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The Merbl Lab

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Publications

Post-translational modifications reshape the antigen landscape of the MHCI immunopeptidome in tumor

Kacen A, Javitt A, Kramer MP, Morgenstern D, Tsaban T, Teo GC, Leprevost F, Barnea E, Yu F, Admon A, Schueler-Furman O, Levin Y, Nesvizhskii AI, Merbl Y

https://www.nature.com/articles/s41587-022-01464-2

Tumor-reactive antibodies evolve from non-binding and autoreactive precursors

Mazor RD, Nathan N, Gilboa A, Stoler-Barak L, Moss L, Solomonov I, Hanuna A, Divinsky Y, Shmueli MD, Hezroni H, Zaretsky I, Mor M, Golani F, Sabah G, Jakobson-Setton A, Yanichkin N, Feinmesser M, Tsoref D, Salman L, Yeoshoua E, Peretz E, Erlich I, Mendelson Cohen N,  Gershoni MJ, Freund N, Merbl Y, Yaari G, Eitan R, Sagi I, Shulman Z. Cell. PMID: 35305314. Mar 31;185(7):1208-1222.e21. https://doi.org/10.1016/j.cell.2022.02.012.

SUMOylation of linker histone H1 drives chromatin condensation and restriction of embryonic cell fate identity

Sheban Daoud, Shani Tom, Maor Roey, Aguilera-Castrejon Alejandro, Mor Nofar , Hebert Jakob, Viukov Sergey, Shmueli Merav D., Krupalnik Vladislav , Chugaeva Valeriya, Rodriguez de Larosa Alejandra, Zerbib Mirie, Ulman Adi, Massarwa Solaiman , Kupervaser Meital, Levin Yishai, Shema Efrat, David Yael, Novershtern Noa, Hanna Jacob H., Merbl Y.  Molecular Cell. 2021. https://doi.org/10.1016/j.molcel.2021.11.011. 

Altered protein abundance and 1 localization inferred from sites of alternative modification by ubiquitin and SUMO

Ulman Adi, Levin Tal, Dassa Bareket, Javitt Aaron, Kacen Assaf, Fishllevich Simon, Sheban Daoud, Levy Emmanuel, Merbl Y. JMB, 2021

https://doi.org/10.1016/j.jmb.2021.167219.  

Gatekeepers of the Gut: The roles of proteasomes at the gastrointestinal barrier.

Mohapatra G., Eisenberg-Lerner A. & Merbl Y,

Biomolecules 2021, 11(7), 989; doi.org/10.3390.

Golgi organization is regulated by proteasomal degradation.

Eisenberg-Lerner A, Benyair R, Hizkiahou N, Nudel N, Maor R, Kramer MP, Shmueli MD, Zigdon I, Cherniavsky Lev M, Ulman A, Sagiv JY, Dayan M, Dassa B, Rosenwald M, Shachar I, Li J, Wang Y, Dezorella N, Khan S, Porat Z, Shimoni E, Avinoam O, Merbl Y.

Nat Commun. 21;11(1):409.

Phenotypic Screen Identifies JAK2 as a Major Regulator of FAT10 Expression.

Reznik N, Kozer N, Eisenberg-Lerner A, Barr H, Merbl Y, London N. 2019

ACS Chem Biol. 2020;14(12):2538-2545.

Global views of proteasome-mediated degradation by mass spectrometry.

Javitt A, Merbl Y.

Expert Rev. Proteomics. (2019) 1–6. doi:10.1080/14789450.2019.1651979

Pro-inflammatory Cytokines Alter the Immunopeptidome Landscape by Modulation of HLA-B Expression.

Javitt A, Barnea E, Kramer MP, Wolf-Levy H, Levin Y, Admon A, Merbl Y.

Front Immunol (2019) 10:141. doi:10.3389/fimmu.2019.00141

Revealing the cellular degradome by mass spectrometry analysis of proteasome-cleaved peptides.

Wolf-Levy H, Javitt A, Eisenberg-Lerner A, Kacen A, Ulman A, Sheban D, Dassa B, Fishbain-Yoskovitz V, Carmona-Rivera C, Kramer M P, Nudel N, Regev I, Zahavi L, Elinger D, Kaplan M J, Morgenstern D, Levin Y, Merbl Y.

Nature Biotechnology. Oct 2018; doi:10.1038/nbt.4279

Post Translational Modification Profiling- FunctionalProteomics for Analysis of Immune Regulation.

Eisenberg-Lerner A, Regev I, Merbl Y.

Methods in Molecular Biology. Jan 2017, 1647:139-152. 10.1007/978-1-4939-7201-2_9

Post-translational modification profiling – A novel tool for mapping the protein modification landscape in cancer.

Eisenberg-Lerner A, Ciechanover A, Merbl Y. ​

Experimental Biology and Medicine, 2016 Apr. 241(14):1475-82. 

Post-Translational Modification Profiling-a High-Content Assay for Identifying Protein Modifications in Mammalian Cellular Systems. 

Merbl Y, Kirschner MW.

Curr Protoc Protein Sci. 2014 Aug 1;77:27.8.1-27.8.13. doi: 10.1002/0471140864.ps2708s77.

PMID: 25081743

Microarray discovery of new OGT substrates: the medulloblastoma oncogene OTX2 is O-GlcNAcylated. 

Ortiz-Meoz RF, Merbl Y, Kirschner MW, Walker S.

