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Items: 1 to 50 of 60

1.

Pathological Oxidation of PTPN12 Underlies ABL1 Phosphorylation in Hereditary Leiomyomatosis and Renal Cell Carcinoma.

Xu Y, Taylor P, Andrade J, Ueberheide B, Shuch B, Glazer PM, Bindra RS, Moran MF, Linehan WM, Neel BG.

Cancer Res. 2018 Oct 8. pii: canres.0901.2018. doi: 10.1158/0008-5472.CAN-18-0901. [Epub ahead of print]

PMID:
30297534
2.

Transcription-associated histone pruning demarcates macroH2A chromatin domains.

Sun Z, Filipescu D, Andrade J, Gaspar-Maia A, Ueberheide B, Bernstein E.

Nat Struct Mol Biol. 2018 Oct;25(10):958-970. doi: 10.1038/s41594-018-0134-5. Epub 2018 Oct 5.

PMID:
30291361
3.

USP7 cooperates with NOTCH1 to drive the oncogenic transcriptional program in T cell leukemia.

Jin Q, Martinez CA, Arcipowski KM, Zhu Y, Gutiérrez-Díaz BT, Wang KK, Johnson MR, Volk A, Wang F, Wu J, Grove C, Wang H, Sokirniy I, Thomas PM, Goo YA, Abshiru NA, Hijiya N, Peirs S, Vandamme N, Berx G, Goossens S, Marshall SA, Rendleman EJ, Takahashi YH, Wang L, Rawat R, Bartom ET, Collings CK, Van Vlierberghe P, Bourquin JP, Bornhauser B, Serafin V, Bresolin S, Paganin M, Accordi B, Basso G, Kelleher NL, Weinstock J, Suresh K, Crispino JD, Shilatifard A, Strikoudis A, Mantis C, Kandela I, Kelly S, Ueberheide B, Ntziachristos P.

Clin Cancer Res. 2018 Sep 17. pii: clincanres.1740.2018. doi: 10.1158/1078-0432.CCR-18-1740. [Epub ahead of print]

PMID:
30224337
4.

A widespread alternate form of cap-dependent mRNA translation initiation.

de la Parra C, Ernlund A, Alard A, Ruggles K, Ueberheide B, Schneider RJ.

Nat Commun. 2018 Aug 3;9(1):3068. doi: 10.1038/s41467-018-05539-0.

5.

Exosomes Shuttle TREX1-Sensitive IFN-Stimulatory dsDNA from Irradiated Cancer Cells to DCs.

Diamond JM, Vanpouille-Box C, Spada S, Rudqvist NP, Chapman JR, Ueberheide BM, Pilones KA, Sarfraz Y, Formenti SC, Demaria S.

Cancer Immunol Res. 2018 Aug;6(8):910-920. doi: 10.1158/2326-6066.CIR-17-0581. Epub 2018 Jun 15.

PMID:
29907693
6.

Human Memory B Cells Targeting Staphylococcus aureus Exotoxins Are Prevalent with Skin and Soft Tissue Infection.

Pelzek AJ, Shopsin B, Radke EE, Tam K, Ueberheide BM, Fenyö D, Brown SM, Li Q, Rubin A, Fulmer Y, Chiang WK, Hernandez DN, El Bannoudi H, Sause WE, Sommerfield A, Thomsen IP, Miller AO, Torres VJ, Silverman GJ.

MBio. 2018 Mar 13;9(2). pii: e02125-17. doi: 10.1128/mBio.02125-17.

7.

Staphylococcus aureus Responds to the Central Metabolite Pyruvate To Regulate Virulence.

Harper L, Balasubramanian D, Ohneck EA, Sause WE, Chapman J, Mejia-Sosa B, Lhakhang T, Heguy A, Tsirigos A, Ueberheide B, Boyd JM, Lun DS, Torres VJ.

MBio. 2018 Jan 23;9(1). pii: e02272-17. doi: 10.1128/mBio.02272-17.

8.

Isolation of Amyloid Plaques and Neurofibrillary Tangles from Archived Alzheimer's Disease Tissue Using Laser-Capture Microdissection for Downstream Proteomics.

Drummond E, Nayak S, Pires G, Ueberheide B, Wisniewski T.

Methods Mol Biol. 2018;1723:319-334. doi: 10.1007/978-1-4939-7558-7_18.

9.

LINE-1 protein localization and functional dynamics during the cell cycle.

Mita P, Wudzinska A, Sun X, Andrade J, Nayak S, Kahler DJ, Badri S, LaCava J, Ueberheide B, Yun CY, Fenyö D, Boeke JD.

