探花精选

Amir Ata Saei

Amir Ata Saei

Assistant Professor
Visiting address: Solnav盲gen 9, Biomedicum, 17165 Solna
Postal address: C1 Mikrobiologi, tum枚r- och cellbiologi, C1 CTMR Engstrand Saei Dibavar, 171 77 Stockholm

About me

  • I am an assistant professor at the Department of Microbiology, Tumor and Cell Biology at 探花精选. Previously junior group leader (SNSF Ambizione Fellow) with Michael N. Hall's Lab at Biozentrum (University of Basel), Switzerland. Alumnus of the Zubarev Lab at 探花精选 and the Gygi Lab at Harvard Medical School.

    We have developed unique proteomics tools to study 鈥metabolite-protein鈥 and 鈥host-pathogen鈥 interactions in health and disease. Being a hallmark of cancer, dysregulated cellular metabolism has been/is a viable target for developing anticancer therapeutics. We aim to identify metabolic vulnerabilities in cancer and to develop therapeutic strategies, with a special focus on colon and liver cancers. As a hobby, we also continue developing proteomics techniques to answer questions of bio探花精选 importance. 

  •  

  • Read more about our research at SaeiLab.com

    Education
    2014 - 2019: Ph.D. in Medical Science with Prof. Roman A. Zubarev (supervisor) and Prof. Thomas Helleday (co-supervisor) from Department of Medical Biochemistry and Biophysics, Karolinska Institute. Thesis: Molecular Mechanisms and Targets of New Anticancer Treatments

    2015: Research School for Drug Discovery and Development, SciLifeLab, Sweden

    2004 - 2010: Doctorate of Pharmacy from Tabriz University of Medical Sciences



    Academic Appointments

    2024 - present: Assistant Professor at the Department of Microbiology, Cell and Tumor Biology, 探花精选, Stockholm, Sweden

    2023 - present: Junior Group Leader (Swiss National Science Foundation Ambizione Fellow) at Biozentrum, University of Basel, Switzerland

    2022 - 2023: Postdoctoral fellow at Michael N. Hall's Lab at Biozentrum, University of Basel, Switzerland

    2020 - 2022: Postdoctoral fellow at Steven P. Gygi's Lab at Department of Cell Biology, Harvard Medical School, Boston, USA

    2019 - 2020: Postdoctoral fellow at Roman A. Zubarev's Lab at Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, Sweden



    Academic grants, honors and awards

     

  • 2024: Cancerfonden Project Grant

     

  • 2024: 探花精选 Research Incubator Fellowship

    2024: Magnus Bergvalls Stiftelse

    2023: Jeanssons Stiftelser

    2023: 脜ke Wibergs Stiftelse

    2023: Swedish Research Council Starting Grant within Medicine and Health (6M SEK)

    2023: Ambizione Fellowship from Swiss National Science Foundation (11.6M SEK)

    2023: Ruth och Richard Julins stiftelse

    2023: Alex och Eva Wallstro虉ms stiftelse

     

  • 2022: 探花精选 Faculty Funded Assistant Professorship (7M SEK)

     

  • 2022-2023: 探花精选 Research Foundation Grant 



  • 2021: SLS Stiftelsen Albert Nilssons Forskningsfond Grant

     

  • 2020-2023: Swedish Research Council International Postdoctoral Fellowship (3, 15M SEK)

    2020: Karolinska Institute Research Grant

    2020: Loo and Hans Ostermans Foundation Research Grant

    2019: Thermo Scientific Tandem Mass Tag Gold Award

    2019: CancerFonden Research Grant (co-applicant)

Research

  • We use novel tools in mass spectrometry-based proteomics, biochemistry, systems biology and data-driven approaches to study cancer metabolism. We are mainly focused on colon cancer at the intersection of cancer cell metabolism, dietary nutrients and the microbiome. The ultimate aim is to develop novel drugs and therapeutic modalities against colon cancer and other metabolic disorders.

    Main publications:

     

  • 15. Ashkarran AA, Gharibi H, Sadeghi SA, Modaresi SM, Wang Q, Lin TJ, Yerima G, Tamadon A, Sayadi M, Jafari M, Lin Z, Ritz D, Khakhniashvili D, Guha A, Mofrad MRK, Sun L, Landry MP, Saei AA*, Mahmoudi AA*. 

