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RAS interaction with Sin1 is dispensable for mTORC2 assembly and activity. Proc Natl Acad Sci U S A. 2021 Aug 17; 118(33).
Castel P, Dharmaiah S, Sale MJ, Messing S, Rizzuto G, Cuevas-Navarro A, Cheng A, Trnka MJ, Urisman A, Esposito D, Simanshu DK, McCormick F. PMID: 34380736.
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PubMed Mentions: Fields:
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SARS-CoV-2 nucleocapsid protein forms condensates with viral genomic RNA. bioRxiv. 2021 Mar 29.
Jack A, Ferro LS, Trnka MJ, Wehri E, Nadgir A, Nguyenla X, Costa K, Stanley S, Schaletzky J, Yildiz A. PMID: 32995779.
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PubMed Mentions:
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Matching Cross-linked Peptide Spectra: Only as Good as the Worse Identification. Mol Cell Proteomics. 2014 Feb; 13(2):420-434.
Trnka MJ, Baker PR, Robinson PJJ, Burlingame AL, Chalkley RJ. PMID: 33498129.
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PubMed Mentions:
4 Fields:
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A Novel Mechanism for NF-κB-activation via IκB-aggregation: Implications for Hepatic Mallory-Denk-Body Induced Inflammation. Mol Cell Proteomics. 2020 12; 19(12):1968-1986.
Liu Y, Trnka MJ, Guan S, Kwon D, Kim DH, Chen JJ, Greer PA, Burlingame AL, Correia MA. PMID: 32912968.
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PubMed Mentions:
2 Fields:
Translation:
HumansAnimalsCells
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An ER translocon for multi-pass membrane protein biogenesis. Elife. 2020 08 21; 9.
McGilvray PT, Anghel SA, Sundaram A, Zhong F, Trnka MJ, Fuller JR, Hu H, Burlingame AL, Keenan RJ. PMID: 32820719.
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PubMed Mentions:
10 Fields:
Translation:
HumansCells
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LEM2 phase separation promotes ESCRT-mediated nuclear envelope reformation. Nature. 2020 06; 582(7810):115-118.
von Appen A, LaJoie D, Johnson IE, Trnka MJ, Pick SM, Burlingame AL, Ullman KS, Frost A. PMID: 32494070.
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PubMed Mentions:
14 Fields:
Translation:
HumansCells
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HP1 reshapes nucleosome core to promote phase separation of heterochromatin. Nature. 2019 11; 575(7782):390-394.
Sanulli S, Trnka MJ, Dharmarajan V, Tibble RW, Pascal BD, Burlingame AL, Griffin PR, Gross JD, Narlikar GJ. PMID: 31618757.
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PubMed Mentions:
79 Fields:
Translation:
AnimalsCells
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First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study. Anal Chem. 2019 06 04; 91(11):6953-6961.
Iacobucci C, Piotrowski C, Aebersold R, Amaral BC, Andrews P, Bernfur K, Borchers C, Brodie NI, Bruce JE, Cao Y, Chaignepain S, Chavez JD, Claverol S, Cox J, Davis T, Degliesposti G, Dong MQ, Edinger N, Emanuelsson C, Gay M, Götze M, Gomes-Neto F, Gozzo FC, Gutierrez C, Haupt C, Heck AJR, Herzog F, Huang L, Hoopmann MR, Kalisman N, Klykov O, Kukacka Z, Liu F, MacCoss MJ, Mechtler K, Mesika R, Moritz RL, Nagaraj N, Nesati V, Neves-Ferreira AGC, Ninnis R, Novák P, O'Reilly FJ, Pelzing M, Petrotchenko E, Piersimoni L, Plasencia M, Pukala T, Rand KD, Rappsilber J, Reichmann D, Sailer C, Sarnowski CP, Scheltema RA, Schmidt C, Schriemer DC, Shi Y, Skehel JM, Slavin M, Sobott F, Solis-Mezarino V, Stephanowitz H, Stengel F, Stieger CE, Trabjerg E, Trnka M, Vilaseca M, Viner R, Xiang Y, Yilmaz S, Zelter A, Ziemianowicz D, Leitner A, Sinz A. PMID: 31045356.
