Chuna Ram Choudhary

Chuna Ram Choudhary

Professor, Group Leader, Professor

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    ORCID: 0000-0002-9863-433X

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    1. Published

      Paradoxical resistance of multiple myeloma to proteasome inhibitors by decreased levels of 19S proteasomal subunits

      Acosta-Alvear, D., Cho, M. Y., Wild, T., Buchholz, T. J., Lerner, A. G., Simakova, O., Hahn, J., Korde, N., Landgren, O., Maric, I., Choudhary, Chunaram, Walter, P., Weissman, J. S. & Kampmann, M., 1 Sep 2015, In: eLife. 4, p. 1-19 e08153.

      Research output: Contribution to journal › Journal article › Research › peer-review

    2. Published

      TOBF1 modulates mouse embryonic stem cell fate through regulating alternative splicing of pluripotency genes

      Aich, M., Ansari, A. H., Ding, Li, Iesmantavicius, V., Paul, D., Choudhary, Chunaram, Maiti, S., Buchholz, F. & Chakraborty, D., 2023, In: Cell Reports. 42, 10, 22 p., 113177.

      Research output: Contribution to journal › Journal article › Research › peer-review

    3. Published

      Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response

      Beli, P., Lukashchuk, N., Wagner, S. A., Weinert, B. T., Olsen, Jesper Velgaard, Baskcomb, L., Mann, Matthias, Jackson, S. P. & Choudhary, Chunaram, 2012, In: Molecular Cell. 46, 2, p. 212-25 14 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    4. Published

      A quantitative 14-3-3 interaction screen connects the nuclear exosome targeting complex to the DNA damage response

      Blasius, M., Wagner, S. A., Choudhary, Chunaram, Bartek, J. & Jackson, S. P., 4 Sep 2014, In: Genes & Development. 28, 18, p. 1977-1982 6 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    5. Published

      A phospho-proteomic screen identifies substrates of the checkpoint kinase Chk1

      Blasius, M., Forment, J. V., Thakkar, N., Wagner, S. A., Choudhary, Chunaram & Jackson, S. P., 2011, In: Genome Biology (Online Edition). 12, 8, p. R78

      Research output: Contribution to journal › Journal article › Research › peer-review

    6. Published

      p38-MK2 signaling axis regulates RNA metabolism after UV-light-induced DNA damage

      Borisova, M. E., Voigt, A., Tollenaere, M. A. X., Sahu, S. K., Juretschke, T., Kreim, N., Mailand, Niels, Choudhary, Chunaram, Bekker-Jensen, Simon Holst, Akutsu, M., Wagner, S. A. & Beli, P., 1 Dec 2018, In: Nature Communications. 9, p. 1-16 16 p., 1017.

      Research output: Contribution to journal › Journal article › Research › peer-review

    7. Published

      Proteome-wide analysis of SUMO2 targets in response to pathological DNA replication stress in human cells

      Bursomanno, S., Beli, P., Khan, A. M., Minocherhomji, S., Wagner, S. A., Bekker-Jensen, Simon Holst, Mailand, Niels, Choudhary, Chunaram, Hickson, Ian David & Liu, Ying, Jan 2015, In: DNA Repair. 25, p. 84-96 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    8. Published

      STK3 is a therapeutic target for a subset of acute myeloid leukemias

      Camgoz, A., Paszkowski-Rogacz, M., Satpathy, S., Wermke, M., Hamann, M. V., von Bonin, M., Choudhary, Chunaram, Knapp, S. & Buchholz, F., 2018, In: OncoTarget. 9, 39, p. 25458-25473 16 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    9. Published

      lncRNA Panct1 Maintains Mouse Embryonic Stem Cell Identity by Regulating TOBF1 Recruitment to Oct-Sox Sequences in Early G1

      Chakraborty, D., Paszkowski-Rogacz, M., Berger, N., Ding, L., Mircetic, J., Fu, J., Iesmantavicius, V., Choudhary, Chunaram, Anastassiadis, K., Stewart, A. F. & Buchholz, F., 12 Dec 2017, In: Cell Reports. 21, 11, p. 3012-3021 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    10. Published

      Lysine acetylation targets protein complexes and co-regulates major cellular functions

      Choudhary, Chunaram, Kumar, C., Gnad, F., Nielsen, Michael Lund, Rehman, M., Walther, T. C., Olsen, Jesper Velgaard & Mann, Matthias, 2009, In: Science. 325, 5942, p. 834-40 6 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    11. Published

      Decoding signalling networks by mass spectrometry-based proteomics

      Choudhary, Chunaram & Mann, Matthias, 1 Jun 2010, In: Nature Reviews. Molecular Cell Biology. 11, 6, p. 427-39 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    12. Published