  • Small molecule modulation of protein corona for deep plasma proteome profiling. Nature Communications [corresponding author].

    14. Gharibi H, Ashkarran AA, Jafari M, Voke E, Landry MP, Saei AA*, Mahmoudi M*. A uniform data processing pipeline enables harmonized nanoparticle protein corona analysis across proteomics core facilities. Nature Communications [corresponding author].

    13. Saei AA*, Lundin A, Lyu H, Gharibi H, Luo H, Teppo j, Zhang X, Gaetani M, V茅gv谩ri 脕, Holmdahl R, Gygi SP, Zubarev RA*. 2023. Multifaceted proteome analysis at solubility, redox, and expression dimensions for target identification. Advanced Science [corresponding author].

    12. Ashkarran AA, Gharibi H, Abou Zeki D, Radu I, Khalighinejad F, Keyhanian K, Abrahamsson KK, Ionete C, Saei AA*, Morteza Mahmoudi*. 2023. Multi-Omics Analysis of Magnetically Levitated Plasma Biomolecules. Biosensors and Bioelectronics, 114862 [corresponding author].

    11. Saei AA, Gharibi H et al. 2023. Massive solubility changes of neuronal proteins upon simulated traumatic brain injury reveal the role of shockwave in irreversible damage. Molecules 28, 6768.

    10. Saei AA*, Lundstr枚m SL, Lyu H, Gharibi H, Lu W, Fang P, Zhang X, Meng Z, Wang J, Gaetani M, V茅gv谩ri 脕, Gygi SP, Zubarev RA*. 2022. Mapping the GALNT1 substrate landscape with versatile proteomics tools. BioRxiv [corresponding author].

    9. Nickchi P, Mirzaie M, Baumann M, Saei AA*, Jafari M*. 2022. Monitoring Functional Post-Translational Modifications Using a Data-Driven Proteome Informatic Pipeline Based on PEIMAN2. BioRxiv [corresponding author].

    8. Ashkarran AA, Gharibi H, Voke E, Landry MP, Saei AA*, Mahmoudi M*. 2022. Measurements of heterogeneity in proteomics analysis of the nanoparticle protein corona across core facilities. Nature Communications. 6610 [corresponding author].

    7. Gharibi H, Chernobrovkin A, Eriksson G, Saei AA et al. 2022. Abnormal (Hydroxy)proline Deuterium Content Redefines Hydrogen Chemical Mass. Journal of the American Chemical Society 144, 6, 2484鈥2487 (covered in Science journal commentary).

    6. Sabatier P, Beusch CM, Saei AA et al. 2021. An integrative proteomics method identifies a regulator of translation during stem cell maintenance and differentiation. Nature Communications 12: 6558.

    5. Saei AA* at el. 2021. System-wide Identification and prioritization of Enzyme Substrates by Thermal Analysis (SIESTA). Nature Communications 12, 1296 [co-corresponding author]. featured in Editor鈥檚 highlights on structural biology, biochemistry and biophysics]

    4. Saei AA et al. 2020. Comprehensive chemical proteomics in target deconvolution of redox active drug auranofin. Redox Biology 32, 101491.

    3. Saei AA et al. 2019. ProTargetMiner: A proteome signature library of anticancer molecules for functional discovery. Nature Communications 10, 5715.

    2. Gaetani M搂, Sabatier P搂, Saei AA搂, et al. 2019. Proteome Integral Solubility Alteration (PISA): a high-throughput proteomics assay for target deconvolution. Journal of Proteome Research 18, 11, 4027鈥4037.

    1. Saei AA et al. 2018. Comparative proteomics of dying and surviving cancer cells improves the identification of drug targets and sheds light on cell life/death decisions. Molecular and Cellular Proteomics 17, 6, 1144-1155.

