Al Burlingame, PhD

Title(s)Professor, Pharmaceutical Chemistry
SchoolSchool of Pharmacy
Address600 16th St
San Francisco CA 94158
Phone415-476-4893
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    Collapse Biography 
    Collapse Awards and Honors
    1970John Simon Guggenheim Memorial Fellowship
    Academia Sinica, People's Republic of China1981Official Guest
    Japanese Society for Medical Mass Spectrometry1982Honorary Member
    Academy of Sciences of the USSR1986Official Guest, Academy of Sciences of the USSR
    American Association for the Advancement of Science1990Fellow, American Association for the Advancement of Science
    Virginia Polytechnic University1996The Peters Lecturer
    Northeastern University1999Barnett Lectureship
    Indiana University2001Lilly Distinguished Lecturer
    Nobel Forum, Stockholm, Sweden2007Lecturer, Proteomics in Medicine
    International Forum of Proteomics2012Achievement Award
    ASBMB2013MCP lectureship Plenary at the Society for Glycobiology, St Petersburg, FL, November 17-20, 2013
    Marquis Who Who2018Albert Nelson Marquis Lifetime Achievement Award

    Collapse Overview 
    Collapse Overview
    My group has long-standing, extensive expertise and experience in mass spectrometry, proteomics and systems biology, especially focused on sequencing, identification and study of unknown proteins, and the detection, assignment and site-specific dynamics of posttranslational modifications of proteins, particularly OGlcNAcylation, phosphorylation, acetylation, methylation and ubiquitinylation. Over many years we have collaborated with the neurobiological community extensively, including structural characterization of the GPI membrane anchor of the prion protein, structure of the lysyl oxidase co-factor, identification and PTM regulation of proteins in the retrograde signaling complexes in damaged axons, the O-GlcNAc/phosphorylation dynamics at the murine synapse, identification of new proteins involved in the Nodes of Ranvier, etc.

    In addition to the work in proteomics and epigenetics above, we have focused significant effort on other studies concerning the architecture of protein complexes and machines for which angstrom resolution structural information has not yet been tractable. For example we have developed a new lysine-lysine cross-linking strategy based on chemical reductive amination that provides comprehensive sequence and cross-link site assignments using electron transfer dissociation (ETD). This information provides accurate distance constraints that complement cryoEM and computer modeling efforts. In parallel software algorithms and scoring strategies have been developed that greatly facilitates the assignment of cross-linked peptides in general. Very recently we have initiated a thrust into development and application of methodology to measure protein complexes directly in the gas phase using a newly acquired high mass Orbitrap Exactive instrument (m/z < 22,000). This effort will complement our long-standing work on chemical cross-linking of protein complexes and machines.

    Finally, we have developed a general suite of programs and software tools required for processing large scale mass spectral data sets (HCD, ETD, etc) and stable isotopic labeling experiments (SILAC, iTRAQ, etc) called Protein Prospector.

    Collapse Research 
    Collapse Research Activities and Funding
    Purchase of Q-Exactive Mass Spectrometer
    NIH S10OD016229Jun 15, 2013 - Jun 14, 2014
    Role: Principal Investigator
    Purchase of Applied Biosystems QTRAP 5500 Mass Spectrometer
    NIH S10RR026662May 6, 2010 - May 5, 2011
    Role: Principal Investigator
    Purchase of LTQ FT-ICR Hybrid Mass Spectrometer
    NIH S10RR019934Jul 1, 2004 - Jun 30, 2008
    Role: Principal Investigator
    SCCOR in translational research in Acute Lung Injury
    NIH P50HL074005Sep 30, 2003 - Jun 30, 2010
    Role: Co-Investigator
    Genetic Biochemical Studies of Plant Steroid Signaling
    NIH R01GM066258Aug 1, 2002 - Apr 30, 2020
    Role: Principal Investigator
    PURCHASE OF MICRO LC/NANO ESIQQTOF MASS SPECTROMETER
    NIH S10RR015804Apr 15, 2001 - Apr 14, 2005
    Role: Principal Investigator
    MALDI TOF/TOF TANDEM MASS SPECTROMETER
    NIH S10RR014606Feb 15, 2000 - Feb 14, 2004
    Role: Principal Investigator
    Resource for the Development of Biomedical Accelerator Mass Spectrometry (AMS)
    NIH P41RR013461Sep 30, 1999 - May 31, 2014
    Role: Co-Investigator
    Bio-Organic Biomedical Mass Spectrometry Resource
    NIH P41GM103481Mar 15, 1997 - May 31, 2016
    Role: Principal Investigator
    INTERNATIONAL SYMPOSIUM ON MS IN HEALTH &LIFE SCIENCES
    NIH R13RR009774Aug 15, 1994 - Aug 14, 1995
    Role: Principal Investigator
    2ND INTERNATIONAL SYMPOSIUM ON MASS SPECTROMETRY
    NIH R13RR004298Sep 15, 1988 - Sep 14, 1989
    Role: Principal Investigator
    Toxic Substances in the Environment
    NIH P42ES004705Sep 30, 1987 - Mar 31, 2017
    Role: Co-Investigator
    UCSF Liver Center
    NIH P30DK026743Jul 1, 1985 - May 31, 2023
    Role: Co-Investigator
    ELECTRON COLLISION-INDUCED DISSOCIATION FOR MASS SPECTRO
    NIH R01GM032067Apr 1, 1983 - Nov 30, 1986
    Role: Principal Investigator
    Bio-Organic Biomedical Mass Spectrometry Resource
    NIH P41RR001614Mar 1, 1982 - May 31, 2015
    Role: Principal Investigator
    Resource for Biocomputing, Visualization, and Informatics
    NIH/NCRR P41RR001081Jun 1, 1976 - Sep 14, 2012
    Role: Co-Investigator

    Collapse ORNG Applications 
    Collapse Academic Senate

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Epithelial STAT6 O-GlcNAcylation drives a concerted anti-helminth alarmin response dependent on tuft cell hyperplasia and Gasdermin C. Immunity. 2022 Jul 12; 55(7):1327. Zhao M, Ren K, Xiong X, Xin Y, Zou Y, Maynard JC, Kim A, Battist AP, Koneripalli N, Wang Y, Chen Q, Xin R, Yang C, Huang R, Yu J, Huang Z, Zhang Z, Wang H, Wang D, Xiao Y, Salgado OC, Jarjour NN, Hogquist KA, Revelo XS, Burlingame AL, Gao X, von Moltke J, Lin Z, Ruan HB. PMID: 35830826; PMCID: PMC9336012.
      View in: PubMed   Mentions:    Fields:    
    2. Deconvoluting signals downstream of growth and immune receptor kinases by phosphocodes of the BSU1 family phosphatases. Nat Plants. 2022 06; 8(6):646-655. Park CH, Bi Y, Youn JH, Kim SH, Kim JG, Xu NY, Shrestha R, Burlingame AL, Xu SL, Mudgett MB, Kim SK, Kim TW, Wang ZY. PMID: 35697730.
      View in: PubMed   Mentions:    Fields:    Translation:Animals
    3. Intra-axonal translation of Khsrp mRNA slows axon regeneration by destabilizing localized mRNAs. Nucleic Acids Res. 2022 06 10; 50(10):5772-5792. Patel P, Buchanan CN, Zdradzinski MD, Sahoo PK, Kar AN, Lee SJ, Vaughn LS, Urisman A, Oses-Prieto J, Dell'Orco M, Cassidy DE, Costa ID, Miller S, Thames E, Smith TP, Burlingame AL, Perrone-Bizzozero N, Twiss JL. PMID: 35556128; PMCID: PMC9177972.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    4. Reversible lysine-targeted probes reveal residence time-based kinase selectivity. Nat Chem Biol. 2022 May 19. Yang T, Cuesta A, Wan X, Craven GB, Hirakawa B, Khamphavong P, May JR, Kath JC, Lapek JD, Niessen S, Burlingame AL, Carelli JD, Taunton J. PMID: 35590003.
      View in: PubMed   Mentions:    Fields:    
    5. Covalent labeling of a chromatin reader domain using proximity-reactive cyclic peptides. Chem Sci. 2022 Jun 07; 13(22):6599-6609. Zhang MY, Yang H, Ortiz G, Trnka MJ, Petronikolou N, Burlingame AL, DeGrado WF, Fujimori DG. PMID: 35756531; PMCID: PMC9172573.
      View in: PubMed   Mentions:
    6. Epithelial STAT6 O-GlcNAcylation drives a concerted anti-helminth alarmin response dependent on tuft cell hyperplasia and Gasdermin C. Immunity. 2022 04 12; 55(4):623-638.e5. Zhao M, Ren K, Xiong X, Xin Y, Zou Y, Maynard JC, Kim A, Battist AP, Koneripalli N, Wang Y, Chen Q, Xin R, Yang C, Huang R, Yu J, Huang Z, Zhang Z, Wang H, Wang D, Xiao Y, Salgado OC, Jarjour NN, Hogquist KA, Revelo XS, Burlingame AL, Gao X, von Moltke J, Lin Z, Ruan HB. PMID: 35385697; PMCID: PMC9109499.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    7. Modulating environmental signals to reveal mechanisms and vulnerabilities of cancer persisters. Sci Adv. 2022 01 28; 8(4):eabi7711. Sun X, Bieber JM, Hammerlindl H, Chalkley RJ, Li KH, Burlingame AL, Jacobson MP, Wu LF, Altschuler SJ. PMID: 35089788; PMCID: PMC8797778.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    8. Disruption of MeCP2-TCF20 complex underlies distinct neurodevelopmental disorders. Proc Natl Acad Sci U S A. 2022 01 25; 119(4). Zhou J, Hamdan H, Yalamanchili HK, Pang K, Pohodich AE, Lopez J, Shao Y, Oses-Prieto JA, Li L, Kim W, Durham MA, Bajikar SS, Palmer DJ, Ng P, Thompson ML, Bebin EM, Müller AJ, Kuechler A, Kampmeier A, Haack TB, Burlingame AL, Liu Z, Rasband MN, Zoghbi HY. PMID: 35074918; PMCID: PMC8794850.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    9. Comparative Proteomics of Coxiella like Endosymbionts (CLEs) in the Symbiotic Organs of Rhipicephalus sanguineus Ticks. Microbiol Spectr. 2022 02 23; 10(1):e0167321. Cibichakravarthy B, Oses-Prieto JA, Ben-Yosef M, Burlingame AL, Karr TL, Gottlieb Y. PMID: 35019702; PMCID: PMC8754119.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    10. Hemin-Induced Death Models Hemorrhagic Stroke and Is a Variant of Classical Neuronal Ferroptosis. J Neurosci. 2022 03 09; 42(10):2065-2079. Zille M, Oses-Prieto JA, Savage SR, Karuppagounder SS, Chen Y, Kumar A, Morris JH, Scheidt KA, Burlingame AL, Ratan RR. PMID: 34987108; PMCID: PMC8916756.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    11. TSC1 loss increases risk for tauopathy by inducing tau acetylation and preventing tau clearance via chaperone-mediated autophagy. Sci Adv. 2021 Nov 05; 7(45):eabg3897. Alquezar C, Schoch KM, Geier EG, Ramos EM, Scrivo A, Li KH, Argouarch AR, Mlynarski EE, Dombroski B, DeTure M, Dickson DW, Yokoyama JS, Cuervo AM, Burlingame AL, Schellenberg GD, Miller TM, Miller BL, Kao AW. PMID: 34739309; PMCID: PMC8570595.
      View in: PubMed   Mentions: 3     Fields:    
    12. Molecular Characterization of AMPA-Receptor-Containing Vesicles. Front Mol Neurosci. 2021; 14:754631. Peters JJ, Leitz J, Oses-Prieto JA, Burlingame AL, Brunger AT. PMID: 34720876; PMCID: PMC8554035.
      View in: PubMed   Mentions:
    13. Working toward reducing bias in peer review. J Lipid Res. 2021; 62:100124. Rye KA, Davidson NO, Burlingame AL, Guengerich FP. PMID: 34592244; PMCID: PMC8523846.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    14. Working toward reducing bias in peer review. J Biol Chem. 2021 10; 297(4):101243. Rye KA, Davidson NO, Burlingame AL, Guengerich FP. PMID: 34592313; PMCID: PMC8503625.