Elife. 2018 Jan 8;7. pii: e30058. doi: 10.7554/eLife.30058.

10.

Affinity purification mass spectrometry analysis of PD-1 uncovers SAP as a new checkpoint inhibitor.

Peled M, Tocheva AS, Sandigursky S, Nayak S, Philips EA, Nichols KE, Strazza M, Azoulay-Alfaguter I, Askenazi M, Neel BG, Pelzek AJ, Ueberheide B, Mor A.

Proc Natl Acad Sci U S A. 2018 Jan 16;115(3):E468-E477. doi: 10.1073/pnas.1710437115. Epub 2017 Dec 27.

11.

Whole proteome analysis of human tankyrase knockout cells reveals targets of tankyrase-mediated degradation.

Bhardwaj A, Yang Y, Ueberheide B, Smith S.

Nat Commun. 2017 Dec 20;8(1):2214. doi: 10.1038/s41467-017-02363-w.

12.

The GCN2-ATF4 Signaling Pathway Induces 4E-BP to Bias Translation and Boost Antimicrobial Peptide Synthesis in Response to Bacterial Infection.

Vasudevan D, Clark NK, Sam J, Cotham VC, Ueberheide B, Marr MT 2nd, Ryoo HD.

Cell Rep. 2017 Nov 21;21(8):2039-2047. doi: 10.1016/j.celrep.2017.10.096.

13.

Quantitative and Structural Assessment of Histone Methyllysine Analogue Engagement by Cognate Binding Proteins Reveals Affinity Decrements Relative to Those of Native Counterparts.

Chen Z, Notti RQ, Ueberheide B, Ruthenburg AJ.

Biochemistry. 2018 Jan 23;57(3):300-304. doi: 10.1021/acs.biochem.7b00926. Epub 2017 Nov 10.

14.

STING Senses Microbial Viability to Orchestrate Stress-Mediated Autophagy of the Endoplasmic Reticulum.

Moretti J, Roy S, Bozec D, Martinez J, Chapman JR, Ueberheide B, Lamming DW, Chen ZJ, Horng T, Yeretssian G, Green DR, Blander JM.

Cell. 2017 Nov 2;171(4):809-823.e13. doi: 10.1016/j.cell.2017.09.034. Epub 2017 Oct 19.

PMID:
29056340
15.

Venom peptides as therapeutics: advances, challenges and the future of venom-peptide discovery.

Robinson SD, Undheim EAB, Ueberheide B, King GF.

Expert Rev Proteomics. 2017 Oct;14(10):931-939. doi: 10.1080/14789450.2017.1377613. Epub 2017 Sep 13. Review.

PMID:
28879805
16.

Degradation of PHLPP2 by KCTD17, via a Glucagon-Dependent Pathway, Promotes Hepatic Steatosis.

Kim K, Ryu D, Dongiovanni P, Ozcan L, Nayak S, Ueberheide B, Valenti L, Auwerx J, Pajvani UB.

Gastroenterology. 2017 Dec;153(6):1568-1580.e10. doi: 10.1053/j.gastro.2017.08.039. Epub 2017 Aug 30.

PMID:
28859855
17.

A Systems Biology Approach Identifies FUT8 as a Driver of Melanoma Metastasis.

Agrawal P, Fontanals-Cirera B, Sokolova E, Jacob S, Vaiana CA, Argibay D, Davalos V, McDermott M, Nayak S, Darvishian F, Castillo M, Ueberheide B, Osman I, Fenyö D, Mahal LK, Hernando E.

Cancer Cell. 2017 Jun 12;31(6):804-819.e7. doi: 10.1016/j.ccell.2017.05.007.

18.

Preparation and evaluation of human choroid extracellular matrix scaffolds for the study of cell replacement strategies.

Chirco KR, Worthington KS, Flamme-Wiese MJ, Riker MJ, Andrade JD, Ueberheide BM, Stone EM, Tucker BA, Mullins RF.

Acta Biomater. 2017 Jul 15;57:293-303. doi: 10.1016/j.actbio.2017.05.011. Epub 2017 May 5.

19.

SENP8 limits aberrant neddylation of NEDD8 pathway components to promote cullin-RING ubiquitin ligase function.

Coleman KE, Békés M, Chapman JR, Crist SB, Jones MJ, Ueberheide BM, Huang TT.

Elife. 2017 May 5;6. pii: e24325. doi: 10.7554/eLife.24325.

20.

Dectin 1 activation on macrophages by galectin 9 promotes pancreatic carcinoma and peritumoral immune tolerance.