Teaching

  • Teaching proteomics, tumor biology, cancer metabolism, microbiome-related courses, cell biology and chemistry across four departments at 探花精选

Articles

  • Article: BIORXIV. 2024;:2024.03.06.582595
    Ashkarran AA; Gharibi H; Sadeghi SA; Modaresi SM; Wang Q; Lin T-J; Yerima G; Tamadon A; Sayadi M; Jafari M; Lin Z; Ritz D; Kakhniashvili D; Guha A; Mofrad MRK; Sun L; Landry MP; Saei AA; Mahmoudi M
  • Journal article: ANALYTICAL CHEMISTRY. 2024;96(33):13533-13541
    Meng Z; Saei AA; Gharibi H; Zhang X; Lyu H; Lundstrom SL; Vegvari A; Gaetani M; Zubarev RA
  • Journal article: NANO LETTERS. 2024;24(32):9874-9881
    Ashkarran AA; Gharibi H; Modaresi SM; Saei AA; Mahmoudi M
  • Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2024;35(5):902-911
    Lyutvinskiy Y; Nagornov KO; Kozhinov AN; Gasilova N; Menin L; Meng Z; Zhang X; Saei AA; Fu T; Chamot-Rooke J; Tsybin YO; Makarov A; Zubarev RA
  • Article: ACS PHARMACOLOGY AND TRANSLATIONAL SCIENCE. 2024;7(3):787-796
    Lobas AA; Saei AA; Lyu H; Zubarev RA; Gorshkov MV
  • Article: ANGEWANDTE CHEMIE INTERNATIONAL EDITION. 2024;63(3):e202316488
    Zhang X; Meng Z; Beusch CM; Gharibi H; Cheng Q; Lyu H; Di Stefano L; Wang J; Saei AA; Vegvari A; Gaetani M; Zubarev RA
  • Article: NATURE COMMUNICATIONS. 2024;15(1):342
    Gharibi H; Ashkarran AA; Jafari M; Voke E; Landry MP; Saei AA; Mahmoudi M
  • Article: MOLECULES. 2023;28(19):6768
    Saei AA; Gharibi H; Lyu H; Nilsson B; Jafari M; Von Holst H; Zubarev RA
  • Article: JCI INSIGHT. 2023;8(7):e164875
    Luo H; Urbonaviciute V; Saei AA; Lyu H; Gaetani M; Vegvari A; Li Y; Zubarev RA; Holmdahl R
  • Article: ACS BIO & MED CHEM AU. 2023;3(1):62-73
    Ashkarran AA; Gharibi H; Grunberger JW; Saei AA; Khurana N; Mohammadpour R; Ghandehari H; Mahmoudi M
  • Article: BIOSENSORS AND BIOELECTRONICS. 2023;220:114862
    Ashkarran AA; Gharibi H; Abou Zeki D; Radu I; Khalighinejad F; Keyhanian K; Abrahamsson CK; Ionete C; Saei AA; Mahmoudi M
  • Article: NATURE COMMUNICATIONS. 2022;13(1):6610
    Ashkarran AA; Gharibi H; Voke E; Landry MP; Saei AA; Mahmoudi M
  • Article: ANALYTICAL CHEMISTRY. 2022;94(43):15048-15056
    Gharibi H; Chernobrovkin AL; Saei AA; Zhang X; Gaetani M; Makarov AA; Zubarev RA
  • Article: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. 2022;23(15):8371
    Wang J; Rodin S; Saei AA; Zhang X; Zubarev RA
  • Article: ACS APPLIED BIO MATERIALS. 2022;5(6):2643-2663
    Sharifi S; Saei AA; Gharibi H; Mahmoud NN; Harkins S; Dararatana N; Lisabeth EM; Serpooshan V; Vegvari A; Moore A; Mahmoudi M
  • Article: ELIFE. 2022;11:e74549
    James J; Chen Y; Hernandez CM; Forster F; Dagnell M; Cheng Q; Saei AA; Gharibi H; Lahore GF; astrand A; Malhotra R; Malissen B; Zubarev RA; Arner ESJ; Holmdahl R
  • Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 2022;144(6):2484-2487
    Gharibi H; Chernobrovkin AL; Eriksson G; Saei AA; Timmons Z; Kitchener AC; Kalthoff DC; Liden K; Makarov AA; Zubarev RA
  • Article: NATURE COMMUNICATIONS. 2021;12(1):6558
    Sabatier P; Beusch CM; Saei AA; Aoun M; Moruzzi N; Coelho A; Leijten N; Nordenskjold M; Micke P; Maltseva D; Tonevitsky AG; Millischer V; Villaescusa JC; Kadekar S; Gaetani M; Altynbekova K; Kel A; Berggren P-O; Simonson O; Grinnemo K-H; Holmdahl R; Rodin S; Zubarev RA
  • Article: IRANIAN JOURNAL OF KIDNEY DISEASES. 2021;15(2):121-133
    Ghasemi M; Kalantari S; Zubarev RA; Nafar M; Saei AA; Heidari S-S; Baghestani AR; Samavat S
  • Article: NATURE COMMUNICATIONS. 2021;12(1):1296
    Saei AA; Beusch CM; Sabatier P; Wells JA; Gharibi H; Meng Z; Chernobrovkin A; Rodin S; Nareoja K; Thorsell A-G; Karlberg T; Cheng Q; Lundstrom SL; Gaetani M; Vegvari A; Arner ESJ; Schuler H; Zubarev RA
  • Article: BIOINTERPHASES. 2021;16(1):011008
    Muehe A; Nejadnik H; Muehe H; Rosenberg J; Gharibi H; Saei AA; Lyu S-C; Nadeau KC; Mahmoudi M; Daldrup-Link HE
  • Article: JOURNAL OF PROTEOME RESEARCH. 2020;19(11):4364-4373
    Saei AA; Sharifi S; Mahmoudi M
  • Article: REDOX BIOLOGY. 2020;32:101491
    Saei AA; Gullberg H; Sabatier P; Beusch CM; Johansson K; Lundgren B; Arvidsson PI; Arner ESJ; Zubarev RA
  • Article: CANCER RESEARCH. 2020;80(7):1538-1550
    Peuget S; Zhu J; Sanz G; Singh M; Gaetani M; Chen X; Shi Y; Saei AA; Visnes T; Lindstrom MS; Rihani A; Moyano-Galceran L; Carlson JW; Hjerpe E; Joneborg U; Lehti K; Hartman J; Helleday T; Zubarev R; Selivanova G
  • Article: IMMUNOLOGY. 2020;159(1):96-108
    Mehdipour T; Tohidkia MR; Saei AA; Kazemi A; Khajeh S; Rahimi AAR; Nikfarjam S; Farhadi M; Halimi M; Soleimani R; Zubarev RA; Nouri M
  • Article: NATURE COMMUNICATIONS. 2019;10(1):5715
    Saei AA; Beusch CM; Chernobrovkin A; Sabatier P; Zhang B; Tokat UG; Stergiou E; Gaetani M; Vegvari A; Zubarev RA
  • Article: JOURNAL OF PROTEOME RESEARCH. 2019;18(11):4027-4037
    Gaetani M; Sabatier P; Saei AA; Beusch CM; Yang Z; Lundstrom SL; Zubarev RA
  • Article: BIOCHIMIE. 2019;162:46-54
    Zhang X; Selvaraju K; Saei AA; D'Arcy P; Zubarev RA; Arner ESJ; Linder S
  • Article: OXIDATIVE MEDICINE AND CELLULAR LONGEVITY. 2019;2019:1659468-11
    Zhang X; Espinosa B; Saei AA; D'Arcy P; Zubarev RA; Linder S
  • Article: CANCER LETTERS. 2019;448:70-83
    Hillert E-K; Brnjic S; Zhang X; Mazurkiewicz M; Saei AA; Mofers A; Selvaraj K; Zubarev R; Linder S; D'Arcy P
  • Article: PROTEOMICS. 2018;18(24):e1800118
    Sabatier P; Saei AA; Wang S; Zubarev RA