      View in: PubMed   Mentions:    Fields:    
    15. Working Toward Reducing Bias in Peer Review. Mol Cell Proteomics. 2021; 20:100152. Rye KA, Davidson NO, Burlingame AL, Guengerich FP. PMID: 34592424; PMCID: PMC8523867.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    16. ERα is an RNA-binding protein sustaining tumor cell survival and drug resistance. Cell. 2021 09 30; 184(20):5215-5229.e17. Xu Y, Huangyang P, Wang Y, Xue L, Devericks E, Nguyen HG, Yu X, Oses-Prieto JA, Burlingame AL, Miglani S, Goodarzi H, Ruggero D. PMID: 34559986; PMCID: PMC8547373.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansAnimalsCells
    17. The glycine arginine-rich domain of the RNA-binding protein nucleolin regulates its subcellular localization. EMBO J. 2021 10 18; 40(20):e107158. Doron-Mandel E, Koppel I, Abraham O, Rishal I, Smith TP, Buchanan CN, Sahoo PK, Kadlec J, Oses-Prieto JA, Kawaguchi R, Alber S, Zahavi EE, Di Matteo P, Di Pizio A, Song DA, Okladnikov N, Gordon D, Ben-Dor S, Haffner-Krausz R, Coppola G, Burlingame AL, Jungwirth P, Twiss JL, Fainzilber M. PMID: 34515347; PMCID: PMC8521312.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansAnimalsCells
    18. Cell-cell adhesion regulates Merlin/NF2 interaction with the PAF complex. PLoS One. 2021; 16(8):e0254697. Roehrig AE, Klupsch K, Oses-Prieto JA, Chaib S, Henderson S, Emmett W, Young LC, Surinova S, Blees A, Pfeiffer A, Tijani M, Brunk F, Hartig N, Muñoz-Alegre M, Hergovich A, Jennings BH, Burlingame AL, Rodriguez-Viciana P. PMID: 34424918; PMCID: PMC8382200.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    19. Isotopically Dimethyl Labeling-Based Quantitative Proteomic Analysis of Phosphoproteomes of Soybean Cultivars. Biomolecules. 2021 08 16; 11(8). Moradi A, Dai S, Wong EOY, Zhu G, Yu F, Lam HM, Wang Z, Burlingame A, Lin C, Afsharifar A, Yu W, Wang T, Li N. PMID: 34439883; PMCID: PMC8393417.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    20. Processing of progranulin into granulins involves multiple lysosomal proteases and is affected in frontotemporal lobar degeneration. Mol Neurodegener. 2021 08 03; 16(1):51. Mohan S, Sampognaro PJ, Argouarch AR, Maynard JC, Welch M, Patwardhan A, Courtney EC, Zhang J, Mason A, Li KH, Huang EJ, Seeley WW, Miller BL, Burlingame A, Jacobson MP, Kao AW. PMID: 34344440; PMCID: PMC8330050.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    21. Ankyrin-R regulates fast-spiking interneuron excitability through perineuronal nets and Kv3.1b K+ channels. Elife. 2021 06 28; 10. Stevens SR, Longley CM, Ogawa Y, Teliska LH, Arumanayagam AS, Nair S, Oses-Prieto JA, Burlingame AL, Cykowski MD, Xue M, Rasband MN. PMID: 34180393; PMCID: PMC8257253.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    22. Low-density lipoprotein receptor-related protein 1 (LRP1) is a novel receptor for apolipoprotein A4 (APOA4) in adipose tissue. Sci Rep. 2021 06 24; 11(1):13289. Qu J, Fourman S, Fitzgerald M, Liu M, Nair S, Oses-Prieto J, Burlingame A, Morris JH, Davidson WS, Tso P, Bhargava A. PMID: 34168225; PMCID: PMC8225859.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    23. Native mass spectrometry analyses of chaperonin complex TRiC/CCT reveal subunit N-terminal processing and re-association patterns. Sci Rep. 2021 06 22; 11(1):13084. Collier MP, Moreira KB, Li KH, Chen YC, Itzhak D, Samant R, Leitner A, Burlingame A, Frydman J. PMID: 34158536; PMCID: PMC8219831.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    24. Proteomic Analysis of Src Family Kinase Phosphorylation States in Cancer Cells Suggests Deregulation of the Unique Domain. Mol Cancer Res. 2021 06; 19(6):957-967. Ruiz-Saenz A, Zahedi F, Peterson E, Yoo A, Dreyer CA, Spassov DS, Oses-Prieto J, Burlingame A, Moasser MM. PMID: 33727342; PMCID: PMC8178206.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    25. The major cap-binding protein eIF4E regulates lipid homeostasis and diet-induced obesity. Nat Metab. 2021 02; 3(2):244-257. Conn CS, Yang H, Tom HJ, Ikeda K, Oses-Prieto JA, Vu H, Oguri Y, Nair S, Gill RM, Kajimura S, DeBerardinis RJ, Burlingame AL, Ruggero D. PMID: 33619378.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    26. Arabidopsis ACINUS is O-glycosylated and regulates transcription and alternative splicing of regulators of reproductive transitions. Nat Commun. 2021 02 11; 12(1):945. Bi Y, Deng Z, Ni W, Shrestha R, Savage D, Hartwig T, Patil S, Hong SH, Zhang Z, Oses-Prieto JA, Li KH, Quail PH, Burlingame AL, Xu SL, Wang ZY. PMID: 33574257; PMCID: PMC7878923.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    27. Composition and origin of lung fluid proteome in premature infants and relationship to respiratory outcome. PLoS One. 2020; 15(12):e0243168. Ballard PL, Oses-Prieto J, Chapin C, Segal MR, Ballard RA, Burlingame AL. PMID: 33301538; PMCID: PMC7728257.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    28. Reactivity-Based Probe of the Iron(II)-Dependent Interactome Identifies New Cellular Modulators of Ferroptosis. J Am Chem Soc. 2020 11 11; 142(45):19085-19093. Chen YC, Oses-Prieto JA, Pope LE, Burlingame AL, Dixon SJ, Renslo AR. PMID: 33124817; PMCID: PMC8297516.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    29. 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; PMCID: PMC7710137.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    30. Age-related loss of neural stem cell O-GlcNAc promotes a glial fate switch through STAT3 activation. Proc Natl Acad Sci U S A. 2020 09 08; 117(36):22214-22224. White CW, Fan X, Maynard JC, Wheatley EG, Bieri G, Couthouis J, Burlingame AL, Villeda SA. PMID: 32848054; PMCID: PMC7486730.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    31. 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; PMCID: PMC7505659.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansCells
    32. Cytosolic N-GlcNAc proteins are formed by the action of endo-β-N-acetylglucosaminidase. Biochem Biophys Res Commun. 2020 10 01; 530(4):719-724. Maynard JC, Fujihira H, Dolgonos GE, Suzuki T, Burlingame AL. PMID: 32782141; PMCID: PMC7508226.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCells
    33. TMEM16K is an interorganelle regulator of endosomal sorting. Nat Commun. 2020 07 03; 11(1):3298. Petkovic M, Oses-Prieto J, Burlingame A, Jan LY, Jan YN. PMID: 32620747; PMCID: PMC7335067.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    34. Opening ASBMB publications freely to all. J Lipid Res. 2020 07; 61(7):969-970. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 32398265; PMCID: PMC7328051.
      View in: PubMed   Mentions:    Fields:    
    35. Opening ASBMB publications freely to all. Mol Cell Proteomics. 2020 06; 19(6):914-915. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 32398347; PMCID: PMC7261818.
      View in: PubMed   Mentions:    Fields:    
    36. TRIPP Is a Plant-Specific Component of the Arabidopsis TRAPPII Membrane Trafficking Complex with Important Roles in Plant Development. Plant Cell. 2020 07; 32(7):2424-2443. Garcia VJ, Xu SL, Ravikumar R, Wang W, Elliott L, Gonzalez E, Fesenko M, Altmann M, Brunschweiger B, Falter-Braun P, Moore I, Burlingame A, Assaad FF, Wang ZY. PMID: 32371545; PMCID: PMC7346556.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    37. 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; PMCID: PMC7321842.
      View in: PubMed   Mentions: 25     Fields:    Translation:HumansCells
    38. Characterization of Prenylated C-terminal Peptides Using a Thiopropyl-based Capture Technique and LC-MS/MS. Mol Cell Proteomics. 2020 06; 19(6):1005-1016. Wilkins JA, Kaasik K, Chalkley RJ, Burlingame AL. PMID: 32284353; PMCID: PMC7261820.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    39. Virtual Issue: Technological Innovations. Mol Cell Proteomics. 2020 04; 19(4):572-573. Gingras AC, Carr SA, Burlingame AL. PMID: 32184224; PMCID: PMC7124464.
      View in: PubMed   Mentions:    Fields:    
    40. Compliance Checklists No Longer Required at Initial Manuscript Submission. Mol Cell Proteomics. 2020 04; 19(4):571. Burlingame AL, Carr S, Gingras AC. PMID: 32179581; PMCID: PMC7124465.
      View in: PubMed   Mentions:    Fields:    
    41. The change of gravity vector induces short-term phosphoproteomic alterations in Arabidopsis. J Proteomics. 2020 04 30; 218:103720. Yang Z, Guo G, Yang N, Pun SS, Ho TKL, Ji L, Hu I, Zhang J, Burlingame AL, Li N. PMID: 32120044.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
    42. The data must be accessible to all. J Lipid Res. 2020 04; 61(4):465. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 32071074; PMCID: PMC7112146.
      View in: PubMed   Mentions: 1     Fields:    
    43. The data must be accessible to all. J Biol Chem. 2020 03 27; 295(13):4371. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 32071082; PMCID: PMC7105319.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    44. The Data Must Be Accessible to All. Mol Cell Proteomics. 2020 04; 19(4):569-570. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 32071148; PMCID: PMC7124474.
      View in: PubMed   Mentions: 1     Fields:    
    45. Ligand Conformational Bias Drives Enantioselective Modification of a Surface-Exposed Lysine on Hsp90. J Am Chem Soc. 2020 02 19; 142(7):3392-3400. Cuesta A, Wan X, Burlingame AL, Taunton J. PMID: 32009391.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    46. NuMA1 promotes axon initial segment assembly through inhibition of endocytosis. J Cell Biol. 2020 02 03; 219(2). Torii T, Ogawa Y, Liu CH, Ho TS, Hamdan H, Wang CC, Oses-Prieto JA, Burlingame AL, Rasband MN. PMID: 31727776; PMCID: PMC7041696.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimalsCells
    47. Mapping axon initial segment structure and function by multiplexed proximity biotinylation. Nat Commun. 2020 01 03; 11(1):100. Hamdan H, Lim BC, Torii T, Joshi A, Konning M, Smith C, Palmer DJ, Ng P, Leterrier C, Oses-Prieto JA, Burlingame AL, Rasband MN. PMID: 31900387; PMCID: PMC6941957.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansAnimalsCells
    48. p38γ MAPK contributes to left ventricular remodeling after pathologic stress and disinhibits calpain through phosphorylation of calpastatin. FASEB J. 2019 12; 33(12):13131-13144. Loonat AA, Martin ED, Sarafraz-Shekary N, Tilgner K, Hertz NT, Levin R, Shokat KM, Burlingame AL, Arabacilar P, Uddin S, Thomas M, Marber MS, Clark JE. PMID: 31638431; PMCID: PMC6894093.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    49. Quantitative proteomic analysis reveals high interference on protein expression of H9c2 cells activated with glucose and cardiotonic steroids. J Proteomics. 2020 01 16; 211:103536. Meneses-Romero E, Hernández-Orihuela L, Pando-Robles V, López TD, Oses-Prieto JA, Burlingame AL, Batista CVF. PMID: 31629057.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    50. 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; PMCID: PMC7039410.
      View in: PubMed   Mentions: 131     Fields:    Translation:AnimalsCells
    51. The Golgi Outpost Protein TPPP Nucleates Microtubules and Is Critical for Myelination. Cell. 2019 09 19; 179(1):132-146.e14. Fu MM, McAlear TS, Nguyen H, Oses-Prieto JA, Valenzuela A, Shi RD, Perrino JJ, Huang TT, Burlingame AL, Bechstedt S, Barres BA. PMID: 31522887; PMCID: PMC7214773.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansAnimalsCells
    52. The Gene-Silencing Protein MORC-1 Topologically Entraps DNA and Forms Multimeric Assemblies to Cause DNA Compaction. Mol Cell. 2019 08 22; 75(4):700-710.e6. Kim H, Yen L, Wongpalee SP, Kirshner JA, Mehta N, Xue Y, Johnston JB, Burlingame AL, Kim JK, Loparo JJ, Jacobsen SE. PMID: 31442422; PMCID: PMC6814019.
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    53. A two-step probing method to compare lysine accessibility across macromolecular complex conformations. RNA Biol. 2019 10; 16(10):1346-1354. MacRae AJ, Coltri P, Hrabeta-Robinson E, Chalkley RJ, Burlingame AL, Jurica MS. PMID: 31213125; PMCID: PMC6779377.
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    54. Mutual Regulation of Receptor-Like Kinase SIT1 and B'κ-PP2A Shapes the Early Response of Rice to Salt Stress. Plant Cell. 2019 09; 31(9):2131-2151. Zhao JL, Zhang LQ, Liu N, Xu SL, Yue ZL, Zhang LL, Deng ZP, Burlingame AL, Sun DY, Wang ZY, Sun Y, Zhang SW. PMID: 31221736; PMCID: PMC6751134.
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    55. Tau/MAPT disease-associated variant A152T alters tau function and toxicity via impaired retrograde axonal transport. Hum Mol Genet. 2019 05 01; 28(9):1498-1514. Butler VJ, Salazar DA, Soriano-Castell D, Alves-Ferreira M, Dennissen FJA, Vohra M, Oses-Prieto JA, Li KH, Wang AL, Jing B, Li B, Groisman A, Gutierrez E, Mooney S, Burlingame AL, Ashrafi K, Mandelkow EM, Encalada SE, Kao AW. PMID: 30590647; PMCID: PMC6489414.