Daley D, Mani VR, Mohan N, Akkad N, Ochi A, Heindel DW, Lee KB, Zambirinis CP, Pandian GSB, Savadkar S, Torres-Hernandez A, Nayak S, Wang D, Hundeyin M, Diskin B, Aykut B, Werba G, Barilla RM, Rodriguez R, Chang S, Gardner L, Mahal LK, Ueberheide B, Miller G.

Nat Med. 2017 May;23(5):556-567. doi: 10.1038/nm.4314. Epub 2017 Apr 10.

21.

Phosphoproteomics of Fibroblast Growth Factor 1 (FGF1) Signaling in Chondrocytes: Identifying the Signature of Inhibitory Response.

Chapman JR, Katsara O, Ruoff R, Morgenstern D, Nayak S, Basilico C, Ueberheide B, Kolupaeva V.

Mol Cell Proteomics. 2017 Jun;16(6):1126-1137. doi: 10.1074/mcp.M116.064980. Epub 2017 Mar 15.

22.

Synthesis, debugging, and effects of synthetic chromosome consolidation: synVI and beyond.

Mitchell LA, Wang A, Stracquadanio G, Kuang Z, Wang X, Yang K, Richardson S, Martin JA, Zhao Y, Walker R, Luo Y, Dai H, Dong K, Tang Z, Yang Y, Cai Y, Heguy A, Ueberheide B, Fenyö D, Dai J, Bader JS, Boeke JD.

Science. 2017 Mar 10;355(6329). pii: eaaf4831. doi: 10.1126/science.aaf4831.

PMID:
28280154
23.

Proteomic differences in amyloid plaques in rapidly progressive and sporadic Alzheimer's disease.

Drummond E, Nayak S, Faustin A, Pires G, Hickman RA, Askenazi M, Cohen M, Haldiman T, Kim C, Han X, Shao Y, Safar JG, Ueberheide B, Wisniewski T.

Acta Neuropathol. 2017 Jun;133(6):933-954. doi: 10.1007/s00401-017-1691-0. Epub 2017 Mar 4.

24.

Using Quantitative Spectrometry to Understand the Influence of Genetics and Nutritional Perturbations On the Virulence Potential of Staphylococcus aureus.

Chapman JR, Balasubramanian D, Tam K, Askenazi M, Copin R, Shopsin B, Torres VJ, Ueberheide BM.

Mol Cell Proteomics. 2017 Apr;16(4 suppl 1):S15-S28. doi: 10.1074/mcp.O116.065581. Epub 2017 Feb 14.

25.

Automated Antibody De Novo Sequencing and Its Utility in Biopharmaceutical Discovery.

Sen KI, Tang WH, Nayak S, Kil YJ, Bern M, Ozoglu B, Ueberheide B, Davis D, Becker C.

J Am Soc Mass Spectrom. 2017 May;28(5):803-810. doi: 10.1007/s13361-016-1580-0. Epub 2017 Jan 19.

26.

Cyclin F-Mediated Degradation of SLBP Limits H2A.X Accumulation and Apoptosis upon Genotoxic Stress in G2.

Dankert JF, Rona G, Clijsters L, Geter P, Skaar JR, Bermudez-Hernandez K, Sassani E, Fenyö D, Ueberheide B, Schneider R, Pagano M.

Mol Cell. 2016 Nov 3;64(3):507-519. doi: 10.1016/j.molcel.2016.09.010. Epub 2016 Oct 20.

27.

Staphylococcus aureus Coordinates Leukocidin Expression and Pathogenesis by Sensing Metabolic Fluxes via RpiRc.

Balasubramanian D, Ohneck EA, Chapman J, Weiss A, Kim MK, Reyes-Robles T, Zhong J, Shaw LN, Lun DS, Ueberheide B, Shopsin B, Torres VJ.

MBio. 2016 Jun 21;7(3). pii: e00818-16. doi: 10.1128/mBio.00818-16.

28.

De Novo Sequencing and Resurrection of a Human Astrovirus-Neutralizing Antibody.

Bogdanoff WA, Morgenstern D, Bern M, Ueberheide BM, Sanchez-Fauquier A, DuBois RM.

ACS Infect Dis. 2016 May 13;2(5):313-321. Epub 2016 Mar 14.

29.

Separable roles for Mycobacterium tuberculosis ESX-3 effectors in iron acquisition and virulence.

Tufariello JM, Chapman JR, Kerantzas CA, Wong KW, Vilchèze C, Jones CM, Cole LE, Tinaztepe E, Thompson V, Fenyö D, Niederweis M, Ueberheide B, Philips JA, Jacobs WR Jr.