  • Article: BIOCHEMICAL PHARMACOLOGY. 2018;156:291-301
    Zhang X; Pellegrini P; Saei AA; Hillert E-K; Mazurkiewicz M; Olofsson MH; Zubarev RA; D'Arcy P; Linder S
  • Article: SCIENTIFIC REPORTS. 2018;8(1):12557
    Kharazian B; Lohse SE; Ghasemi F; Raoufi M; Saei AA; Hashemi F; Farvadi F; Alimohamadi R; Jalali SA; Shokrgozar MA; Hadipour NL; Ejtehadi MR; Mahmoudi M
  • Article: JOURNAL OF DRUG DELIVERY SCIENCE AND TECHNOLOGY. 2018;46:268-273
    Dolatabadi JEN; Azami A; Mohammadi A; Hamishehkar H; Panahi-Azar V; Saadat YR; Saei AA
  • Article: MOLECULAR & CELLULAR PROTEOMICS. 2018;17(6):1144-1155
    Saei AA; Sabatier P; Tokat UG; Chernobrovkin A; Pirmoradian M; Zubarev RA
  • Article: DRUG DEVELOPMENT AND INDUSTRIAL PHARMACY. 2017;43(8):1244-1253
    Bakhtiary Z; Barar J; Aghanejad A; Saei AA; Nemati E; Dolatabadi JEN; Omidi Y
  • Article: COLLOIDS AND SURFACES B: BIOINTERFACES. 2016;143:224-232
    Azhdarzadeh M; Atyabi F; Saei AA; Varnamkhasti BS; Omidi Y; Fateh M; Ghavami M; Shanehsazzadeh S; Dinarvand R
  • Article: CURRENT ORGANIC CHEMISTRY. 2015;19(11):982-990
    Rahman M; Saei AA; Amiri H; Mahmoudi M
  • Article: APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY. 2014;174(2):667-681
    Ghanbari P; Mohseni M; Tabasinezhad M; Yousefi B; Saei AA; Sharifi S; Rashidi MR; Samadi N
  • Article: JOURNAL OF NANOPARTICLE RESEARCH. 2014;16(8):2521
    Saei AA; Barzegari A; Majd MH; Asgari D; Omidi Y
  • Article: FEMS MICROBIOLOGY LETTERS. 2013;348(1):74-78
    Shanehbandi D; Saei AA; Zarredar H; Barzegari A
  • Article: JOURNAL OF MEDICINAL FOOD. 2013;16(2):147-154
    Mohammadshahi M; Haidari F; Saei AA; Rashidi B; Mahboob S; Rashidi M-R
  • Article: TRAC. TRENDS IN ANALYTICAL CHEMISTRY. 2013;42:216-227
    Saei AA; Najafi-Marandi P; Abhari A; de la Guardia M; Dolatabadi JEN
  • Article: MOLECULAR BIOLOGY REPORTS. 2012;39(11):9931-9939
    Saei AA; Ghanbari P; Barzegari A
  • Article: FUTURE MICROBIOLOGY. 2012;7(9):1037-1046
    Saei AA; Barzegari A
  • Article: BIOLOGICAL TRACE ELEMENT RESEARCH. 2012;147(1-3):217-225
    Ghaffari T; Nouri M; Saei AA; Rashidi M-R
  • Article: FUTURE MICROBIOLOGY. 2012;7(5):571-575
    Barzegari A; Saei AA
  • Article: BIOIMPACTS. 2011;1(3):161-170
    Mohammad-Shahi M; Haidari F; Rashidi B; Saei AA; Mahboob S; Rashidi M-R
  • Article: JOURNAL OF VISUALIZED EXPERIMENTS. 2009;(26):1191
    Ahmadian S; Barar J; Saei AA; Fakhree MAA; Omidi Y
  • Article: DIE PHARMAZIE. 2008;63(2):113-121
    Jouyban A; Fakhree MAA; Ghafourian T; Saei AA; Acree WEJ
  • Article: JOURNAL OF DRUG DELIVERY SCIENCE AND TECHNOLOGY. 2008;18(2):149-151
    Saei AA; Jabbaribar F; Fakhree MAA; Acree WEJ; Jouyban A
  • Show more