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    56. Phosphoregulation of the oncogenic protein regulator of cytokinesis 1 (PRC1) by the atypical CDK16/CCNY complex. Exp Mol Med. 2019 04 16; 51(4):1-17. Hernández-Ortega S, Sánchez-Botet A, Quandt E, Masip N, Gasa L, Verde G, Jiménez J, Levin RS, Rutaganira FU, Burlingame AL, Wolfgeher D, Ribeiro MPC, Kron SJ, Shokat KM, Clotet J. PMID: 30992425; PMCID: PMC6467995.
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    57. Phosphorylation at distinct subcellular locations underlies specificity in mTORC2-mediated activation of SGK1 and Akt. J Cell Sci. 2019 04 09; 132(7). Gleason CE, Oses-Prieto JA, Li KH, Saha B, Situ G, Burlingame AL, Pearce D. PMID: 30837283; PMCID: PMC6467483.
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    58. Mechanisms underlying the synaptic trafficking of the glutamate delta receptor GluD1. Mol Psychiatry. 2019 10; 24(10):1451-1460. Tao W, Ma C, Bemben MA, Li KH, Burlingame AL, Zhang M, Nicoll RA. PMID: 30824864; PMCID: PMC9074916.
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    59. For the sake of science. J Biol Chem. 2019 02 22; 294(8):2976. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 30760528; PMCID: PMC6393601.
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    60. For the Sake of Science. Mol Cell Proteomics. 2019 03; 18(3):406-407. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 30760536; PMCID: PMC6398209.
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    61. For the sake of science. J Lipid Res. 2019 04; 60(4):719-720. Gierasch LM, Davidson NO, Rye KA, Burlingame AL. PMID: 30760539; PMCID: PMC6446713.
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    62. Chemically reprogramming the phospho-transfer reaction to crosslink protein kinases to their substrates. Protein Sci. 2019 03; 28(3):654-662. Wong AW, Urisman A, Burlingame AL, Shokat KM. PMID: 30636329; PMCID: PMC6371225.
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    63. The lineage stability and suppressive program of regulatory T cells require protein O-GlcNAcylation. Nat Commun. 2019 01 21; 10(1):354. Liu B, Salgado OC, Singh S, Hippen KL, Maynard JC, Burlingame AL, Ball LE, Blazar BR, Farrar MA, Hogquist KA, Ruan HB. PMID: 30664665; PMCID: PMC6341091.
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    64. 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; PMCID: PMC6327041.
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    65. Chemically induced vesiculation as a platform for studying TMEM16F activity. Proc Natl Acad Sci U S A. 2019 01 22; 116(4):1309-1318. Han TW, Ye W, Bethel NP, Zubia M, Kim A, Li KH, Burlingame AL, Grabe M, Jan YN, Jan LY. PMID: 30622179; PMCID: PMC6347726.
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    66. Probing the Interactome of Corticotropin-Releasing Factor Receptor Heteromers Using Mass Spectrometry. Methods Mol Biol. 2019; 1947:269-285. Hasdemir B, Oses-Prieto JA, Burlingame A, Bhargava A. PMID: 30969422.
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    67. A Viral Protein Restricts Drosophila RNAi Immunity by Regulating Argonaute Activity and Stability. Cell Host Microbe. 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; PMCID: PMC6450077.
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    68. Targeting CD46 for both adenocarcinoma and neuroendocrine prostate cancer. JCI Insight. 2018 09 06; 3(17). Su Y, Liu Y, Behrens CR, Bidlingmaier S, Lee NK, Aggarwal R, Sherbenou DW, Burlingame AL, Hann BC, Simko JP, Premasekharan G, Paris PL, Shuman MA, Seo Y, Small EJ, Liu B. PMID: 30185663; PMCID: PMC6171802.
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    69. Axonal G3BP1 stress granule protein limits axonal mRNA translation and nerve regeneration. Nat Commun. 2018 08 22; 9(1):3358. Sahoo PK, Lee SJ, Jaiswal PB, Alber S, Kar AN, Miller-Randolph S, Taylor EE, Smith T, Singh B, Ho TS, Urisman A, Chand S, Pena EA, Burlingame AL, Woolf CJ, Fainzilber M, English AW, Twiss JL. PMID: 30135423; PMCID: PMC6105716.
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    70. hnRNPs Interacting with mRNA Localization Motifs Define Axonal RNA Regulons. Mol Cell Proteomics. 2018 11; 17(11):2091-2106. Lee SJ, Oses-Prieto JA, Kawaguchi R, Sahoo PK, Kar AN, Rozenbaum M, Oliver D, Chand S, Ji H, Shtutman M, Miller-Randolph S, Taylor RJ, Fainzilber M, Coppola G, Burlingame AL, Twiss JL. PMID: 30038033; PMCID: PMC6210225.
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    71. The lincRNA MIRAT binds to IQGAP1 and modulates the MAPK pathway in NRAS mutant melanoma. Sci Rep. 2018 Jul 19; 8(1):10902. Sanlorenzo M, Vujic I, Esteve-Puig R, Lai K, Vujic M, Lin K, Posch C, Dimon M, Moy A, Zekhtser M, Johnston K, Gho D, Ho W, Gajjala A, Oses Prieto J, Burlingame A, Daud A, Rappersberger K, Ortiz-Urda S. PMID: 30026510; PMCID: PMC6053443.
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    72. Schwann cell O-GlcNAcylation promotes peripheral nerve remyelination via attenuation of the AP-1 transcription factor JUN. Proc Natl Acad Sci U S A. 2018 07 31; 115(31):8019-8024. Kim S, Maynard JC, Strickland A, Burlingame AL, Milbrandt J. PMID: 30012597; PMCID: PMC6077742.
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    73. Gaining an Easy Visual Grasp on MCP Content. Mol Cell Proteomics. 2018 07; 17(7):1259-1260. Burlingame A, Carr S, Gingras AC. PMID: 29967216; PMCID: PMC6030724.
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    74. Arginine methylation of SMAD7 by PRMT1 in TGF-β-induced epithelial-mesenchymal transition and epithelial stem-cell generation. J Biol Chem. 2018 08 24; 293(34):13059-13072. Katsuno Y, Qin J, Oses-Prieto J, Wang H, Jackson-Weaver O, Zhang T, Lamouille S, Wu J, Burlingame A, Xu J, Derynck R. PMID: 29907569; PMCID: PMC6109915.
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    75. The ER membrane protein complex interacts cotranslationally to enable biogenesis of multipass membrane proteins. Elife. 2018 05 29; 7. Shurtleff MJ, Itzhak DN, Hussmann JA, Schirle Oakdale NT, Costa EA, Jonikas M, Weibezahn J, Popova KD, Jan CH, Sinitcyn P, Vembar SS, Hernandez H, Cox J, Burlingame AL, Brodsky JL, Frost A, Borner GH, Weissman JS. PMID: 29809151; PMCID: PMC5995541.
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    76. A molecular cascade modulates MAP1B and confers resistance to mTOR inhibition in human glioblastoma. Neuro Oncol. 2018 05 18; 20(6):764-775. Laks DR, Oses-Prieto JA, Alvarado AG, Nakashima J, Chand S, Azzam DB, Gholkar AA, Sperry J, Ludwig K, Condro MC, Nazarian S, Cardenas A, Shih MYS, Damoiseaux R, France B, Orozco N, Visnyei K, Crisman TJ, Gao F, Torres JZ, Coppola G, Burlingame AL, Kornblum HI. PMID: 29136244; PMCID: PMC5961175.
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    77. Translatome Regulation in Neuronal Injury and Axon Regrowth. eNeuro. 2018 Mar-Apr; 5(2). Rozenbaum M, Rajman M, Rishal I, Koppel I, Koley S, Medzihradszky KF, Oses-Prieto JA, Kawaguchi R, Amieux PS, Burlingame AL, Coppola G, Fainzilber M. PMID: 29756027; PMCID: PMC5944006.
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    78. 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; PMCID: PMC5976439.
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    79. Locally translated mTOR controls axonal local translation in nerve injury. Science. 2018 03 23; 359(6382):1416-1421. Terenzio M, Koley S, Samra N, Rishal I, Zhao Q, Sahoo PK, Urisman A, Marvaldi L, Oses-Prieto JA, Forester C, Gomes C, Kalinski AL, Di Pizio A, Doron-Mandel E, Perry RB, Koppel I, Twiss JL, Burlingame AL, Fainzilber M. PMID: 29567716; PMCID: PMC6501578.
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    80. The Transcriptionally Permissive Chromatin State of Embryonic Stem Cells Is Acutely Tuned to Translational Output. Cell Stem Cell. 2018 03 01; 22(3):369-383.e8. Bulut-Karslioglu A, Macrae TA, Oses-Prieto JA, Covarrubias S, Percharde M, Ku G, Diaz A, McManus MT, Burlingame AL, Ramalho-Santos M. PMID: 29499153; PMCID: PMC5836508.
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    81. Prp8 positioning of U5 snRNA is linked to 5' splice site recognition. RNA. 2018 06; 24(6):769-777. MacRae AJ, Mayerle M, Hrabeta-Robinson E, Chalkley RJ, Guthrie C, Burlingame AL, Jurica MS. PMID: 29487104; PMCID: PMC5959246.
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    82. Revealing nascent proteomics in signaling pathways and cell differentiation. Proc Natl Acad Sci U S A. 2018 03 06; 115(10):2353-2358. Forester CM, Zhao Q, Phillips NJ, Urisman A, Chalkley RJ, Oses-Prieto JA, Zhang L, Ruggero D, Burlingame AL. PMID: 29467287; PMCID: PMC5877968.
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    83. αII Spectrin Forms a Periodic Cytoskeleton at the Axon Initial Segment and Is Required for Nervous System Function. J Neurosci. 2017 11 22; 37(47):11311-11322. Huang CY, Zhang C, Ho TS, Oses-Prieto J, Burlingame AL, Lalonde J, Noebels JL, Leterrier C, Rasband MN. PMID: 29038240; PMCID: PMC5700417.
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    84. Hypoxia-ischemia modifies postsynaptic GluN2B-containing NMDA receptor complexes in the neonatal mouse brain. Exp Neurol. 2018 01; 299(Pt A):65-74. Lu F, Shao G, Wang Y, Guan S, Burlingame AL, Liu X, Liang X, Knox R, Ferriero DM, Jiang X. PMID: 28993251; PMCID: PMC5723550.
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    85. Peripheral Elevation of a Klotho Fragment Enhances Brain Function and Resilience in Young, Aging, and α-Synuclein Transgenic Mice. Cell Rep. 2017 08 08; 20(6):1360-1371. Leon J, Moreno AJ, Garay BI, Chalkley RJ, Burlingame AL, Wang D, Dubal DB. PMID: 28793260; PMCID: PMC5816951.
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    86. Actin cytoskeleton-dependent regulation of corticotropin-releasing factor receptor heteromers. Mol Biol Cell. 2017 Sep 01; 28(18):2386-2399. Hasdemir B, Mahajan S, Oses-Prieto J, Chand S, Woolley M, Burlingame A, Grammatopoulos DK, Bhargava A. PMID: 28701349; PMCID: PMC5576902.
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    87. 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; PMCID: PMC5606208.
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    88. 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; PMCID: PMC5564220.
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    89. PPKs mediate direct signal transfer from phytochrome photoreceptors to transcription factor PIF3. Nat Commun. 2017 05 11; 8:15236. Ni W, Xu SL, González-Grandío E, Chalkley RJ, Huhmer AFR, Burlingame AL, Wang ZY, Quail PH. PMID: 28492231; PMCID: PMC5437280.
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    90. Proteomic Analysis of Mouse Cortex Postsynaptic Density following Neonatal Brain Hypoxia-Ischemia. Dev Neurosci. 2017; 39(1-4):66-81. Shao G, Wang Y, Guan S, Burlingame AL, Lu F, Knox R, Ferriero DM, Jiang X. PMID: 28315865; PMCID: PMC5519436.
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    91. Proteomic analysis reveals O-GlcNAc modification on proteins with key regulatory functions in Arabidopsis. Proc Natl Acad Sci U S A. 2017 02 21; 114(8):E1536-E1543. Xu SL, Chalkley RJ, Maynard JC, Wang W, Ni W, Jiang X, Shin K, Cheng L, Savage D, Hühmer AF, Burlingame AL, Wang ZY. PMID: 28154133; PMCID: PMC5338445.
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    92. Reduced Insulin/IGF-1 Signaling Restores the Dynamic Properties of Key Stress Granule Proteins during Aging. Cell Rep. 2017 01 10; 18(2):454-467. Lechler MC, Crawford ED, Groh N, Widmaier K, Jung R, Kirstein J, Trinidad JC, Burlingame AL, David DC. PMID: 28076789; PMCID: PMC5263236.