      Mislocalized activation of oncogenic RTKs switches downstream signaling outcomes

      Choudhary, Chunaram, Olsen, Jesper Velgaard, Brandts, C., Cox, J., Reddy, P. N. G., Böhmer, F. D., Gerke, V., Schmidt-Arras, D., Berdel, W. E., Müller-Tidow, C., Mann, Matthias & Serve, H., 2009, In: Molecular Cell. 36, 2, p. 326-39 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    13. Published

      The growing landscape of lysine acetylation links metabolism and cell signalling

      Choudhary, Chunaram, Weinert, B. T., Nishida, Y., Verdin, E. & Mann, Matthias, 23 Jul 2014, In: Nature Reviews. Molecular Cell Biology. 15, 8, p. 536-50 15 p.

      Research output: Contribution to journal › Review › Research › peer-review

    14. Published

      Sequencing of the First Draft of the Human Acetylome

      Choudhary, Chunaram & Mann, Matthias, 2020, In: Clinical Chemistry. 66, 6, p. 852-853 2 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    15. Published

      Proteomic exploration of lysine acetylation signaling

      Choudhary, Chunaram, 2019, In: Molecular & Cellular Proteomics. 18, 8, p. S25 1 p.

      Research output: Contribution to journal › Conference abstract in journal › Research

    16. Published

      Systems Analyses Reveal Shared and Diverse Attributes of Oct4 Regulation in Pluripotent Cells

      Ding, L., Paszkowski-Rogacz, M., Winzi, M., Chakraborty, D., Theis, M., Singh, S., Ciotta, G., Poser, I., Roguev, A., Chu, W. K., Choudhary, Chunaram, Mann, Matthias, Stewart, A. F., Krogan, N. & Buchholz, F., 26 Aug 2015, In: Cell Systems. 1, 2, p. 141-151 11 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    17. Published

      OTULIN Restricts Met1-Linked Ubiquitination to Control Innate Immune Signaling

      Fiil, Berthe Katrine, Damgaard, R. B., Wagner, S. A., Keusekotten, K., Fritsch, M., Bekker-Jensen, Simon Holst, Mailand, Niels, Choudhary, Chunaram, Komander, D. & Gyrd-Hansen, Mads, 27 Jun 2013, In: Molecular Cell. 50, 6, p. 818-30 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    18. Published

      Ubiquitin-SUMO Circuitry Controls Activated Fanconi Anemia ID Complex Dosage in Response to DNA Damage

      Gibbs-Seymour, I., Oka, Y., Rajendra, E., Weinert, B. T., Passmore, L. A., Patel, K. J., Olsen, Jesper Velgaard, Choudhary, Chunaram, Bekker-Jensen, Simon Holst & Mailand, Niels, Jan 2015, In: Molecular Cell. 57, 1, p. 150-64 15 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    19. Published

      Predicting post-translational lysine acetylation using support vector machines

      Gnad, F., Ren, S., Choudhary, Chunaram, Cox, J. & Mann, M., 1 Jul 2010, In: Bioinformatics. 26, 13, p. 1666-8 3 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    20. Published

      DNA Repair Network Analysis Reveals Shieldin as a Key Regulator of NHEJ and PARP Inhibitor Sensitivity

      Gupta, R., Somyajit, K., Narita, Takeo, Maskey, E., Stanlie, A., Kremer, M., Typas, D., Lammers, M., Mailand, Niels, Nussenzweig, A., Lukas, Jiri & Choudhary, Chunaram, 2018, In: Cell. 173, 4, p. 972-988

      Research output: Contribution to journal › Journal article › Research › peer-review

    21. Published

      SIK2 orchestrates actin-dependent host response upon Salmonella infection

      Hahn, M., Covarrubias-Pinto, A., Herhaus, L., Satpathy, S., Klann, K., Boyle, K. B., Münch, C., Rajalingam, K., Randow, F., Choudhary, Chunaram & Dikic, I., 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 19, 10 p., e2024144118.

      Research output: Contribution to journal › Journal article › Research › peer-review

    22. Published

      Analysis of human acetylation stoichiometry defines mechanistic constraints on protein regulation

      Hansen, B. K., Gupta, R., Baldus, L., Lyon, D., Narita, Takeo, Lammers, M., Choudhary, Chunaram & Weinert, B. T., 2019, In: Nature Communications. 10, 11 p., 1055.