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PubMed Mentions:
21 Fields:
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Role of integrative structural biology in understanding transcriptional initiation. Methods. 2019 04 15; 159-160:4-22.
Trnka MJ, Pellarin R, Robinson PJ. PMID: 30890443.
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PubMed Mentions:
1 Fields:
Translation:
HumansAnimalsCells
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Histone H3 binding to the PHD1 domain of histone demethylase KDM5A enables active site remodeling. Nat Commun. 2019 01 09; 10(1):94.
Longbotham JE, Chio CM, Dharmarajan V, Trnka MJ, Torres IO, Goswami D, Ruiz K, Burlingame AL, Griffin PR, Fujimori DG. PMID: 30626866.
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PubMed Mentions:
11 Fields:
Translation:
AnimalsCells
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A Viral Protein Restricts Drosophila RNAi Immunity by Regulating Argonaute Activity and Stability. . 2018 10 10; 24(4):542-557.e9.
Nayak A, Kim DY, Trnka MJ, Kerr CH, Lidsky PV, Stanley DJ, Rivera BM, Li KH, Burlingame AL, Jan E, Frydman J, Gross JD, Andino R. PMID: 30308158.
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PubMed Mentions:
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The nucleosomal acidic patch relieves auto-inhibition by the ISWI remodeler SNF2h. Elife. 2018 04 17; 7.
Gamarra N, Johnson SL, Trnka MJ, Burlingame AL, Narlikar GJ. PMID: 29664398.
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PubMed Mentions:
10 Fields:
Translation:
HumansCells
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Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin. Nature. 2017 07 13; 547(7662):236-240.
Larson AG, Elnatan D, Keenen MM, Trnka MJ, Johnston JB, Burlingame AL, Agard DA, Redding S, Narlikar GJ. PMID: 28636604.
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PubMed Mentions:
376 Fields:
Translation:
HumansAnimalsCells
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Regulation of Rvb1/Rvb2 by a Domain within the INO80 Chromatin Remodeling Complex Implicates the Yeast Rvbs as Protein Assembly Chaperones. Cell Rep. 2017 06 06; 19(10):2033-2044.
Zhou CY, Stoddard CI, Johnston JB, Trnka MJ, Echeverria I, Palovcak E, Sali A, Burlingame AL, Cheng Y, Narlikar GJ. PMID: 28591576.
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PubMed Mentions:
23 Fields:
Translation:
AnimalsCells
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Structure of a Complete Mediator-RNA Polymerase II Pre-Initiation Complex. Cell. 2016 Sep 08; 166(6):1411-1422.e16.
Robinson PJ, Trnka MJ, Bushnell DA, Davis RE, Mattei PJ, Burlingame AL, Kornberg RD. PMID: 27610567.
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PubMed Mentions:
76 Fields:
Translation:
AnimalsCells
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Chaperonin TRiC/CCT Modulates the Folding and Activity of Leukemogenic Fusion Oncoprotein AML1-ETO. J Biol Chem. 2016 Feb 26; 291(9):4732-41.
Roh SH, Kasembeli M, Galaz-Montoya JG, Trnka M, Lau WC, Burlingame A, Chiu W, Tweardy DJ. PMID: 26706127.
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PubMed Mentions:
7 Fields:
Translation:
HumansAnimalsCells
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Molecular architecture of the yeast Mediator complex. Elife. 2015 Sep 24; 4.
Robinson PJ, Trnka MJ, Pellarin R, Greenberg CH, Bushnell DA, Davis R, Burlingame AL, Sali A, Kornberg RD. PMID: 26402457.
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PubMed Mentions:
59 Fields:
Translation:
Animals
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Improved Peak Detection and Deconvolution of Native Electrospray Mass Spectra from Large Protein Complexes. J Am Soc Mass Spectrom. 2015 Dec; 26(12):2141-51.
Lu J, Trnka MJ, Roh SH, Robinson PJ, Shiau C, Fujimori DG, Chiu W, Burlingame AL, Guan S. PMID: 26323614.
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PubMed Mentions:
13 Fields:
Translation:
HumansAnimalsCells
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Deconvolution method for specific and nonspecific binding of ligand to multiprotein complex by native mass spectrometry. Anal Chem. 2015 Aug 18; 87(16):8541-6.