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    93. TAOK2 Kinase Mediates PSD95 Stability and Dendritic Spine Maturation through Septin7 Phosphorylation. Neuron. 2017 Jan 18; 93(2):379-393. Yadav S, Oses-Prieto JA, Peters CJ, Zhou J, Pleasure SJ, Burlingame AL, Jan LY, Jan YN. PMID: 28065648; PMCID: PMC5267388.
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    94. Broad-Spectrum Kinase Profiling in Live Cells with Lysine-Targeted Sulfonyl Fluoride Probes. J Am Chem Soc. 2017 01 18; 139(2):680-685. Zhao Q, Ouyang X, Wan X, Gajiwala KS, Kath JC, Jones LH, Burlingame AL, Taunton J. PMID: 28051857; PMCID: PMC5858558.
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    95. An Optimized Chromatographic Strategy for Multiplexing In Parallel Reaction Monitoring Mass Spectrometry: Insights from Quantitation of Activated Kinases. Mol Cell Proteomics. 2017 02; 16(2):265-277. Urisman A, Levin RS, Gordan JD, Webber JT, Hernandez H, Ishihama Y, Shokat KM, Burlingame AL. PMID: 27940637; PMCID: PMC5294213.
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    96. Quantitative Proteomics Reveals Fundamental Regulatory Differences in Oncogenic HRAS and Isocitrate Dehydrogenase (IDH1) Driven Astrocytoma. Mol Cell Proteomics. 2017 01; 16(1):39-56. Doll S, Urisman A, Oses-Prieto JA, Arnott D, Burlingame AL. PMID: 27834733; PMCID: PMC5217781.
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    97. Antiinflammatory Effects of Budesonide in Human Fetal Lung. Am J Respir Cell Mol Biol. 2016 11; 55(5):623-632. Barrette AM, Roberts JK, Chapin C, Egan EA, Segal MR, Oses-Prieto JA, Chand S, Burlingame AL, Ballard PL. PMID: 27281349; PMCID: PMC5105184.
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    98. Immunopurification and Mass Spectrometry Identifies Protein Phosphatase 2A (PP2A) and BIN2/GSK3 as Regulators of AKS Transcription Factors in Arabidopsis. Mol Plant. 2017 02 13; 10(2):345-348. Bu SL, Liu C, Liu N, Zhao JL, Ai LF, Chi H, Li KL, Chien CW, Burlingame AL, Zhang SW, Wang ZY. PMID: 27769939; PMCID: PMC5457793.
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    99. Schwann Cell O-GlcNAc Glycosylation Is Required for Myelin Maintenance and Axon Integrity. J Neurosci. 2016 09 14; 36(37):9633-46. Kim S, Maynard JC, Sasaki Y, Strickland A, Sherman DL, Brophy PJ, Burlingame AL, Milbrandt J. PMID: 27629714; PMCID: PMC5039245.
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    100. 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; PMCID: PMC5589196.
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    101. Cysteine S-linked N-acetylglucosamine (S-GlcNAcylation), A New Post-translational Modification in Mammals. Mol Cell Proteomics. 2016 11; 15(11):3405-3411. Maynard JC, Burlingame AL, Medzihradszky KF. PMID: 27558639; PMCID: PMC5098038.
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    102. Mouse MORC3 is a GHKL ATPase that localizes to H3K4me3 marked chromatin. Proc Natl Acad Sci U S A. 2016 08 30; 113(35):E5108-16. Li S, Yen L, Pastor WA, Johnston JB, Du J, Shew CJ, Liu W, Ho J, Stender B, Clark AT, Burlingame AL, Daxinger L, Patel DJ, Jacobsen SE. PMID: 27528681; PMCID: PMC5024608.
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    103. Innate immunity kinase TAK1 phosphorylates Rab1 on a hotspot for posttranslational modifications by host and pathogen. Proc Natl Acad Sci U S A. 2016 08 16; 113(33):E4776-83. Levin RS, Hertz NT, Burlingame AL, Shokat KM, Mukherjee S. PMID: 27482120; PMCID: PMC4995946.
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    104. Nucleolin-Mediated RNA Localization Regulates Neuron Growth and Cycling Cell Size. Cell Rep. 2016 08 09; 16(6):1664-1676. Perry RB, Rishal I, Doron-Mandel E, Kalinski AL, Medzihradszky KF, Terenzio M, Alber S, Koley S, Lin A, Rozenbaum M, Yudin D, Sahoo PK, Gomes C, Shinder V, Geraisy W, Huebner EA, Woolf CJ, Yaron A, Burlingame AL, Twiss JL, Fainzilber M. PMID: 27477284; PMCID: PMC4978702.
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    105. Activation of HIPK2 Promotes ER Stress-Mediated Neurodegeneration in Amyotrophic Lateral Sclerosis. Neuron. 2016 07 06; 91(1):41-55. Lee S, Shang Y, Redmond SA, Urisman A, Tang AA, Li KH, Burlingame AL, Pak RA, Jovicic A, Gitler AD, Wang J, Gray NS, Seeley WW, Siddique T, Bigio EH, Lee VM, Trojanowski JQ, Chan JR, Huang EJ. PMID: 27321923; PMCID: PMC4938715.
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    106. On Strengthening the MCP Editorial Leadership. Mol Cell Proteomics. 2016 07; 15(7):2214-6. Burlingame AL. PMID: 27281785; PMCID: PMC4937498.
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    107. The Arabidopsis B-box protein BZS1/BBX20 interacts with HY5 and mediates strigolactone regulation of photomorphogenesis. J Genet Genomics. 2016 09 20; 43(9):555-563. Wei CQ, Chien CW, Ai LF, Zhao J, Zhang Z, Li KH, Burlingame AL, Sun Y, Wang ZY. PMID: 27523280; PMCID: PMC5457796.
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    108. Phosphoproteomic Analyses of NRAS(G12) and NRAS(Q61) Mutant Melanocytes Reveal Increased CK2α Kinase Levels in NRAS(Q61) Mutant Cells. J Invest Dermatol. 2016 10; 136(10):2041-2048. Posch C, Sanlorenzo M, Vujic I, Oses-Prieto JA, Cholewa BD, Kim ST, Ma J, Lai K, Zekhtser M, Esteve-Puig R, Green G, Chand S, Burlingame AL, Panzer-Grümayer R, Rappersberger K, Ortiz-Urda S. PMID: 27251789; PMCID: PMC6373467.
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    109. Oncogenic KIT mutations in different exons lead to specific changes in melanocyte phospho-proteome. J Proteomics. 2016 07 20; 144:140-7. Sanlorenzo M, Vujic I, Posch C, Ma J, Lin K, Lai K, Lee D, Vujic M, Oses-Prieto JA, Chand S, Rodriguez-Peralto JL, Burlingame A, Ortiz-Urda S. PMID: 27216642; PMCID: PMC5026456.
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    110. Photoactivatable protein labeling by singlet oxygen mediated reactions. Bioorg Med Chem Lett. 2016 07 15; 26(14):3359-3363. To TL, Medzihradszky KF, Burlingame AL, DeGrado WF, Jo H, Shu X. PMID: 27220724; PMCID: PMC4903891.
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    111. Human RNA Polymerase II Promoter Recruitment in Vitro Is Regulated by O-Linked N-Acetylglucosaminyltransferase (OGT). J Biol Chem. 2016 Jul 01; 291(27):14056-14061. Lewis BA, Burlingame AL, Myers SA. PMID: 27129214; PMCID: PMC4933165.
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    112. Concerted genomic targeting of H3K27 demethylase REF6 and chromatin-remodeling ATPase BRM in Arabidopsis. Nat Genet. 2016 06; 48(6):687-93. Li C, Gu L, Gao L, Chen C, Wei CQ, Qiu Q, Chien CW, Wang S, Jiang L, Ai LF, Chen CY, Yang S, Nguyen V, Qi Y, Snyder MP, Burlingame AL, Kohalmi SE, Huang S, Cao X, Wang ZY, Wu K, Chen X, Cui Y. PMID: 27111034; PMCID: PMC5134324.
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    113. N-Glycopeptide Profiling in Arabidopsis Inflorescence. Mol Cell Proteomics. 2016 06; 15(6):2048-54. Xu SL, Medzihradszky KF, Wang ZY, Burlingame AL, Chalkley RJ. PMID: 27067053; PMCID: PMC5083099.
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    114. SOX2 O-GlcNAcylation alters its protein-protein interactions and genomic occupancy to modulate gene expression in pluripotent cells. Elife. 2016 Mar 07; 5:e10647. Myers SA, Peddada S, Chatterjee N, Friedrich T, Tomoda K, Krings G, Thomas S, Maynard J, Broeker M, Thomson M, Pollard K, Yamanaka S, Burlingame AL, Panning B. PMID: 26949256; PMCID: PMC4841768.
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    115. saRNA-guided Ago2 targets the RITA complex to promoters to stimulate transcription. Cell Res. 2016 Mar; 26(3):320-35. Portnoy V, Lin SH, Li KH, Burlingame A, Hu ZH, Li H, Li LC. PMID: 26902284; PMCID: PMC4783471.
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    116. 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; PMCID: PMC4813495.
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    117. OsBRI1 Activates BR Signaling by Preventing Binding between the TPR and Kinase Domains of OsBSK3 via Phosphorylation. Plant Physiol. 2016 Feb; 170(2):1149-61. Zhang B, Wang X, Zhao Z, Wang R, Huang X, Zhu Y, Yuan L, Wang Y, Xu X, Burlingame AL, Gao Y, Sun Y, Tang W. PMID: 26697897; PMCID: PMC4734578.
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    118. Discrete spatial organization of TGFβ receptors couples receptor multimerization and signaling to cellular tension. Elife. 2015 Dec 10; 4:e09300. Rys JP, DuFort CC, Monteiro DA, Baird MA, Oses-Prieto JA, Chand S, Burlingame AL, Davidson MW, Alliston TN. PMID: 26652004; PMCID: PMC4728123.
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    119. The Brassinosteroid-Activated BRI1 Receptor Kinase Is Switched off by Dephosphorylation Mediated by Cytoplasm-Localized PP2A B' Subunits. Mol Plant. 2016 Jan 04; 9(1):148-157. Wang R, Liu M, Yuan M, Oses-Prieto JA, Cai X, Sun Y, Burlingame AL, Wang ZY, Tang W. PMID: 26517938.
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    120. A non-synonymous single-nucleotide polymorphism associated with multiple sclerosis risk affects the EVI5 interactome. Hum Mol Genet. 2015 Dec 15; 24(24):7151-8. Didonna A, Isobe N, Caillier SJ, Li KH, Burlingame AL, Hauser SL, Baranzini SE, Patsopoulos NA, Oksenberg JR. PMID: 26433934; PMCID: PMC5007634.
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    121. Oligomerization between BSU1 Family Members Potentiates Brassinosteroid Signaling in Arabidopsis. Mol Plant. 2016 Jan 04; 9(1):178-181. Kim EJ, Youn JH, Park CH, Kim TW, Guan S, Xu S, Burlingame AL, Kim YP, Kim SK, Wang ZY, Kim TW. PMID: 26432287; PMCID: PMC7144476.
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    122. 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; PMCID: PMC4631838.
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    123. Isolation and analyses of axonal ribonucleoprotein complexes. Methods Cell Biol. 2016; 131:467-86. Doron-Mandel E, Alber S, Oses JA, Medzihradszky KF, Burlingame AL, Fainzilber M, Twiss JL, Lee SJ. PMID: 26794529; PMCID: PMC4924573.
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    124. 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; PMCID: PMC5067139.
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    125. 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; PMCID: PMC4714924.
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    126. Tau post-translational modifications in wild-type and human amyloid precursor protein transgenic mice. Nat Neurosci. 2015 Aug; 18(8):1183-9. Morris M, Knudsen GM, Maeda S, Trinidad JC, Ioanoviciu A, Burlingame AL, Mucke L. PMID: 26192747; PMCID: PMC8049446.
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    127. Erratum: The ubiquitin-modifying enzyme A20 restricts ubiquitination of the kinase RIPK3 and protects cells from necroptosis. Nat Immunol. 2015 Jul; 16(7):785. Onizawa M, Oshima S, Schulze-Topphoff U, Oses-Prieto JA, Lu T, Tavares R, Prodhomme T, Duong B, Whang MI, Advincula R, Agelidis A, Barrera J, Wu H, Burlingame A, Malynn BA, Zamvil SS, Ma A. PMID: 26086145; PMCID: PMC4881846.
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    128. On Credibility, Clarity, and Compliance. Mol Cell Proteomics. 2015 Jul; 14(7):1731-3. Burlingame A, Carr SA, Bradshaw RA, Bradshaw RA, Chalkley RJ. PMID: 26041845; PMCID: PMC4587320.
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    129. A ribonucleoprotein complex protects the interleukin-6 mRNA from degradation by distinct herpesviral endonucleases. PLoS Pathog. 2015 May; 11(5):e1004899. Muller M, Hutin S, Marigold O, Li KH, Burlingame A, Glaunsinger BA. PMID: 25965334; PMCID: PMC4428876.