      Research output: Contribution to journal › Journal article › Research › peer-review

    23. Published

      Proteome-wide analysis of lysine acetylation suggests its broad regulatory scope in Saccharomyces cerevisiae

      Henriksen, P., Wagner, S. A., Weinert, B. T., Sharma, S., Bacinskaja, G., Rehman, M., Juffer, A. H., Walther, T. C., Lisby, Michael & Choudhary, Chunaram, 2012, In: Molecular & Cellular Proteomics. 11, 11, p. 1510-1522 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    24. Published

      Convergence of Ubiquitylation and Phosphorylation Signaling in Rapamycin-Treated Yeast Cells

      Iesmantavicius, V., Weinert, B. T. & Choudhary, Chunaram, 24 Jun 2014, In: Molecular & Cellular Proteomics. 13, 8, p. 1979-92 14 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    25. Published

      Time-resolved dissection of early phosphoproteome and ensuing proteome changes in response to TGF-β

      J D'Souza, R. C., Knittle, A. M., Nagaraj, N., van Dinther, M., Choudhary, Chunaram, Ten Dijke, P., Mann, Matthias & Sharma, K., Jul 2014, In: Science Signaling. 7, 335, p. rs5 16 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    26. Published

      Specificity and commonality of the phosphoinositide-binding proteome analyzed by quantitative mass spectrometry

      Jungmichel, S., Sylvestersen, K. B., Choudhary, Chunaram, Nguyen, S., Mann, Matthias & Nielsen, Michael Lund, 13 Feb 2014, In: Cell Reports. 6, 3, p. 578-91 14 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    27. Published

      Histone Acetyltransferase MOF Blocks Acquisition of Quiescence in Ground-State ESCs through Activating Fatty Acid Oxidation

      Khoa, L. T. P., Tsan, Y., Mao, F., Kremer, D. M., Sajjakulnukit, P., Zhang, L., Zhou, B., Tong, X., Bhanu, N. V., Choudhary, Chunaram, Garcia, B. A., Yin, L., Smith, G. D., Saunders, T. L., Bielas, S. L., Lyssiotis, C. A. & Dou, Y., 2020, In: Cell Stem Cell. 27, 3, p. 441-458.e10 29 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    28. Identification of a novel activating mutation (Y842C) within the activation loop of FLT3 in patients with acute myeloid leukemia (AML)

      Kindler, T., Breitenbuecher, F., Kasper, S., Estey, E., Giles, F., Feldman, E., Ehninger, G., Schiller, G., Klimek, V., Nimer, S. D., Gratwohl, A., Choudhary, Chunaram, Mueller-Tidow, C., Serve, H., Gschaidmeier, H., Cohen, P. S., Huber, C. & Fischer, T., 2005, In: Blood. 105, 1, p. 335-40 6 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    29. Published

      Discovery of a selective catalytic p300/CBP inhibitor that targets lineage-specific tumours

      Lasko, L. M., Jakob, C. G., Edalji, R. P., Qiu, W., Montgomery, D., Digiammarino, E. L., Hansen, T. M., Risi, R. M., Frey, R., Manaves, V., Shaw, B., Algire, M., Hessler, P., Lam, L. T., Uziel, T., Faivre, E., Ferguson, D., Buchanan, F. G., Martin, R. L., Torrent, M. & 16 others, Chiang, G. G., Karukurichi, K., Langston, J. W., Weinert, B. T., Choudhary, Chunaram, de Vries, P., Van Drie, J. H., McElligott, D., Kesicki, E., Marmorstein, R., Sun, C., Cole, P. A., Rosenberg, S. H., Michaelides, M. R., Lai, A. & Bromberg, K. D., 5 Oct 2017, In: Nature. 550, 7674, p. 128-132 5 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    30. Published

      HDAC6 modulates myofibril stiffness and diastolic function of the heart

      Lin, Y., Major, J. L., Liebner, Tim, Hourani, Z., Travers, J. G., Wennersten, S. A., Haefner, K. R., Cavasin, M. A., Wilson, C. E., Jeong, M. Y., Han, Y., Gotthardt, M., Ferguson, S. K., Ambardekar, A. V., Lam, M. P., Choudhary, Chunaram, Granzier, H. L., Woulfe, K. C. & McKinsey, T. A., 2022, In: Journal of Clinical Investigation. 132, 10, 14 p., e148333.