Guan S, Trnka MJ, Bushnell DA, Robinson PJ, Gestwicki JE, Burlingame AL. PMID: 26189511.
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PubMed Mentions:
2 Fields:
Translation:
HumansAnimalsCells
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Human liver cytochrome P450 3A4 ubiquitination: molecular recognition by UBC7-gp78 autocrine motility factor receptor and UbcH5a-CHIP-Hsc70-Hsp40 E2-E3 ubiquitin ligase complexes. J Biol Chem. 2015 Feb 06; 290(6):3308-32.
Wang Y, Kim SM, Trnka MJ, Liu Y, Burlingame AL, Correia MA. PMID: 25451919.
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PubMed Mentions:
11 Fields:
Translation:
HumansAnimalsCells
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Matching cross-linked peptide spectra: only as good as the worse identification. Mol Cell Proteomics. 2014 Feb; 13(2):420-34.
Trnka MJ, Baker PR, Robinson PJ, Burlingame AL, Chalkley RJ. PMID: 24335475.
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PubMed Mentions:
67 Fields:
Translation:
HumansCells
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Reconstitution of nucleosome demethylation and catalytic properties of a Jumonji histone demethylase. Chem Biol. 2013 Apr 18; 20(4):494-9.
Shiau C, Trnka MJ, Bozicevic A, Ortiz Torres I, Al-Sady B, Burlingame AL, Narlikar GJ, Fujimori DG. PMID: 23601638.
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PubMed Mentions:
12 Fields:
Translation:
HumansCells
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Structure of the mediator head module bound to the carboxy-terminal domain of RNA polymerase II. Proc Natl Acad Sci U S A. 2012 Oct 30; 109(44):17931-5.
Robinson PJ, Bushnell DA, Trnka MJ, Burlingame AL, Kornberg RD. PMID: 23071300.
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PubMed Mentions:
57 Fields:
Translation:
Cells
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The role of conformational flexibility on protein supercharging in native electrospray ionization. Phys Chem Chem Phys. 2011 Nov 07; 13(41):18288-96.
Sterling HJ, Cassou CA, Trnka MJ, Burlingame AL, Krantz BA, Williams ER. PMID: 21399817.
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PubMed Mentions:
24 Fields:
Translation:
Cells
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Topographic studies of the GroEL-GroES chaperonin complex by chemical cross-linking using diformyl ethynylbenzene: the power of high resolution electron transfer dissociation for determination of both peptide sequences and their attachment sites. Mol Cell Proteomics. 2010 Oct; 9(10):2306-17.
Trnka MJ, Burlingame AL. PMID: 20813910.
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PubMed Mentions:
27 Fields:
Translation:
Cells
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Ligand-induced conformational heterogeneity of cytochrome P450 CYP119 identified by 2D NMR spectroscopy with the unnatural amino acid (13)C-p-methoxyphenylalanine. J Am Chem Soc. 2008 Dec 03; 130(48):16168-9.
Lampe JN, Floor SN, Gross JD, Nishida CR, Jiang Y, Trnka MJ, Ortiz de Montellano PR. PMID: 18998650.
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PubMed Mentions:
18 Fields:
Translation:
Cells
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Covalent heme attachment to the protein in human heme oxygenase-1 with selenocysteine replacing the His25 proximal iron ligand. J Inorg Biochem. 2009 Mar; 103(3):316-25.
Jiang Y, Trnka MJ, Medzihradszky KF, Ouellet H, Wang Y, Ortiz de Montellano PR. PMID: 19135260.
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PubMed Mentions:
4 Fields:
Translation:
Humans
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Photoaffinity labeling of P450Cam by an imidazole-tethered benzophenone probe. Arch Biochem Biophys. 2006 Jan 01; 445(1):95-107.
Trnka MJ, Doneanu CE, Trager WF. PMID: 16321358.
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PubMed Mentions:
1 Fields:
Translation:
HumansAnimalsCells
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Configurations of a flow injection system for perfusion studies of adherent cells. Anal Chem. 1995 Apr 15; 67(8):1486-90.
Baxter PJ, Hallgren L, Pollema CH, Trnka M, Ruzicka J. PMID: 7741218.
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PubMed Mentions: Fields:
Translation:
Cells