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    130. The ubiquitin-modifying enzyme A20 restricts ubiquitination of the kinase RIPK3 and protects cells from necroptosis. Nat Immunol. 2015 Jun; 16(6):618-27. Onizawa M, Oshima S, Schulze-Topphoff U, Oses-Prieto JA, Lu T, Tavares R, Prodhomme T, Duong B, Whang MI, Advincula R, Agelidis A, Barrera J, Wu H, Burlingame A, Malynn BA, Zamvil SS, Ma A. PMID: 25939025; PMCID: PMC4439357.
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    131. Minireviews revisited. Mol Cell Proteomics. 2015 Mar; 14(3):455. Bradshaw RA, Bradshaw RA, Burlingame AL. PMID: 25657218; PMCID: PMC4349968.
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    132. A20 restricts ubiquitination of pro-interleukin-1β protein complexes and suppresses NLRP3 inflammasome activity. Immunity. 2015 Jan 20; 42(1):55-67. Duong BH, Onizawa M, Oses-Prieto JA, Advincula R, Burlingame A, Malynn BA, Ma A. PMID: 25607459; PMCID: PMC4302274.
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    133. Mass spectrometry-based detection and assignment of protein posttranslational modifications. ACS Chem Biol. 2015 Jan 16; 10(1):63-71. Doll S, Burlingame AL. PMID: 25541750; PMCID: PMC4301092.
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    134. 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; PMCID: PMC4319004.
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    135. NGF and ProNGF: Regulation of neuronal and neoplastic responses through receptor signaling. Adv Biol Regul. 2015 May; 58:16-27. Bradshaw RA, Bradshaw RA, Pundavela J, Biarc J, Chalkley RJ, Burlingame AL, Hondermarck H. PMID: 25491371; PMCID: PMC4426037.
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    136. MST3 kinase phosphorylates TAO1/2 to enable Myosin Va function in promoting spine synapse development. Neuron. 2014 Dec 03; 84(5):968-82. Ultanir SK, Yadav S, Hertz NT, Oses-Prieto JA, Claxton S, Burlingame AL, Shokat KM, Jan LY, Jan YN. PMID: 25456499; PMCID: PMC4407996.
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    137. Oncogene mimicry as a mechanism of primary resistance to BRAF inhibitors. Cell Rep. 2014 Aug 21; 8(4):1037-48. Sos ML, Levin RS, Gordan JD, Oses-Prieto JA, Webber JT, Salt M, Hann B, Burlingame AL, McCormick F, Bandyopadhyay S, Shokat KM. PMID: 25127139; PMCID: PMC4294625.
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    138. Quantitative proteomic analysis of Huh-7 cells infected with Dengue virus by label-free LC-MS. J Proteomics. 2014 Dec 05; 111:16-29. Pando-Robles V, Oses-Prieto JA, Rodríguez-Gandarilla M, Meneses-Romero E, Burlingame AL, Batista CV. PMID: 25009145.
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    139. A mutually assured destruction mechanism attenuates light signaling in Arabidopsis. Science. 2014 Jun 06; 344(6188):1160-1164. Ni W, Xu SL, Tepperman JM, Stanley DJ, Maltby DA, Gross JD, Burlingame AL, Wang ZY, Quail PH. PMID: 24904166; PMCID: PMC4414656.
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    140. Blue light-induced proteomic changes in etiolated Arabidopsis seedlings. J Proteome Res. 2014 May 02; 13(5):2524-33. Deng Z, Oses-Prieto JA, Kutschera U, Tseng TS, Hao L, Burlingame AL, Wang ZY, Briggs WR. PMID: 24712693; PMCID: PMC4015686.
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    141. Syntaxin13 expression is regulated by mammalian target of rapamycin (mTOR) in injured neurons to promote axon regeneration. J Biol Chem. 2014 May 30; 289(22):15820-32. Cho Y, Di Liberto V, Carlin D, Abe N, Li KH, Burlingame AL, Guan S, Michaelevski I, Cavalli V. PMID: 24737317; PMCID: PMC4140936.
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    142. Double impact of cigarette smoke and mechanical ventilation on the alveolar epithelial type II cell. Crit Care. 2014 Mar 25; 18(2):R50. Hirsch J, Chalkley RJ, Bentley T, Burlingame AL, Frank JA. PMID: 24666941; PMCID: PMC4056080.
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    143. Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach. Mol Cell Proteomics. 2014 Mar; 13(3):907-17. Carr SA, Abbatiello SE, Ackermann BL, Borchers C, Domon B, Deutsch EW, Grant RP, Hoofnagle AN, Hüttenhain R, Koomen JM, Liebler DC, Liu T, MacLean B, Mani DR, Mansfield E, Neubert H, Paulovich AG, Reiter L, Vitek O, Aebersold R, Anderson L, Bethem R, Blonder J, Boja E, Botelho J, Boyne M, Bradshaw RA, Bradshaw RA, Burlingame AL, Chan D, Keshishian H, Kuhn E, Kinsinger C, Lee JS, Lee SW, Moritz R, Oses-Prieto J, Rifai N, Ritchie J, Rodriguez H, Srinivas PR, Townsend RR, Van Eyk J, Whiteley G, Wiita A, Weintraub S. PMID: 24443746; PMCID: PMC3945918.
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    144. Gammaherpesviral gene expression and virion composition are broadly controlled by accelerated mRNA degradation. PLoS Pathog. 2014 Jan; 10(1):e1003882. Abernathy E, Clyde K, Yeasmin R, Krug LT, Burlingame A, Coscoy L, Glaunsinger B. PMID: 24453974; PMCID: PMC3894220.
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    145. MEK-dependent negative feedback underlies BCR-ABL-mediated oncogene addiction. Cancer Discov. 2014 Feb; 4(2):200-15. Asmussen J, Lasater EA, Tajon C, Oses-Prieto J, Jun YW, Taylor BS, Burlingame A, Craik CS, Shah NP. PMID: 24362263; PMCID: PMC4248023.
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    147. An MRAS, SHOC2, and SCRIB complex coordinates ERK pathway activation with polarity and tumorigenic growth. Mol Cell. 2013 Dec 12; 52(5):679-92. Young LC, Hartig N, Muñoz-Alegre M, Oses-Prieto JA, Durdu S, Bender S, Vijayakumar V, Vietri Rudan M, Gewinner C, Henderson S, Jathoul AP, Ghatrora R, Lythgoe MF, Burlingame AL, Rodriguez-Viciana P. PMID: 24211266.
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    148. Global cellular response to chemotherapy-induced apoptosis. Elife. 2013 Oct 29; 2:e01236. Wiita AP, Ziv E, Wiita PJ, Urisman A, Julien O, Burlingame AL, Weissman JS, Wells JA. PMID: 24171104; PMCID: PMC3808542.
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    149. A brassinosteroid-signaling kinase interacts with multiple receptor-like kinases in Arabidopsis. Mol Plant. 2014 Feb; 7(2):441-4. Xu P, Xu SL, Li ZJ, Tang W, Burlingame AL, Wang ZY. PMID: 24051702; PMCID: PMC3900014.
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    150. Identification of BZR1-interacting proteins as potential components of the brassinosteroid signaling pathway in Arabidopsis through tandem affinity purification. Mol Cell Proteomics. 2013 Dec; 12(12):3653-65. Wang C, Shang JX, Chen QX, Oses-Prieto JA, Bai MY, Yang Y, Yuan M, Zhang YL, Mu CC, Deng Z, Wei CQ, Burlingame AL, Wang ZY, Sun Y. PMID: 24019147; PMCID: PMC3861714.
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    151. A neo-substrate that amplifies catalytic activity of parkinson's-disease-related kinase PINK1. Cell. 2013 Aug 15; 154(4):737-47. Hertz NT, Berthet A, Sos ML, Thorn KS, Burlingame AL, Nakamura K, Shokat KM. PMID: 23953109; PMCID: PMC3950538.
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    152. Multisite light-induced phosphorylation of the transcription factor PIF3 is necessary for both its rapid degradation and concomitant negative feedback modulation of photoreceptor phyB levels in Arabidopsis. Plant Cell. 2013 Jul; 25(7):2679-98. Ni W, Xu SL, Chalkley RJ, Pham TN, Guan S, Maltby DA, Burlingame AL, Wang ZY, Quail PH. PMID: 23903316; PMCID: PMC3753391.
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    153. Hypothemycin, a fungal natural product, identifies therapeutic targets in Trypanosoma brucei [corrected]. Elife. 2013 Jul 09; 2:e00712. Nishino M, Choy JW, Gushwa NN, Oses-Prieto JA, Koupparis K, Burlingame AL, Renslo AR, McKerrow JH, Taunton J. PMID: 23853713; PMCID: PMC3707081.
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    154. N- and O-glycosylation in the murine synaptosome. Mol Cell Proteomics. 2013 Dec; 12(12):3474-88. Trinidad JC, Schoepfer R, Burlingame AL, Medzihradszky KF. PMID: 23816992; PMCID: PMC3861701.
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    155. Western blots versus selected reaction monitoring assays: time to turn the tables? Mol Cell Proteomics. 2013 Sep; 12(9):2381-2. Aebersold R, Burlingame AL, Bradshaw RA, Bradshaw RA. PMID: 23756428; PMCID: PMC3769317.
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    156. Arginine Methylation Initiates BMP-Induced Smad Signaling. Mol Cell. 2013 Jul 11; 51(1):5-19. Xu J, Wang AH, Oses-Prieto J, Makhijani K, Katsuno Y, Pei M, Yan L, Zheng YG, Burlingame A, Brückner K, Derynck R. PMID: 23747011; PMCID: PMC3951972.
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    157. H/ACA small RNA dysfunctions in disease reveal key roles for noncoding RNA modifications in hematopoietic stem cell differentiation. Cell Rep. 2013 May 30; 3(5):1493-502. Bellodi C, McMahon M, Contreras A, Juliano D, Kopmar N, Nakamura T, Maltby D, Burlingame A, Savage SA, Shimamura A, Ruggero D. PMID: 23707062; PMCID: PMC3857015.
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    158. Three mechanisms assemble central nervous system nodes of Ranvier. Neuron. 2013 May 08; 78(3):469-82. Susuki K, Chang KJ, Zollinger DR, Liu Y, Ogawa Y, Eshed-Eisenbach Y, Dours-Zimmermann MT, Oses-Prieto JA, Burlingame AL, Seidenbecher CI, Zimmermann DR, Oohashi T, Peles E, Rasband MN. PMID: 23664614; PMCID: PMC3756512.
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    159. Nedd4 is a specific E3 ubiquitin ligase for the NMDA receptor subunit GluN2D. Neuropharmacology. 2013 Nov; 74:96-107. Gautam V, Trinidad JC, Rimerman RA, Costa BM, Burlingame AL, Monaghan DT. PMID: 23639431; PMCID: PMC3855079.
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    160. 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; PMCID: PMC3704229.
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    161. Dissecting the roles of tyrosines 490 and 785 of TrkA protein in the induction of downstream protein phosphorylation using chimeric receptors. J Biol Chem. 2013 Jun 07; 288(23):16606-16618. Biarc J, Chalkley RJ, Burlingame AL, Bradshaw RA, Bradshaw RA. PMID: 23589303; PMCID: PMC3675596.
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    162. ACBD3 interaction with TBC1 domain 22 protein is differentially affected by enteroviral and kobuviral 3A protein binding. mBio. 2013 Apr 09; 4(2):e00098-13. Greninger AL, Knudsen GM, Betegon M, Burlingame AL, DeRisi JL. PMID: 23572552; PMCID: PMC3622926.
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    163. A minimal anaphase promoting complex/cyclosome (APC/C) in Trypanosoma brucei. PLoS One. 2013; 8(3):e59258. Bessat M, Knudsen G, Burlingame AL, Wang CC. PMID: 23533609; PMCID: PMC3606461.
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    164. Inhibition of lysosomal enzyme activities by proton pump inhibitors. J Gastroenterol. 2013 Dec; 48(12):1343-52. Liu W, Baker SS, Trinidad J, Burlingame AL, Baker RD, Forte JG, Virtuoso LP, Egilmez NK, Zhu L. PMID: 23478938.
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    165. Electron transfer dissociation (ETD): the mass spectrometric breakthrough essential for O-GlcNAc protein site assignments-a study of the O-GlcNAcylated protein host cell factor C1. Proteomics. 2013 Mar; 13(6):982-91. Myers SA, Daou S, Affar el B, Burlingame A. PMID: 23335398; PMCID: PMC3988289.
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    166. Site-specific and regiospecific installation of methylarginine analogues into recombinant histones and insights into effector protein binding. J Am Chem Soc. 2013 Feb 27; 135(8):2879-82. Le DD, Cortesi AT, Myers SA, Burlingame AL, Fujimori DG. PMID: 23398247; PMCID: PMC4260808.
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    167. Glucose sensor O-GlcNAcylation coordinates with phosphorylation to regulate circadian clock. Cell Metab. 2013 Feb 05; 17(2):291-302. Kaasik K, Kivimäe S, Allen JJ, Chalkley RJ, Huang Y, Baer K, Kissel H, Burlingame AL, Shokat KM, Ptácek LJ, Fu YH. PMID: 23395175; PMCID: PMC3597447.