Proc Natl Acad Sci U S A. 2016 Jan 19;113(3):E348-57. doi: 10.1073/pnas.1523321113. Epub 2016 Jan 4.

30.

Analysis of the Histone H3.1 Interactome: A Suitable Chaperone for the Right Event.

Campos EI, Smits AH, Kang YH, Landry S, Escobar TM, Nayak S, Ueberheide BM, Durocher D, Vermeulen M, Hurwitz J, Reinberg D.

Mol Cell. 2015 Nov 19;60(4):697-709. doi: 10.1016/j.molcel.2015.08.005. Epub 2015 Oct 29.

31.

Proteomic analysis of neurons microdissected from formalin-fixed, paraffin-embedded Alzheimer's disease brain tissue.

Drummond ES, Nayak S, Ueberheide B, Wisniewski T.

Sci Rep. 2015 Oct 21;5:15456. doi: 10.1038/srep15456.

32.

TIMELESS Forms a Complex with PARP1 Distinct from Its Complex with TIPIN and Plays a Role in the DNA Damage Response.

Young LM, Marzio A, Perez-Duran P, Reid DA, Meredith DN, Roberti D, Star A, Rothenberg E, Ueberheide B, Pagano M.

Cell Rep. 2015 Oct 20;13(3):451-459. doi: 10.1016/j.celrep.2015.09.017. Epub 2015 Oct 8.

33.

Identification of hyaluronidase and phospholipase B in Lachesis muta rhombeata venom.

Wiezel GA, dos Santos PK, Cordeiro FA, Bordon KC, Selistre-de-Araújo HS, Ueberheide B, Arantes EC.

Toxicon. 2015 Dec 1;107(Pt B):359-68. doi: 10.1016/j.toxicon.2015.08.029. Epub 2015 Aug 31.

34.

Insights into the origins of fish hunting in venomous cone snails from studies of Conus tessulatus.

Aman JW, Imperial JS, Ueberheide B, Zhang MM, Aguilar M, Taylor D, Watkins M, Yoshikami D, Showers-Corneli P, Safavi-Hemami H, Biggs J, Teichert RW, Olivera BM.

Proc Natl Acad Sci U S A. 2015 Apr 21;112(16):5087-92. doi: 10.1073/pnas.1424435112. Epub 2015 Apr 6.

35.

Specialized insulin is used for chemical warfare by fish-hunting cone snails.

Safavi-Hemami H, Gajewiak J, Karanth S, Robinson SD, Ueberheide B, Douglass AD, Schlegel A, Imperial JS, Watkins M, Bandyopadhyay PK, Yandell M, Li Q, Purcell AW, Norton RS, Ellgaard L, Olivera BM.

Proc Natl Acad Sci U S A. 2015 Feb 10;112(6):1743-8. doi: 10.1073/pnas.1423857112. Epub 2015 Jan 20.

36.

Sample limited characterization of a novel disulfide-rich venom peptide toxin from terebrid marine snail Terebra variegata.

Anand P, Grigoryan A, Bhuiyan MH, Ueberheide B, Russell V, Quinoñez J, Moy P, Chait BT, Poget SF, Holford M.

PLoS One. 2014 Apr 8;9(4):e94122. doi: 10.1371/journal.pone.0094122. eCollection 2014.

37.

A disulfide tether stabilizes the block of sodium channels by the conotoxin μO§-GVIIJ.

Gajewiak J, Azam L, Imperial J, Walewska A, Green BR, Bandyopadhyay PK, Raghuraman S, Ueberheide B, Bern M, Zhou HM, Minassian NA, Hagan RH, Flinspach M, Liu Y, Bulaj G, Wickenden AD, Olivera BM, Yoshikami D, Zhang MM.

Proc Natl Acad Sci U S A. 2014 Feb 18;111(7):2758-63. doi: 10.1073/pnas.1324189111. Epub 2014 Feb 4.

38.

UvrD facilitates DNA repair by pulling RNA polymerase backwards.

Epshtein V, Kamarthapu V, McGary K, Svetlov V, Ueberheide B, Proshkin S, Mironov A, Nudler E.

Nature. 2014 Jan 16;505(7483):372-7. doi: 10.1038/nature12928. Epub 2014 Jan 8.

39.

DUB-resistant ubiquitin to survey ubiquitination switches in mammalian cells.

Békés M, Okamoto K, Crist SB, Jones MJ, Chapman JR, Brasher BB, Melandri FD, Ueberheide BM, Denchi EL, Huang TT.