      Research output: Contribution to journal › Journal article › Research › peer-review

    31. Published

      Proteomic analysis of lysine acetylation sites in rat tissues reveals organ specificity and subcellular patterns

      Lundby, Alicia, Hansen, K. L., Weinert, B. T., Breinholt Bekker-Jensen, D., Secher, A., Skovgaard, T., Kelstrup, C., Dmytriyev, A., Choudhary, Chunaram, Lundby, C. & Olsen, Jesper Velgaard, 30 Aug 2012, In: Cell Reports. 2, 2, p. 419-431 13 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    32. Published

      HBO1 is required for the maintenance of leukaemia stem cells

      MacPherson, L., Anokye, J., Yeung, M. M., Lam, E. Y. N., Chan, Y-C., Weng, C-F., Yeh, P., Knezevic, K., Butler, M. S., Hoegl, A., Chan, K-L., Burr, M. L., Gearing, L. J., Willson, T., Liu, J., Choi, J., Yang, Y., Bilardi, R. A., Falk, H., Nghi Nguyen & 28 others, Stupple, P. A., Peat, T. S., Zhang, M., De Silva, M., Carrasco-Pozo, C., Avery, V. M., Khoo, S., Dolezal, O., Dennis, M. L., Nuttall, S., Surjadi, R., Newman, J., Ren, B., Leaver, D. J., Sun, Y., Baell, J. B., Dovey, O., Vassiliou, G. S., Grebien, F., Dawson, S., Street, I. P., Monahan, B. J., Burns, C. J., Choudhary, Chunaram, Blewitt, M. E., Voss, A. K., Thomas, T. & Dawson, M. A., 2020, In: Nature. 577, 7789, p. 266-270

      Research output: Contribution to journal › Journal article › Research › peer-review

    33. Published

      DVC1 (C1orf124) is a DNA damage-targeting p97 adaptor that promotes ubiquitin-dependent responses to replication blocks

      Mosbech, A., Gibbs-Seymour, I., Kagias, K., Thorslund, T., Beli, P., Povlsen, L., Nielsen, S. V., Smedegaard, S., Sedgwick, G., Lukas, Claudia, Hartmann-Petersen, Rasmus, Lukas, Jiri, Choudhary, Chunaram, Pocock, R. D. J., Bekker-Jensen, Simon Holst & Mailand, Niels, 2012, In: Nature Structural and Molecular Biology. 19, 11, p. 1084-92 9 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    34. Published

      Proteome dynamics at broken replication forks reveal a distinct ATM-directed repair response suppressing DNA double-strand break ubiquitination

      Nakamura, K., Kustatscher, G., Alabert, C., Hödl, M., Forne, I., Völker-Albert, M., Satpathy, S., Beyer, T. E., Mailand, Niels, Choudhary, Chunaram, Imhof, A., Rappsilber, J. & Groth, Anja, 2021, In: Molecular Cell. 81, 3, 23 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    35. Published

      Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes

      Narita, Takeo, Higashijima, Y., Kilic, Sinan, Liebner, Tim, Walter, Jonas & Choudhary, Chunaram, 2023, In: Nature Genetics. 55, p. 679-692

      Research output: Contribution to journal › Journal article › Research › peer-review

    36. Published

      Enhancers are activated by p300/CBP activity-dependent PIC assembly, RNAPII recruitment, and pause release

      Narita, Takeo, Ito, S., Higashijima, Y., Chu, W. K., Neumann, K., Walter, Jonas, Satpathy, S., Liebner, Tim, Hamilton, W. B., Maskey, E., Prus, G., Shibata, M., Iesmantavicius, V., Brickman, Joshua Mark, Anastassiadis, K., Koseki, H. & Choudhary, Chunaram, 2021, In: Molecular Cell. 81, 10, p. 2166-2182.e6

      Research output: Contribution to journal › Journal article › Research › peer-review

    37. Published

      Functions and mechanisms of non-histone protein acetylation

      Narita, Takeo, Weinert, B. T. & Choudhary, Chunaram, 2019, In: Nature Reviews. Molecular Cell Biology. 20, p. 156-174 19 p.

      Research output: Contribution to journal › Review › Research › peer-review

    38. Published

      Deubiquitylating enzyme USP9x regulates hippo pathway activity by controlling angiomotin protein turnover

      Nguyen, T. H., Andrejeva, Diana, Gupta, R., Choudhary, Chunaram, Hong, X., Eichhorn, P. J., Loya, Anand Chainsukh & Cohen, S. M., 29 Mar 2016, In: Cell Discovery. 2, 13 p., 16001.