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    168. Rearrangements within human spliceosomes captured after exon ligation. RNA. 2013 Mar; 19(3):400-12. Ilagan JO, Chalkley RJ, Burlingame AL, Jurica MS. PMID: 23345524; PMCID: PMC3677250.
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    169. Chemical-biological characterization of a cruzain inhibitor reveals a second target and a mammalian off-target. Beilstein J Org Chem. 2013; 9:15-25. Choy JW, Bryant C, Calvet CM, Doyle PS, Gunatilleke SS, Leung SS, Ang KK, Chen S, Gut J, Oses-Prieto JA, Johnston JB, Arkin MR, Burlingame AL, Taunton J, Jacobson MP, McKerrow JM, Podust LM, Renslo AR. PMID: 23400640; PMCID: PMC3566858.
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    170. Genetic and mass spectrometric tools for elucidating the physiological function(s) of cytochrome P450 enzymes from Mycobacterium tuberculosis. Methods Mol Biol. 2013; 987:79-94. Ouellet H, Chow ED, Guan S, Cox JS, Burlingame AL, de Montellano PR. PMID: 23475669.
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    171. Differentiation of opioid drug effects by hierarchical multi-site phosphorylation. Mol Pharmacol. 2013 Mar; 83(3):633-9. Just S, Illing S, Trester-Zedlitz M, Lau EK, Kotowski SJ, Miess E, Mann A, Doll C, Trinidad JC, Burlingame AL, von Zastrow M, Schulz S. PMID: 23239825; PMCID: PMC3583494.
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    172. Substrates of IAP ubiquitin ligases identified with a designed orthogonal E3 ligase, the NEDDylator. Mol Cell. 2013 Jan 24; 49(2):273-82. Zhuang M, Guan S, Wang H, Burlingame AL, Wells JA. PMID: 23201124; PMCID: PMC3557559.
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    173. Receptor tyrosine kinase signaling mechanisms: Devolving TrkA responses with phosphoproteomics. Adv Biol Regul. 2013 Jan; 53(1):87-96. Bradshaw RA, Chalkley RJ, Biarc J, Burlingame AL. PMID: 23266087; PMCID: PMC3577974.
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    174. 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; PMCID: PMC3497735.
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    175. Activity-dependent protein dynamics define interconnected cores of co-regulated postsynaptic proteins. Mol Cell Proteomics. 2013 Jan; 12(1):29-41. Trinidad JC, Thalhammer A, Burlingame AL, Schoepfer R. PMID: 23035237; PMCID: PMC3536907.
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    245. Acetylated H4K16 by MYST1 protects UROtsa cells from arsenic toxicity and is decreased following chronic arsenic exposure. Toxicol Appl Pharmacol. 2009 Dec 15; 241(3):294-302. Jo WJ, Ren X, Chu F, Aleshin M, Wintz H, Burlingame A, Smith MT, Vulpe CD, Zhang L. PMID: 19732783; PMCID: PMC2784148.
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    246. Nicotinic agonist binding site mapped by methionine- and tyrosine-scanning coupled with azidochloropyridinyl photoaffinity labeling. J Med Chem. 2009 Jun 25; 52(12):3735-41. Tomizawa M, Talley TT, Park JF, Maltby D, Medzihradszky KF, Durkin KA, Cornejo-Bravo JM, Burlingame AL, Casida JE, Taylor P. PMID: 19459645; PMCID: PMC2748672.
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    247. Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species. PLoS Biol. 2009 Jun 16; 7(6):e1000134. Beltrao P, Trinidad JC, Fiedler D, Roguev A, Lim WA, Shokat KM, Burlingame AL, Krogan NJ. PMID: 19547744; PMCID: PMC2691599.
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    248. Identification of protein O-GlcNAcylation sites using electron transfer dissociation mass spectrometry on native peptides. Proc Natl Acad Sci U S A. 2009 Jun 02; 106(22):8894-9. Chalkley RJ, Thalhammer A, Schoepfer R, Burlingame AL. PMID: 19458039; PMCID: PMC2690010.
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    249. HDL antielastase activity prevents smooth muscle cell anoikis, a potential new antiatherogenic property. FASEB J. 2009 Sep; 23(9):3129-39. Ortiz-Muñoz G, Houard X, Martín-Ventura JL, Ishida BY, Loyau S, Rossignol P, Moreno JA, Kane JP, Chalkley RJ, Burlingame AL, Michel JB, Meilhac O. PMID: 19417089; PMCID: PMC2735359.
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    250. Mutator transposon activity reprograms the transcriptomes and proteomes of developing maize anthers. Plant J. 2009 Aug; 59(4):622-33. Skibbe DS, Fernandes JF, Medzihradszky KF, Burlingame AL, Walbot V. PMID: 19453454.
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    251. Normal protein composition of synapses in Ts65Dn mice: a mouse model of Down syndrome. J Neurochem. 2009 Jul; 110(1):157-69. Fernandez F, Trinidad JC, Blank M, Feng DD, Burlingame AL, Garner CC. PMID: 19453946; PMCID: PMC2735138.
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    252. Promiscuous aggregate-based inhibitors promote enzyme unfolding. J Med Chem. 2009 Apr 09; 52(7):2067-75. Coan KE, Maltby DA, Burlingame AL, Shoichet BK. PMID: 19281222; PMCID: PMC2664636.
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    253. Human antibodies targeting cell surface antigens overexpressed by the hormone refractory metastatic prostate cancer cells: ICAM-1 is a tumor antigen that mediates prostate cancer cell invasion. J Mol Med (Berl). 2009 May; 87(5):507-14. Conrad F, Zhu X, Zhang X, Chalkley RJ, Burlingame AL, Marks JD, Liu B. PMID: 19219419; PMCID: PMC2796542.
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    254. A transmembrane accessory subunit that modulates kainate-type glutamate receptors. Neuron. 2009 Feb 12; 61(3):385-96. Zhang W, St-Gelais F, Grabner CP, Trinidad JC, Sumioka A, Morimoto-Tomita M, Kim KS, Straub C, Burlingame AL, Howe JR, Tomita S. PMID: 19217376; PMCID: PMC2803770.
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    256. Identification of new p53 acetylation sites in COS-1 cells. Mol Cell Proteomics. 2009 Jun; 8(6):1167-73. Joubel A, Chalkley RJ, Medzihradszky KF, Hondermarck H, Burlingame AL. PMID: 19155208; PMCID: PMC2690490.
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    257. SIRT6 stabilizes DNA-dependent protein kinase at chromatin for DNA double-strand break repair. Aging (Albany NY). 2009 Jan 15; 1(1):109-21. McCord RA, Michishita E, Hong T, Berber E, Boxer LD, Kusumoto R, Guan S, Shi X, Gozani O, Burlingame AL, Bohr VA, Chua KF. PMID: 20157594; PMCID: PMC2815768.
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    259. Tpr directly binds to Mad1 and Mad2 and is important for the Mad1-Mad2-mediated mitotic spindle checkpoint. Genes Dev. 2008 Nov 01; 22(21):2926-31. Lee SH, Sterling H, Burlingame A, McCormick F. PMID: 18981471; PMCID: PMC2577792.
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    261. Global sequencing of proteolytic cleavage sites in apoptosis by specific labeling of protein N termini. Cell. 2008 Sep 05; 134(5):866-76. Mahrus S, Trinidad JC, Barkan DT, Sali A, Burlingame AL, Wells JA. PMID: 18722006; PMCID: PMC2566540.
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    262. BSKs mediate signal transduction from the receptor kinase BRI1 in Arabidopsis. Science. 2008 Jul 25; 321(5888):557-60. Tang W, Kim TW, Oses-Prieto JA, Sun Y, Deng Z, Zhu S, Wang R, Burlingame AL, Wang ZY. PMID: 18653891; PMCID: PMC2730546.
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    264. Cell cycle-dependent phosphorylation of human CDC5 regulates RNA processing. Cell Cycle. 2008 Jun 15; 7(12):1795-803. Gräub R, Lancero H, Pedersen A, Chu M, Padmanabhan K, Xu XQ, Spitz P, Chalkley R, Burlingame AL, Stokoe D, Bernstein HS. PMID: 18583928; PMCID: PMC2940709.
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    266. Alterations in the proteome of pulmonary alveolar type II cells in the rat after hepatic ischemia-reperfusion. Crit Care Med. 2008 Jun; 36(6):1846-54. Hirsch J, Niemann CU, Hansen KC, Choi S, Su X, Frank JA, Fang X, Hirose R, Theodore P, Sapru A, Burlingame AL, Matthay MA. PMID: 18496381; PMCID: PMC2442403.
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    267. Histone acetylation and chromatin remodeling are required for UV-B-dependent transcriptional activation of regulated genes in maize. Plant Cell. 2008 Apr; 20(4):827-42. Casati P, Campi M, Chu F, Suzuki N, Maltby D, Guan S, Burlingame AL, Walbot V. PMID: 18398050; PMCID: PMC2390752.
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    272. Renal defects associated with improper polarization of the CRB and DLG polarity complexes in MALS-3 knockout mice. J Cell Biol. 2007 Oct 08; 179(1):151-64. Olsen O, Funke L, Long JF, Fukata M, Kazuta T, Trinidad JC, Moore KA, Misawa H, Welling PA, Burlingame AL, Zhang M, Bredt DS. PMID: 17923534; PMCID: PMC2064744.
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    274. Critical role for arginine methylation in adenovirus-infected cells. J Virol. 2007 Dec; 81(23):13209-17. Iacovides DC, O'Shea CC, Oses-Prieto J, Burlingame A, McCormick F. PMID: 17686851; PMCID: PMC2169124.
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    278. A semisynthetic epitope for kinase substrates. Nat Methods. 2007 Jun; 4(6):511-6. Allen JJ, Li M, Brinkworth CS, Paulson JL, Wang D, Hübner A, Chou WH, Davis RJ, Burlingame AL, Messing RO, Katayama CD, Hedrick SM, Shokat KM. PMID: 17486086; PMCID: PMC2932705.
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    282. The site-specific installation of methyl-lysine analogs into recombinant histones. Cell. 2007 Mar 09; 128(5):1003-12. Simon MD, Chu F, Racki LR, de la Cruz CC, Burlingame AL, Panning B, Narlikar GJ, Shokat KM. PMID: 17350582; PMCID: PMC2932701.
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    283. Formation of epsilon-formyllysine on silver-stained proteins: implications for assignment of isobaric dimethylation sites by tandem mass spectrometry. Mol Cell Proteomics. 2007 Feb; 6(2):181-92. Osés-Prieto JA, Zhang X, Burlingame AL. PMID: 17138591.
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    284. Isotope-coded and affinity-tagged cross-linking (ICATXL): an efficient strategy to probe protein interaction surfaces. J Am Chem Soc. 2006 Aug 16; 128(32):10362-3. Chu F, Mahrus S, Craik CS, Burlingame AL. PMID: 16895390.
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    285. Side-chain fragmentation of alkylated cysteine residues in electron capture dissociation mass spectrometry. J Am Soc Mass Spectrom. 2006 Sep; 17(9):1271-4. Chalkley RJ, Brinkworth CS, Burlingame AL. PMID: 16809046.
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    286. Identification of novel quaternary domain interactions in the Hsp90 chaperone, GRP94. Protein Sci. 2006 Jun; 15(6):1260-9. Chu F, Maynard JC, Chiosis G, Nicchitta CV, Burlingame AL. PMID: 16731965; PMCID: PMC2242539.
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    287. Electrospray mass spectrometry of NeuAc oligomers associated with the C fragment of the tetanus toxin. J Am Soc Mass Spectrom. 2006 Jul; 17(7):967-976. Conway MCP, Whittal RM, Baldwin MA, Burlingame AL, Balhorn R. PMID: 16713287.
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    288. Reporting protein identification data: the next generation of guidelines. Mol Cell Proteomics. 2006 May; 5(5):787-8. Bradshaw RA, Bradshaw RA, Burlingame AL, Carr S, Aebersold R. PMID: 16670253.
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    290. Histone chaperone Asf1 is required for histone H3 lysine 56 acetylation, a modification associated with S phase in mitosis and meiosis. Proc Natl Acad Sci U S A. 2006 May 02; 103(18):6988-93. Recht J, Tsubota T, Tanny JC, Diaz RL, Berger JM, Zhang X, Garcia BA, Shabanowitz J, Burlingame AL, Hunt DF, Kaufman PD, Allis CD. PMID: 16627621; PMCID: PMC1459006.
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    291. Keratin 20 serine 13 phosphorylation is a stress and intestinal goblet cell marker. J Biol Chem. 2006 Jun 16; 281(24):16453-61. Zhou Q, Cadrin M, Herrmann H, Chen CH, Chalkley RJ, Burlingame AL, Omary MB. PMID: 16608857.
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    293. O-linked N-acetylglucosamine proteomics of postsynaptic density preparations using lectin weak affinity chromatography and mass spectrometry. Mol Cell Proteomics. 2006 May; 5(5):923-34. Vosseller K, Trinidad JC, Chalkley RJ, Specht CG, Thalhammer A, Lynn AJ, Snedecor JO, Guan S, Medzihradszky KF, Maltby DA, Schoepfer R, Burlingame AL. PMID: 16452088.