All other publications

  • Editorial comment: NANOMEDICINE. 2024;19(14):1223-1226
    Saei AA; Mahmoudi M
  • Preprint: BIORXIV. 2023
    Saei AA; Lundin A; Lyu H; Gharibi H; Luo H; Teppo J; Zhang X; Gaetani M; V茅gv谩ri 脕; Holmdahl R; Gygi S; Zubarev R
  • Preprint: BIORXIV. 2022
    Nickchi P; Mirzaie M; Baumann M; Saei AA; Jafari M
  • Review: CRITICAL REVIEWS IN ANALYTICAL CHEMISTRY. 2022;52(7):1461-1487
    Khoubnasabjafari M; Mogaddam MRA; Rahimpour E; Soleymani J; Saei AA; Jouyban A
  • Preprint: BIORXIV. 2022
    Saei AA; Lundstr枚m S; Lyu H; Gharibi H; Lu W; Fang P; Zhang X; Meng Z; Wang J; Gaetani M; V茅gv谩ri 脕; Gygi S; Zubarev R
  • Preprint: RESEARCH SQUARE. 2021
    Zhang X; Meng Z; Beusch C; Gharibi H; Cheng Q; Stefano L; Wang J; Saei A; Vegvari A; Gaetani M; Zubarev R
  • Review: ADVANCED SCIENCE. 2021;8(21):e2100556
    Hajipour MJ; Saei AA; Walker ED; Conley B; Omidi Y; Lee K-B; Mahmoudi M
  • Preprint: RESEARCH SQUARE. 2021
    Saei AA; Beusch C; Sabatier P; Wells JA; Gharibi H; Meng Z; Chernobrovkin A; Rodin S; N盲reoja K; Thorsell A-G; Karlberg T; Cheng Q; Lundstr枚m S; Gaetani M; V茅gv谩ri 脕; Arn茅r ESJ; Sch眉ler H; Zubarev R
  • Review: JOURNAL OF DRUG TARGETING. 2020;28(10):1018-1033
    Kafil V; Saei AA; Tohidkia MR; Barar J; Omidi Y
  • Review: DNA REPAIR. 2019;80:59-84
    Mirza-Aghazadeh-Attari M; Ostadian C; Saei AA; Mihanfar A; Darband SG; Sadighparvar S; Kaviani M; Kafil HS; Yousefi B; Majidinia M
  • Review: DNA REPAIR. 2019;80:8-15
    Mohammadzadeh A; Mirza-Aghazadeh-Attari M; Hallaj S; Saei AA; Alivand MR; Valizadeh A; Yousefi B; Majidinia M
  • Thesis / dissertation: 2019
    Saei Dibavar, Amirata
  • Review: CHEMISTRY OF MATERIALS. 2017;29(16):6578-6595
    Saei AA; Yazdani M; Lohse SE; Bakhtiary Z; Serpooshan V; Ghavami M; Asadian M; Mashaghi S; Dreaden EC; Mashaghi A; Mahmoudi M
  • Review: NANOMEDICINE: NANOTECHNOLOGY, BIOLOGY, AND MEDICINE. 2016;12(2):287-307
    Bakhtiary Z; Saei AA; Hajipour MJ; Raoufi M; Vermesh O; Mahmoudi M
  • Review: TRENDS IN BIOTECHNOLOGY. 2015;33(12):735-746
    Esfandiari F; Mashinchian O; Ashtiani MK; Ghanian MH; Hayashi K; Saei AA; Mahmoudi M; Baharvand H
  • Review: CONTRAST MEDIA & MOLECULAR IMAGING. 2015;10(5):329-355
    Sharifi S; Seyednejad H; Laurent S; Atyabi F; Saei AA; Mahmoudi M
  • Review: NANOMEDICINE. 2015;10(18):2931-2952
    Azhdarzadeh M; Saei AA; Sharifi S; Hajipour MJ; Alkilany AM; Sharifzadeh M; Ramazani F; Laurent S; Mashaghi A; Mahmoudi M
  • Review: EXPERT OPINION ON DRUG DELIVERY. 2014;11(9):1449-1470
    Laurent S; Saei AA; Behzadi S; Panahifar A; Mahmoudi M
  • Review: FUTURE MICROBIOLOGY. 2014;9(5):639-656
    Barzegari A; Saeedi N; Saei AA
  • Review: JOURNAL OF CANCER RESEARCH AND THERAPEUTICS. 2013;9(4):556-563
    Tabasinezhad M; Samadi N; Ghanbari P; Mohseni M; Saei AA; Sharifi S; Saeedi N; Pourhassan A

Employments

  • Junior Group Leader, Biozentrum, University of Basel, 2023-
  • Assistant Professor, Department of Microbiology, Tumor and Cell Biology, 探花精选, 2024-2029

Degrees and Education

  • Degree Of Doctor Of Philosophy, Department of Medical Biochemistry and Biophysics, 探花精选, 2019

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