Cell Rep. 2013 Nov 14;5(3):826-38. doi: 10.1016/j.celrep.2013.10.008. Epub 2013 Nov 7.

40.

The yeast Snt2 protein coordinates the transcriptional response to hydrogen peroxide-mediated oxidative stress.

Baker LA, Ueberheide BM, Dewell S, Chait BT, Zheng D, Allis CD.

Mol Cell Biol. 2013 Oct;33(19):3735-48. doi: 10.1128/MCB.00025-13. Epub 2013 Jul 22.

41.

Detection and correction of interference in SRM analysis.

Bao Y, Waldemarson S, Zhang G, Wahlander A, Ueberheide B, Myung S, Reed B, Molloy K, Padovan JC, Eriksson J, Neubert TA, Chait BT, Fenyö D.

Methods. 2013 Jun 15;61(3):299-303. doi: 10.1016/j.ymeth.2013.05.008. Epub 2013 May 23.

42.

Atypical and classical memory B cells produce Plasmodium falciparum neutralizing antibodies.

Muellenbeck MF, Ueberheide B, Amulic B, Epp A, Fenyo D, Busse CE, Esen M, Theisen M, Mordmüller B, Wardemann H.

J Exp Med. 2013 Feb 11;210(2):389-99. doi: 10.1084/jem.20121970. Epub 2013 Jan 14.

43.

Deubiquitinases as a signaling target of oxidative stress.

Cotto-Rios XM, Békés M, Chapman J, Ueberheide B, Huang TT.

Cell Rep. 2012 Dec 27;2(6):1475-84. doi: 10.1016/j.celrep.2012.11.011. Epub 2012 Dec 6.

44.

Strategy for identifying dendritic cell-processed CD4+ T cell epitopes from the HIV gag p24 protein.

Bozzacco L, Yu H, Dengjel J, Trumpfheller C, Zebroski HA 3rd, Zhang N, Küttner V, Ueberheide BM, Deng H, Chait BT, Steinman RM, Mojsov S, Fenyö D.

PLoS One. 2012;7(7):e41897. doi: 10.1371/journal.pone.0041897. Epub 2012 Jul 30.

45.

Constrained de novo sequencing of conotoxins.

Bhatia S, Kil YJ, Ueberheide B, Chait BT, Tayo L, Cruz L, Lu B, Yates JR 3rd, Bern M.

J Proteome Res. 2012 Aug 3;11(8):4191-200. doi: 10.1021/pr300312h. Epub 2012 Jul 2.

46.

Sequence and structural convergence of broad and potent HIV antibodies that mimic CD4 binding.

Scheid JF, Mouquet H, Ueberheide B, Diskin R, Klein F, Oliveira TY, Pietzsch J, Fenyo D, Abadir A, Velinzon K, Hurley A, Myung S, Boulad F, Poignard P, Burton DR, Pereyra F, Ho DD, Walker BD, Seaman MS, Bjorkman PJ, Chait BT, Nussenzweig MC.

Science. 2011 Sep 16;333(6049):1633-7. doi: 10.1126/science.1207227. Epub 2011 Jul 14.

47.

Recognition of a mononucleosomal histone modification pattern by BPTF via multivalent interactions.

Ruthenburg AJ, Li H, Milne TA, Dewell S, McGinty RK, Yuen M, Ueberheide B, Dou Y, Muir TW, Patel DJ, Allis CD.

Cell. 2011 May 27;145(5):692-706. doi: 10.1016/j.cell.2011.03.053. Epub 2011 May 19.

48.

Protein quantitation using mass spectrometry.

Zhang G, Ueberheide BM, Waldemarson S, Myung S, Molloy K, Eriksson J, Chait BT, Neubert TA, Fenyö D.

Methods Mol Biol. 2010;673:211-22. doi: 10.1007/978-1-60761-842-3_13.

49.

Proteomics.

Garcia BA, Cooper HJ, Dorrestein PC, Tang K, Ueberheide BM.

J Biomed Biotechnol. 2010;2010:453045. doi: 10.1155/2010/453045. Epub 2011 Mar 24. No abstract available.

PMID:
21541239
Free PMC Article
50.

Proteome-wide prediction of acetylation substrates.

Basu A, Rose KL, Zhang J, Beavis RC, Ueberheide B, Garcia BA, Chait B, Zhao Y, Hunt DF, Segal E, Allis CD, Hake SB.

Proc Natl Acad Sci U S A. 2009 Aug 18;106(33):13785-90. doi: 10.1073/pnas.0906801106. Epub 2009 Aug 3.

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