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    295. Peptidomics of a single identified neuron reveals diversity of multiple neuropeptides with convergent actions on cellular excitability. J Neurosci. 2006 Jan 11; 26(2):518-29. Jiménez CR, Spijker S, de Schipper S, Lodder JC, Janse CK, Geraerts WP, van Minnen J, Syed NI, Burlingame AL, Smit AB, Li K. PMID: 16407549; PMCID: PMC6674408.
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    297. Atg19p ubiquitination and the cytoplasm to vacuole trafficking pathway in yeast. J Biol Chem. 2005 Nov 25; 280(47):39067-76. Baxter BK, Abeliovich H, Zhang X, Stirling AG, Burlingame AL, Goldfarb DS. PMID: 16186126.
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    303. Comprehensive analysis of a multidimensional liquid chromatography mass spectrometry dataset acquired on a quadrupole selecting, quadrupole collision cell, time-of-flight mass spectrometer: II. New developments in Protein Prospector allow for reliable and comprehensive automatic analysis of large datasets. Mol Cell Proteomics. 2005 Aug; 4(8):1194-204. Chalkley RJ, Baker PR, Huang L, Hansen KC, Allen NP, Rexach M, Burlingame AL. PMID: 15937296.
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    308. From proteins to proteomics. IUBMB Life. 2005 Apr-May; 57(4-5):267-72. Bradshaw RA, Bradshaw RA, Burlingame AL. PMID: 16036609.
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    315. Victor L. Talroze: 1922-2004. J Am Soc Mass Spectrom. 2004 Oct; 15(10):1517-1519. Baldwin MA, Burlingame AL, Nikolaev E. PMID: 27518148.
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    316. The mammalian retromer regulates transcytosis of the polymeric immunoglobulin receptor. Nat Cell Biol. 2004 Aug; 6(8):763-9. Vergés M, Luton F, Gruber C, Tiemann F, Reinders LG, Huang L, Burlingame AL, Haft CR, Mostov KE. PMID: 15247922.
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    317. Proteomics: current techniques and potential applications to lung disease. Am J Physiol Lung Cell Mol Physiol. 2004 Jul; 287(1):L1-23. Hirsch J, Hansen KC, Burlingame AL, Matthay MA. PMID: 15187006.
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    318. Characterization of Tetrahymena histone H2B variants and posttranslational populations by electron capture dissociation (ECD) Fourier transform ion cyclotron mass spectrometry (FT-ICR MS). Mol Cell Proteomics. 2004 Sep; 3(9):872-86. Medzihradszky KF, Zhang X, Chalkley RJ, Guan S, McFarland MA, Chalmers MJ, Marshall AG, Diaz RL, Allis CD, Burlingame AL. PMID: 15199121.
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    319. Proteomic strategies and their application in studies of renal function. News Physiol Sci. 2004 Jun; 19:114-9. Cutillas P, Burlingame A, Unwin R. PMID: 15143205.
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    320. The urinary proteome in Fanconi syndrome implies specificity in the reabsorption of proteins by renal proximal tubule cells. Am J Physiol Renal Physiol. 2004 Sep; 287(3):F353-64. Cutillas PR, Chalkley RJ, Hansen KC, Cramer R, Norden AG, Waterfield MD, Burlingame AL, Unwin RJ. PMID: 15140760.
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    321. Spatio-temporal dynamics of the egg-laying-inducing peptides during an egg-laying cycle: a semiquantitative matrix-assisted laser desorption/ionization mass spectrometry approach. J Neurochem. 2004 May; 89(4):865-75. Jiménez CR, ter Maat A, Pieneman A, Burlingame AL, Smit AB, Li KW. PMID: 15140186.
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    322. Two distinct coactivators, DRIP/mediator and SRC/p160, are differentially involved in VDR transactivation during keratinocyte differentiation. J Steroid Biochem Mol Biol. 2004 May; 89-90(1-5):273-6. Oda Y, Sihlbom C, Chalkley RJ, Huang L, Rachez C, Chang CP, Burlingame AL, Freedman LP, Bikle DD. PMID: 15225784.
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    323. The need for guidelines in publication of peptide and protein identification data: Working Group on Publication Guidelines for Peptide and Protein Identification Data. Mol Cell Proteomics. 2004 Jun; 3(6):531-3. Carr S, Aebersold R, Baldwin M, Burlingame A, Clauser K, Nesvizhskii A, Working Group on Publication Guidelines for Peptide and Protein Identification Data. PMID: 15075378.
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    324. Differential proteomics reveals multiple components in retrogradely transported axoplasm after nerve injury. Mol Cell Proteomics. 2004 May; 3(5):510-20. Perlson E, Medzihradszky KF, Darula Z, Munno DW, Syed NI, Burlingame AL, Fainzilber M. PMID: 14973157.
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    325. From snails to sciatic nerve: Retrograde injury signaling from axon to soma in lesioned neurons. J Neurobiol. 2004 Feb 05; 58(2):287-94. Perlson E, Hanz S, Medzihradszky KF, Burlingame AL, Fainzilber M. PMID: 14704959.
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    326. O-sulfonation of serine and threonine: mass spectrometric detection and characterization of a new posttranslational modification in diverse proteins throughout the eukaryotes. Mol Cell Proteomics. 2004 May; 3(5):429-40. Medzihradszky KF, Darula Z, Perlson E, Fainzilber M, Chalkley RJ, Ball H, Greenbaum D, Bogyo M, Tyson DR, Bradshaw RA, Burlingame AL. PMID: 14752058.
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    327. Urinary proteomics of renal Fanconi syndrome. Contrib Nephrol. 2004; 141:155-69. Cutillas PR, Norden AG, Cramer R, Burlingame AL, Unwin RJ. PMID: 14650231.
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    328. Identification of a novel protein regulating microtubule stability through a chemical approach. Chem Biol. 2004 Jan; 11(1):135-46. Wignall SM, Gray NS, Chang YT, Juarez L, Jacob R, Burlingame A, Schultz PG, Heald R. PMID: 15113003.
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    329. Regulated expression of apolipoprotein E by human retinal pigment epithelial cells. J Lipid Res. 2004 Feb; 45(2):263-71. Ishida BY, Bailey KR, Duncan KG, Chalkley RJ, Burlingame AL, Kane JP, Schwartz DM. PMID: 14594998.
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    330. Two distinct coactivators, DRIP/mediator and SRC/p160, are differentially involved in vitamin D receptor transactivation during keratinocyte differentiation. Mol Endocrinol. 2003 Nov; 17(11):2329-39. Oda Y, Sihlbom C, Chalkley RJ, Huang L, Rachez C, Chang CP, Burlingame AL, Freedman LP, Bikle DD. PMID: 12893881.
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    331. Toward deciphering the knowledge encrypted in large datasets. Mol Cell Proteomics. 2003 Jul; 2(7):425. Burlingame AL. PMID: 12930872.
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    332. Mass spectrometric analysis of protein mixtures at low levels using cleavable 13C-isotope-coded affinity tag and multidimensional chromatography. Mol Cell Proteomics. 2003 May; 2(5):299-314. Hansen KC, Schmitt-Ulms G, Chalkley RJ, Hirsch J, Baldwin MA, Burlingame AL. PMID: 12766231.
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    333. Detection and analysis of urinary peptides by on-line liquid chromatography and mass spectrometry: application to patients with renal Fanconi syndrome. Clin Sci (Lond). 2003 May; 104(5):483-90. Cutillas PR, Norden AG, Cramer R, Burlingame AL, Unwin RJ. PMID: 12529166.
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    334. Human apoC-IV: isolation, characterization, and immunochemical quantification in plasma and plasma lipoproteins. J Lipid Res. 2003 Jul; 44(7):1387-94. Kotite L, Zhang LH, Yu Z, Burlingame AL, Havel RJ. PMID: 12700345.
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    335. Identification of novel sites of O-N-acetylglucosamine modification of serum response factor using quadrupole time-of-flight mass spectrometry. Mol Cell Proteomics. 2003 Mar; 2(3):182-90. Chalkley RJ, Burlingame AL. PMID: 12684542.
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    336. Deciphering networks of protein interactions at the nuclear pore complex. Mol Cell Proteomics. 2002 Dec; 1(12):930-46. Allen NP, Patel SS, Huang L, Chalkley RJ, Burlingame A, Lutzmann M, Hurt EC, Rexach M. PMID: 12543930.
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    337. Attomole detection of in vivo protein targets of benzene in mice: evidence for a highly reactive metabolite. Mol Cell Proteomics. 2002 Nov; 1(11):885-95. Williams KE, Carver TA, Miranda JJ, Kautiainen A, Vogel JS, Dingley K, Baldwin MA, Turteltaub KW, Burlingame AL. PMID: 12488464.
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    338. Factors governing the solubilization of phosphopeptides retained on ferric NTA IMAC beads and their analysis by MALDI TOFMS. J Am Soc Mass Spectrom. 2002 Sep; 13(9):1042-51. Hart SR, Waterfield MD, Burlingame AL, Cramer R. PMID: 12322952.
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    339. Identification of acetylation and methylation sites of histone H3 from chicken erythrocytes by high-accuracy matrix-assisted laser desorption ionization-time-of-flight, matrix-assisted laser desorption ionization-postsource decay, and nanoelectrospray ionization tandem mass spectrometry. Anal Biochem. 2002 Jul 15; 306(2):259-69. Zhang K, Tang H, Huang L, Blankenship JW, Jones PR, Xiang F, Yau PM, Burlingame AL. PMID: 12123664.
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    340. Histone acetylation and deacetylation: identification of acetylation and methylation sites of HeLa histone H4 by mass spectrometry. Mol Cell Proteomics. 2002 Jul; 1(7):500-8. Zhang K, Williams KE, Huang L, Yau P, Siino JS, Bradbury EM, Jones PR, Minch MJ, Burlingame AL. PMID: 12239278.
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    341. Stress-inducible protein 1 is a cell surface ligand for cellular prion that triggers neuroprotection. EMBO J. 2002 Jul 01; 21(13):3307-16. Zanata SM, Lopes MH, Mercadante AF, Hajj GN, Chiarini LB, Nomizo R, Freitas AR, Cabral AL, Lee KS, Juliano MA, de Oliveira E, Jachieri SG, Burlingame A, Huang L, Linden R, Brentani RR, Martins VR. PMID: 12093732; PMCID: PMC125391.
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    342. The identification of protein-protein interactions of the nuclear pore complex of Saccharomyces cerevisiae using high throughput matrix-assisted laser desorption ionization time-of-flight tandem mass spectrometry. Mol Cell Proteomics. 2002 Jun; 1(6):434-50. Huang L, Baldwin MA, Maltby DA, Medzihradszky KF, Baker PR, Allen N, Rexach M, Edmondson RD, Campbell J, Juhasz P, Martin SA, Vestal ML, Burlingame AL. PMID: 12169684.
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    343. Structure and functional characterization of the periplasmic N-terminal polypeptide domain of the sugar-specific ion channel protein (ScrY porin). Protein Sci. 2002 Jun; 11(6):1565-74. Michels J, Geyer A, Mocanu V, Welte W, Burlingame AL, Przybylski M. PMID: 12021455; PMCID: PMC2373611.
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    344. Cytochrome P450(cin) (CYP176A), isolation, expression, and characterization. J Biol Chem. 2002 Aug 02; 277(31):27725-32. Hawkes DB, Adams GW, Burlingame AL, Ortiz de Montellano PR, De Voss JJ. PMID: 12016226.
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    345. Differential proteome analysis of replicative senescence in rat embryo fibroblasts. Mol Cell Proteomics. 2002 Apr; 1(4):280-92. Benvenuti S, Cramer R, Quinn CC, Bruce J, Zvelebil M, Corless S, Bond J, Yang A, Hockfield S, Burlingame AL, Waterfield MD, Jat PS. PMID: 12096110.
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    346. Towards proteome-wide production of monoclonal antibody by phage display. J Mol Biol. 2002 Feb 01; 315(5):1063-73. Liu B, Huang L, Sihlbom C, Burlingame A, Marks JD. PMID: 11827476.
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    347. Chemical approaches for functionally probing the proteome. Mol Cell Proteomics. 2002 Jan; 1(1):60-8. Greenbaum D, Baruch A, Hayrapetian L, Darula Z, Burlingame A, Medzihradszky KF, Bogyo M. PMID: 12096141.
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    348. Identification of GlcNAcylation sites of peptides and alpha-crystallin using Q-TOF mass spectrometry. J Am Soc Mass Spectrom. 2001 Oct; 12(10):1106-13. Chalkley RJ, Burlingame AL. PMID: 11605972.
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    349. Novel inter-protein cross-link identified in the GGH-ecotin D137Y dimer. Protein Sci. 2001 Aug; 10(8):1549-62. Person MD, Brown KC, Mahrus S, Craik CS, Burlingame AL. PMID: 11468352; PMCID: PMC2374083.
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    350. Proteomic analysis of nucleoporin interacting proteins. J Biol Chem. 2001 Aug 03; 276(31):29268-74. Allen NP, Huang L, Burlingame A, Rexach M. PMID: 11387327.