      Research output: Contribution to journal › Journal article › Research › peer-review

    39. Published

      UBL5 is essential for pre-mRNA splicing and sister chromatid cohesion in human cells

      Oka, Y., Varmark, H., Vitting-Seerup, K., Beli, P., Waage, J. E., Hakobyan, A., Mistrik, M., Choudhary, Chunaram, Rohde, M., Bekker-Jensen, Simon Holst & Mailand, Niels, 2014, In: E M B O Reports. 15, 9, p. 956-964 9 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    40. Published

      Mte1 interacts with Mph1 and promotes crossover recombination and telomere maintenance

      Pinela da Silva, S. C., Altmannova, V., Luke-Glaser, S., Henriksen, P., Gallina, I., Yang, X., Choudhary, Chunaram, Luke, B., Krejci, L. & Lisby, Michael, 2016, In: Genes & Development. 30, 6, p. 700-717 18 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    41. Published

      RNF111/Arkadia is a SUMO-targeted ubiquitin ligase that facilitates the DNA damage response

      Poulsen, S. L., Hansen, R. K., Wagner, S. A., van Cuijk, L., van Belle, G. J., Streicher, W., Wikström, M., Choudhary, Chunaram, Houtsmuller, A. B., Marteijn, J. A., Bekker-Jensen, Simon Holst & Mailand, Niels, 10 Jun 2013, In: Journal of Cell Biology. 201, 6, p. 797-807 11 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    42. Published

      Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass

      Povlsen, L. K., Beli, P., Wagner, S. A., Poulsen, S. L., Sylvestersen, K. B., Poulsen, J. W., Nielsen, Michael Lund, Bekker-Jensen, Simon Holst, Mailand, Niels & Choudhary, Chunaram, Oct 2012, In: Nature Cell Biology. 14, 10, p. 1089-98 10 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    43. Published

      Analysis and Interpretation of Protein Post-Translational Modification Site Stoichiometry

      Prus, Gabriela Zofia, Hoegl, A., Weinert, B. T. & Choudhary, Chunaram, 2019, In: Trends in Biochemical Sciences. 44, 11, p. 943-960

      Research output: Contribution to journal › Review › Research › peer-review

    44. Published

      SOCS1 cooperates with FLT3-ITD in the development of myeloproliferative disease by promoting the escape from external cytokine control

      Reddy, P. N. G., Serve, H., Brandts, C. H., Sargin, B., Choudhary, Chunaram, Müller-Tidow, C., Berdel, W. E., Stein, S. & Grez, M., 23 Aug 2012, In: Blood. 120, 8, p. 1691-1702 12 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    45. Published

      Acetylation of intrinsically disordered regions regulates phase separation

      Saito, M., Hess, D., Eglinger, J., Fritsch, A. W., Kreysing, M., Weinert, B. T., Choudhary, Chunaram & Matthias, P., Jan 2019, In: Nature Chemical Biology. 15, 1, p. 51-61

      Research output: Contribution to journal › Journal article › Research › peer-review

    46. Published

      Systems-wide analysis of BCR signalosomes and downstream phosphorylation and ubiquitylation

      Satpathy, S., Wagner, S. A., Beli, P., Gupta, R., Kristiansen, T. A., Malinova, D., Francavilla, C., Tolar, P., Bishop, G. A., Hostager, B. S. & Choudhary, Chunaram, 2015, In: Molecular Systems Biology. 11, 6, 810.

      Research output: Contribution to journal › Journal article › Research › peer-review

    47. Published

      Avoiding abundance bias in the functional annotation of posttranslationally modified proteins

      Schölz, C., Lyon, D., Refsgaard, J. C., Jensen, Lars Juhl, Choudhary, Chunaram & Weinert, B. T., Nov 2015, In: Nature Methods. 12, p. 1003-4 2 p.

      Research output: Contribution to journal › Comment/debate › Research › peer-review

    48. Published

      Acetylation site specificities of lysine deacetylase inhibitors in human cells

      Schölz, C., Weinert, B. T., Wagner, S. A., Beli, P., Miyake, Y., Qi, J., Jensen, Lars Juhl, Streicher, W., McCarthy, A. R., Westwood, N. J., Lain, S., Cox, J., Matthias, P., Mann, M., Bradner, J. E. & Choudhary, Chunaram, 2015, In: Nature Biotechnology. 33, p. 415–423

      Research output: Contribution to journal › Journal article › Research › peer-review

    49. Published

      Equilibrium between nascent and parental MCM proteins protects replicating genomes

      Sedlackova, H., Rask, M., Gupta, R., Choudhary, Chunaram, Somyajit, K. & Lukas, Jiri, 2020, In: Nature. 587, p. 297-302 34 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    50. Published

      Proteomic investigations of lysine acetylation identify diverse substrates of mitochondrial deacetylase sirt3

      Sol, E. M., Wagner, S. A., Weinert, B. T., Kumar, A., Kim, H., Deng, C. & Choudhary, Chunaram, 7 Dec 2012, In: PloS one. 7, 12, p. e50545

      Research output: Contribution to journal › Journal article › Research › peer-review

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