J Am Chem Soc. 2014 Apr 2;136(13):4845-8. doi: 10.1021/ja500451w. Epub 2014 Mar 17.

PMID:24580054

Individual and meta-immune networks.

Bransburg-Zabary S, Kenett DY, Dar G, Madi A, Merbl Y, Quintana FJ, Tauber AI, Cohen IR, Ben-Jacob E.

Phys Biol. 2013 Apr;10(2):025003. doi: 10.1088/1478-3975/10/2/025003. Epub 2013 Mar 15.

PMID:23492831

Profiling of ubiquitin-like modifications reveals features of mitotic control.

Merbl Y, Refour P, Patel H, Springer M, Kirschner MW.

Cell. 2013 Feb 28;152(5):1160-72. doi: 10.1016/j.cell.2013.02.007.

PMID:23452859

Analyses of antigen dependency networks unveil immune system reorganization between birth and adulthood.

Madi A, Kenett DY, Bransburg-Zabary S, Merbl Y, Quintana FJ, Boccaletti S, Tauber AI, Cohen IR, Ben-Jacob E.

Chaos. 2011 Mar;21(1):016109. doi: 10.1063/1.3543800.

PMID:21456851

Network theory analysis of antibody-antigen reactivity data: the immune trees at birth and adulthood.

Madi A, Kenett DY, Bransburg-Zabary S, Merbl Y, Quintana FJ, Tauber AI, Cohen IR, Ben-Jacob E.

PLoS One. 2011 Mar 8;6(3):e17445. doi: 10.1371/journal.pone.0017445.

PMID:21408156

Protein microarrays for genome-wide posttranslational modification analysis.

Merbl Y, Kirschner MW.

Wiley Interdiscip Rev Syst Biol Med. 2011 May-Jun;3(3):347-56. doi: 10.1002/wsbm.120. Epub 2010 Sep 23. Review.

PMID:20865779

UBE2S drives elongation of K11-linked ubiquitin chains by the anaphase-promoting complex.

Wu T, Merbl Y, Huo Y, Gallop JL, Tzur A, Kirschner MW.

Proc Natl Acad Sci U S A. 2010 Jan 26;107(4):1355-60. doi: 10.1073/pnas.0912802107. Epub 2010 Jan 6.

PMID:20080579

Organization of the autoantibody repertoire in healthy newborns and adults revealed by system level informatics of antigen microarray data.

Madi A, Hecht I, Bransburg-Zabary S, Merbl Y, Pick A, Zucker-Toledano M, Quintana FJ, Tauber AI, Cohen IR, Ben-Jacob E.

Proc Natl Acad Sci U S A. 2009 Aug 25;106(34):14484-9. doi: 10.1073/pnas.0901528106. Epub 2009 Aug 10.

PMID:19667184

A systems immunology approach to the host-tumor interaction: large-scale patterns of natural autoantibodies distinguish healthy and tumor-bearing mice.

Merbl Y, Itzchak R, Vider-Shalit T, Louzoun Y, Quintana FJ, Vadai E, Eisenbach L, Cohen IR.

PLoS One. 2009 Jun 25;4(6):e6053. doi: 10.1371/journal.pone.0006053.

PMID:19557135

Large-scale detection of ubiquitination substrates using cell extracts and protein microarrays.

Merbl Y, Kirschner MW.

Proc Natl Acad Sci U S A. 2009 Feb 24;106(8):2543-8. doi: 10.1073/pnas.0812892106. Epub 2009 Jan 30.

PMID:19181856

Antigen microarrays identify unique serum autoantibody signatures in clinical and pathologic subtypes of multiple sclerosis.

Quintana FJ, Farez MF, Viglietta V, Iglesias AH, Merbl Y, Izquierdo G, Lucas M, Basso AS, Khoury SJ, Lucchinetti CF, Cohen IR, Weiner HL.

Proc Natl Acad Sci U S A. 2008 Dec 2;105(48):18889-94. doi: 10.1073/pnas.0806310105. Epub 2008 Nov 21.

PMID:19028871

Association of the RGS2 gene with extrapyramidal symptoms induced by treatment with antipsychotic medication.

Greenbaum L, Strous RD, Kanyas K, Merbl Y, Horowitz A, Karni O, Katz E, Kotler M, Olender T, Deshpande SN, Lancet D, Ben-Asher E, Lerer B.

Pharmacogenet Genomics. 2007 Jul;17(7):519-28.

PMID:17558307

Newborn humans manifest autoantibodies to defined self molecules detected by antigen microarray informatics.

Merbl Y, Zucker-Toledano M, Quintana FJ, Cohen IR.

J Clin Invest. 2007 Mar;117(3):712-8.

PMID:17332892

Association of the dopamine receptor interacting protein gene, NEF3, with early response to antipsychotic medication.

Strous RD, Greenbaum L, Kanyas K, Merbl Y, Horowitz A, Karni O, Viglin D, Olender T, Deshpande SN, Lancet D, Ben-Asher E, Lerer B.

Int J Neuropsychopharmacol. 2007 Jun;10(3):321-33. Epub 2006 May 31.

PMID:16734940

Functional immunomics: microarray analysis of IgG autoantibody repertoires predicts the future response of mice to induced diabetes.

Quintana FJ, Hagedorn PH, Elizur G, Merbl Y, Domany E, Cohen IR.

Proc Natl Acad Sci U S A. 2004 Oct 5;101 Suppl 2:14615-21. Epub 2004 Aug 12.

PMID:15308778

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