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    351. Sample preparation for MALDI mass analysis of peptides and proteins. Curr Protoc Protein Sci. 2001 May; Chapter 16:Unit 16.3. Jiménez CR, Huang L, Qiu Y, Burlingame AL. PMID: 18429130.
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    352. In-gel digestion of proteins for MALDI-MS fingerprint mapping. Curr Protoc Protein Sci. 2001 May; Chapter 16:Unit 16.4. Jiménez CR, Huang L, Qiu Y, Burlingame AL. PMID: 18429131.
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    353. Searching sequence databases over the internet: protein identification using MS-Fit. Curr Protoc Protein Sci. 2001 May; Chapter 16:Unit 16.5. Jiménez CR, Huang L, Qiu Y, Burlingame AL. PMID: 18429132.
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    354. Searching sequence databases over the internet: protein identification using MS-tag. Curr Protoc Protein Sci. 2001 May; Chapter 16:Unit 16.6. Jiménez CR, Huang L, Qiu Y, Burlingame AL. PMID: 18429133.
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    355. Enzymatic approaches for obtaining amino acid sequence: on-target ladder sequencing. Curr Protoc Protein Sci. 2001 May; Chapter 16:Unit 16.7. Jiménez CR, Huang L, Qiu Y, Burlingame AL. PMID: 18429134.
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    356. Functional assignment of the 20 S proteasome from Trypanosoma brucei using mass spectrometry and new bioinformatics approaches. J Biol Chem. 2001 Jul 27; 276(30):28327-39. Huang L, Jacob RJ, Pegg SC, Baldwin MA, Wang CC, Burlingame AL, Babbitt PC. PMID: 11309374.
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    357. Matrix-assisted laser desorption/ionization coupled with quadrupole/orthogonal acceleration time-of-flight mass spectrometry for protein discovery, identification, and structural analysis. Anal Chem. 2001 Apr 15; 73(8):1707-20. Baldwin MA, Medzihradszky KF, Lock CM, Fisher B, Settineri TA, Burlingame AL. PMID: 11338583.
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    358. Functional proteomics: examining the effects of hypoxia on the cytotrophoblast protein repertoire. Biochemistry. 2001 Apr 03; 40(13):4077-86. Hoang VM, Foulk R, Clauser K, Burlingame A, Gibson BW, Fisher SJ. PMID: 11300788.
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    359. Kaposi's sarcoma-associated herpesvirus K-bZIP protein is phosphorylated by cyclin-dependent kinases. J Virol. 2001 Apr; 75(7):3175-84. Polson AG, Huang L, Lukac DM, Blethrow JD, Morgan DO, Burlingame AL, Ganem D. PMID: 11238844; PMCID: PMC114111.
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    360. Identification of new JNK substrate using ATP pocket mutant JNK and a corresponding ATP analogue. J Biol Chem. 2001 May 25; 276(21):18090-5. Habelhah H, Shah K, Huang L, Burlingame AL, Shokat KM, Ronai Z. PMID: 11259409.
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    361. ERK phosphorylation drives cytoplasmic accumulation of hnRNP-K and inhibition of mRNA translation. Nat Cell Biol. 2001 Mar; 3(3):325-30. Habelhah H, Shah K, Huang L, Ostareck-Lederer A, Burlingame AL, Shokat KM, Hentze MW, Ronai Z. PMID: 11231586.
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    362. Protein identification by in-gel digestion, high-performance liquid chromatography, and mass spectrometry: peptide analysis by complementary ionization techniques. J Am Soc Mass Spectrom. 2001 Feb; 12(2):215-21. Medzihradszky KF, Leffler H, Baldwin MA, Burlingame AL. PMID: 11212006.
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    363. Identification of hepatic protein targets of the reactive metabolites of the non-hepatotoxic regioisomer of acetaminophen, 3'-hydroxyacetanilide, in the mouse in vivo using two-dimensional gel electrophoresis and mass spectrometry. Adv Exp Med Biol. 2001; 500:663-73. Qiu Y, Benet LZ, Burlingame AL. PMID: 11765013.
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    364. Epoxide electrophiles as activity-dependent cysteine protease profiling and discovery tools. Chem Biol. 2000 Aug; 7(8):569-81. Greenbaum D, Medzihradszky KF, Burlingame A, Bogyo M. PMID: 11048948.
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    365. Preferential oxidation of zinc finger 2 in estrogen receptor DNA-binding domain prevents dimerization and, hence, DNA binding. Biochemistry. 2000 Jul 25; 39(29):8406-17. Whittal RM, Benz CC, Scott G, Semyonov J, Burlingame AL, Baldwin MA. PMID: 10913246.
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    366. Toxicity of ALS-linked SOD1 mutants. Science. 2000 Apr 21; 288(5465):399. Williamson TL, Corson LB, Huang L, Burlingame A, Liu J, Bruijn LI, Cleveland DW. PMID: 10798964.
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    367. Atmospheric pressure matrix-assisted laser desorption/ionization mass spectrometry. Anal Chem. 2000 Feb 15; 72(4):652-7. Laiko VV, Baldwin MA, Burlingame AL. PMID: 10701247.
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    368. The characteristics of peptide collision-induced dissociation using a high-performance MALDI-TOF/TOF tandem mass spectrometer. Anal Chem. 2000 Feb 01; 72(3):552-8. Medzihradszky KF, Campbell JM, Baldwin MA, Falick AM, Juhasz P, Vestal ML, Burlingame AL. PMID: 10695141.
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    369. Copper binding to octarepeat peptides of the prion protein monitored by mass spectrometry. Protein Sci. 2000 Feb; 9(2):332-43. Whittal RM, Ball HL, Cohen FE, Burlingame AL, Prusiner SB, Baldwin MA. PMID: 10716185; PMCID: PMC2144551.
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    370. Patterns of protein synthesis and tolerance of anoxia in root tips of maize seedlings acclimated to a low-oxygen environment, and identification of proteins by mass spectrometry. Plant Physiol. 2000 Feb; 122(2):295-318. Chang WW, Huang L, Shen M, Webster C, Burlingame AL, Roberts JK. PMID: 10677424; PMCID: PMC58868.
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    371. Employing target modifications for the investigation of liquid infrared matrix-assisted laser desorption/ionization mass spectrometry. Rapid Commun Mass Spectrom. 2000; 14(2):53-60. Cramer R, Burlingame AL. PMID: 10623929.
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    372. alpha5 subunit in Trypanosoma brucei proteasome can self-assemble to form a cylinder of four stacked heptamer rings. Biochem J. 1999 Dec 01; 344 Pt 2:349-58. Yao Y, Toth CR, Huang L, Wong ML, Dias P, Burlingame AL, Coffino P, Wang CC. PMID: 10567215; PMCID: PMC1220650.
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    373. Structural and functional characterizations of the proteasome-activating protein PA26 from Trypanosoma brucei. J Biol Chem. 1999 Nov 26; 274(48):33921-30. Yao Y, Huang L, Krutchinsky A, Wong ML, Standing KG, Burlingame AL, Wang CC. PMID: 10567354.
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    374. Analysis of cross-linked human hemoglobin by conventional isoelectric focusing, immobilized pH gradients, capillary electrophoresis, and mass spectrometry. Electrophoresis. 1999 Oct; 20(14):2810-7. Bossi A, Patel MJ, Webb EJ, Baldwin MA, Jacob RJ, Burlingame AL, Righetti PG. PMID: 10546811.
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    375. Identification and isolation of three proteasome subunits and their encoding genes from Trypanosoma brucei. Mol Biochem Parasitol. 1999 Aug 20; 102(2):211-23. Huang L, Shen M, Chernushevich I, Burlingame AL, Wang CC, Robertson CD. PMID: 10498178.
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    376. Role of accurate mass measurement (+/- 10 ppm) in protein identification strategies employing MS or MS/MS and database searching. Anal Chem. 1999 Jul 15; 71(14):2871-82. Clauser KR, Baker P, Burlingame AL. PMID: 10424174.
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    377. Site-specific characterization of the N-linked glycans of murine prion protein by high-performance liquid chromatography/electrospray mass spectrometry and exoglycosidase digestions. Biochemistry. 1999 Apr 13; 38(15):4885-95. Stimson E, Hope J, Chong A, Burlingame AL. PMID: 10200178.
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    378. Identification of tyrosine sulfation in Conus pennaceus conotoxins alpha-PnIA and alpha-PnIB: further investigation of labile sulfo- and phosphopeptides by electrospray, matrix-assisted laser desorption/ionization (MALDI) and atmospheric pressure MALDI mass spectrometry. J Mass Spectrom. 1999 Apr; 34(4):447-54. Wolfender JL, Chu F, Ball H, Wolfender F, Fainzilber M, Baldwin MA, Burlingame AL. PMID: 10226369.
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    379. Transcription factor phosphorylation by pp90(rsk2). Identification of Fos kinase and NGFI-B kinase I as pp90(rsk2). J Biol Chem. 1999 Feb 05; 274(6):3385-95. Swanson KD, Taylor LK, Haung L, Burlingame AL, Landreth GE. PMID: 9920881.
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    380. Insight into absorption of radiation/energy transfer in infrared matrix-assisted laser desorption/ionization: the roles of matrices, water and metal substrates. Rapid Commun Mass Spectrom. 1999; 13(21):2191-8. Talrose VL, Person MD, Whittal RM, Walls FC, Burlingame AL, Baldwin MA. PMID: 10523780.
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    381. Analysis of phospho- and glycopolypeptides with infrared matrix-assisted laser desorption and ionization. Anal Chem. 1998 Dec 01; 70(23):4939-44. Cramer R, Richter WJ, Stimson E, Burlingame AL. PMID: 9852779.
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    382. Ultramicroanalysis of peptide profiles in biological samples using MALDI mass spectrometry. Exp Nephrol. 1998 Sep-Oct; 6(5):421-8. Jiménez CR, Burlingame AL. PMID: 9730658.
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    383. Mass spectrometry. Anal Chem. 1998 Aug 15; 70(16):647R-716R. Burlingame AL, Boyd RK, Gaskell SJ. PMID: 9726172.
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    384. Identification of the hepatic protein targets of reactive metabolites of acetaminophen in vivo in mice using two-dimensional gel electrophoresis and mass spectrometry. J Biol Chem. 1998 Jul 10; 273(28):17940-53. Qiu Y, Benet LZ, Burlingame AL. PMID: 9651401.
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    385. Human low-molecular-weight salivary mucin expresses the sialyl lewisx determinant and has L-selectin ligand activity. Biochemistry. 1998 Apr 07; 37(14):4916-27. Prakobphol A, Thomsson KA, Hansson GC, Rosen SD, Singer MS, Phillips NJ, Medzihradszky KF, Burlingame AL, Leffler H, Fisher SJ. PMID: 9538010.
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    386. Determining protein-protein interactions by oxidative cross-linking of a glycine-glycine-histidine fusion protein. Biochemistry. 1998 Mar 31; 37(13):4397-406. Brown KC, Yu Z, Burlingame AL, Craik CS. PMID: 9521759.
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    387. Mechanisms for covalent binding of benoxaprofen glucuronide to human serum albumin. Studies By tandem mass spectrometry. Drug Metab Dispos. 1998 Mar; 26(3):246-56. Qiu Y, Burlingame AL, Benet LZ. PMID: 9492388.
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    388. Direct mass spectrometric peptide profiling and sequencing of single neurons reveals differential peptide patterns in a small neuronal network. Biochemistry. 1998 Feb 17; 37(7):2070-6. Jiménez CR, Li KW, Dreisewerd K, Spijker S, Kingston R, Bateman RH, Burlingame AL, Smit AB, van Minnen J, Geraerts WP. PMID: 9485334.
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    389. gamma-Conotoxin-PnVIIA, a gamma-carboxyglutamate-containing peptide agonist of neuronal pacemaker cation currents. Biochemistry. 1998 Feb 10; 37(6):1470-7. Fainzilber M, Nakamura T, Lodder JC, Zlotkin E, Kits KS, Burlingame AL. PMID: 9484216.
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    390. Reverse-phase capillary high performance liquid chromatography/high performance electrospray ionization mass spectrometry: an essential tool for the characterization of complex glycoprotein digests. Rapid Commun Mass Spectrom. 1998; 12(8):472-8. Medzihradszky KF, Besman MJ, Burlingame AL. PMID: 9586235.
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    391. Cytosolic phox proteins interact with and regulate the assembly of coronin in neutrophils. J Cell Sci. 1997 Dec; 110 ( Pt 24):3071-81. Grogan A, Reeves E, Keep N, Wientjes F, Totty NF, Burlingame AL, Hsuan JJ, Segal AW. PMID: 9365277.
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    392. Structural characterization of human hemoglobin crosslinked by bis(3,5-dibromosalicyl) fumarate using mass spectrometric techniques. Protein Sci. 1997 Dec; 6(12):2568-77. Yu Z, Friso G, Miranda JJ, Patel MJ, Lo-Tseng T, Moore EG, Burlingame AL. PMID: 9416606; PMCID: PMC2143614.
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