Beom; Kim, Hye-Jung; Park, Kang-Sik; Lee, J Eugene; Lee, Ji Eun; Kim, Jin Young; Kim, Kwang Pyo; Kim, Youngsoo; Hirano, Hisashi; Yi, Eugene C; Cho, Je-Yoel; Paek, Eunok; Lee, Cheolju.
Affiliation
  • Shin J; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Kwon Y; Advanced Medical Research Center , Yokohama City University , Kanazawa , Yokohama 236-0004 , Japan.
  • Lee S; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Na S; Department of Life Science and Research Institute for Natural Sciences , Hanyang University , Seoul 04763 , Korea.
  • Hong EY; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Ju S; Division of Bio-Medical Science & Technology, KIST School , Korea University of Science and Technology , Seoul 02792 , Korea.
  • Jung HG; Department of Computer Science , Hanyang University , Seoul 04763 , Korea.
  • Kaushal P; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Shin S; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Back JH; Department of Life Science and Research Institute for Natural Sciences , Hanyang University , Seoul 04763 , Korea.
  • Choi SY; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Kim EH; Division of Bio-Medical Science & Technology, KIST School , Korea University of Science and Technology , Seoul 02792 , Korea.
  • Lee SJ; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Park YE; Division of Bio-Medical Science & Technology, KIST School , Korea University of Science and Technology , Seoul 02792 , Korea.
  • Ahn HS; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Ahn Y; KHU-KIST Department of Converging Science and Technology , Kyung Hee University , Seoul 02447 , Korea.
  • Kabir MH; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Park SJ; Department of Biotechnology, College of Life Sciences and Biotechnology , Korea University , Seoul 02841 , Korea.
  • Yang WS; Department of Health Sciences and Technology, SAIHST , Sungkyunkwan University , Seoul 06351 , Korea.
  • Yeom J; Stem Cell & Regenerative Medicine Institute , Samsung Medical Center , Seoul 06351 , Korea.
  • Bang OY; Stem Cell & Regenerative Medicine Institute , Samsung Medical Center , Seoul 06351 , Korea.
  • Ha CW; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Lee JW; Department of Life Science, College of Natural Sciences , Ewha Womans University , Seoul 03760 , Korea.
  • Kang UB; Center for Theragnosis, Korea Institute of Science and Technology , Seoul 02792 , Korea.
  • Kim HJ; Department of Biochemistry, College of Life Science and Biotechnology , Yonsei University , Seoul 03722 , Korea.
  • Park KS; Asan Institute for Life Sciences , Asan Medical Center , Seoul 05505 , Korea.
  • Lee JE; Departments of Pediatrics, Clinical Neurosciences, Physiology & Pharmacology, Alberta Children's Hospital Research Institute, Cumming School of Medicine , University of Calgary , Calgary , Alberta T2N 1N4 , Canada.
  • Lee JE; Incepta Vaccine Limited , Dhamrai , Kalampur 1351 , Dhaka , Bangladesh.
  • Kim JY; RetiMark Co. Ltd. , Seoul 04385 , Korea.
  • Kim KP; R&D Center for Clinical Mass Spectrometry , Seegene Medical Foundation , Seoul 04805 , Korea.
  • Kim Y; Toxicological Laboratory, Department of Emergency Medicine , Asan Medical Center , Seoul 05505 , Korea.
  • Hirano H; Departments of Neurology, Samsung Medical Center , Sungkyunkwan University , Seoul 06351 , Korea.
  • Yi EC; Department of Health Sciences and Technology, SAIHST , Sungkyunkwan University , Seoul 06351 , Korea.
  • Cho JY; Stem Cell & Regenerative Medicine Institute , Samsung Medical Center , Seoul 06351 , Korea.
  • Paek E; Department of Orthopedic Surgery, Samsung Medical Center , Sungkyunkwan University School of Medicine , Seoul 06351 , Korea.
  • Lee C; Department of Life Science and Research Institute for Natural Sciences , Hanyang University , Seoul 04763 , Korea.
J Proteome Res ; 18(10): 3800-3806, 2019 10 04.
Article in En | MEDLINE | ID: mdl-31475827
ABSTRACT
We propose to use cRFP (common Repository of FBS Proteins) in the MS (mass spectrometry) raw data search of cell secretomes. cRFP is a small supplementary sequence list of highly abundant fetal bovine serum proteins added to the reference database in use. The aim behind using cRFP is to prevent the contaminant FBS proteins from being misidentified as other proteins in the reference database, just as we would use cRAP (common Repository of Adventitious Proteins) to prevent contaminant proteins present either by accident or through unavoidable contacts from being misidentified as other proteins. We expect it to be widely used in experiments where the proteins are obtained from serum-free media after thorough washing of the cells, or from a complex media such as SILAC, or from extracellular vesicles directly.
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Cells, Cultured / Proteome / Proteomics / Serum Limits: Animals / Humans Language: En Journal: J Proteome Res Journal subject: BIOQUIMICA Year: 2019 Type: Article
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Cells, Cultured / Proteome / Proteomics / Serum Limits: Animals / Humans Language: En Journal: J Proteome Res Journal subject: BIOQUIMICA Year: 2019 Type: Article