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Items: 41

1.

Bisphosphoglycerate mutase controls serine pathway flux via 3-phosphoglycerate.

Oslund RC, Su X, Haugbro M, Kee JM, Esposito M, David Y, Wang B, Ge E, Perlman DH, Kang Y, Muir TW, Rabinowitz JD.

Nat Chem Biol. 2017 Oct;13(10):1081-1087. doi: 10.1038/nchembio.2453. Epub 2017 Aug 7.

2.

Digestomics: an emerging strategy for comprehensive analysis of protein catabolism.

Bingeman TS, Perlman DH, Storey DG, Lewis IA.

Curr Opin Biotechnol. 2017 Feb;43:134-140. doi: 10.1016/j.copbio.2016.11.004. Epub 2016 Dec 23. Review.

PMID:
28025112
3.

An oligotrophic deep-subsurface community dependent on syntrophy is dominated by sulfur-driven autotrophic denitrifiers.

Lau MC, Kieft TL, Kuloyo O, Linage-Alvarez B, van Heerden E, Lindsay MR, Magnabosco C, Wang W, Wiggins JB, Guo L, Perlman DH, Kyin S, Shwe HH, Harris RL, Oh Y, Yi MJ, Purtschert R, Slater GF, Ono S, Wei S, Li L, Sherwood Lollar B, Onstott TC.

Proc Natl Acad Sci U S A. 2016 Dec 6;113(49):E7927-E7936. Epub 2016 Nov 21.

4.

Inositol polyphosphates intersect with signaling and metabolic networks via two distinct mechanisms.

Wu M, Chong LS, Perlman DH, Resnick AC, Fiedler D.

Proc Natl Acad Sci U S A. 2016 Nov 1;113(44):E6757-E6765. Epub 2016 Oct 19.

5.

Systems-level analysis of mechanisms regulating yeast metabolic flux.

Hackett SR, Zanotelli VR, Xu W, Goya J, Park JO, Perlman DH, Gibney PA, Botstein D, Storey JD, Rabinowitz JD.

Science. 2016 Oct 28;354(6311). pii: aaf2786. Epub 2016 Oct 27.

6.

Cryptic protein-protein interaction motifs in the cytoplasmic domain of MHCI proteins.

Frietze KK, Pappy AL 2nd, Melson JW, O'Driscoll EE, Tyler CM, Perlman DH, Boulanger LM.

BMC Immunol. 2016 Jul 19;17(1):24. doi: 10.1186/s12865-016-0154-z.

7.

Proteome-wide analysis reveals widespread lysine acetylation of major protein complexes in the malaria parasite.

Cobbold SA, Santos JM, Ochoa A, Perlman DH, Llinás M.

Sci Rep. 2016 Jan 27;6:19722. doi: 10.1038/srep19722.

8.

Mitotic Control of Planar Cell Polarity by Polo-like Kinase 1.

Shrestha R, Little KA, Tamayo JV, Li W, Perlman DH, Devenport D.

Dev Cell. 2015 Jun 8;33(5):522-34. doi: 10.1016/j.devcel.2015.03.024. Epub 2015 May 21.

9.

Human cytomegalovirus pUL97 kinase induces global changes in the infected cell phosphoproteome.

Oberstein A, Perlman DH, Shenk T, Terry LJ.

Proteomics. 2015 Jun;15(12):2006-22. doi: 10.1002/pmic.201400607. Epub 2015 May 12.

10.

Impact of the adenoviral E4 Orf3 protein on the activity and posttranslational modification of p53.

DeHart CJ, Perlman DH, Flint SJ.

J Virol. 2015 Mar;89(6):3209-20. doi: 10.1128/JVI.03072-14. Epub 2015 Jan 7.

11.

ChelomEx: Isotope-assisted discovery of metal chelates in complex media using high-resolution LC-MS.

Baars O, Morel FM, Perlman DH.

Anal Chem. 2014 Nov 18;86(22):11298-305. doi: 10.1021/ac503000e. Epub 2014 Nov 4.

PMID:
25333600
12.

Transmembrane domain of surface-exposed outer membrane lipoprotein RcsF is threaded through the lumen of β-barrel proteins.

Konovalova A, Perlman DH, Cowles CE, Silhavy TJ.

Proc Natl Acad Sci U S A. 2014 Oct 14;111(41):E4350-8. doi: 10.1073/pnas.1417138111. Epub 2014 Sep 29.

13.

Mutated in colorectal cancer (MCC) is a novel oncogene in B lymphocytes.

Edwards SK, Baron J, Moore CR, Liu Y, Perlman DH, Hart RP, Xie P.

J Hematol Oncol. 2014 Sep 9;7:56. doi: 10.1186/s13045-014-0056-6.

14.

Functional role of autophagy-mediated proteome remodeling in cell survival signaling and innate immunity.

Mathew R, Khor S, Hackett SR, Rabinowitz JD, Perlman DH, White E.

Mol Cell. 2014 Sep 18;55(6):916-930. doi: 10.1016/j.molcel.2014.07.019. Epub 2014 Aug 28.

15.

The architecture of a scrambled genome reveals massive levels of genomic rearrangement during development.

Chen X, Bracht JR, Goldman AD, Dolzhenko E, Clay DM, Swart EC, Perlman DH, Doak TG, Stuart A, Amemiya CT, Sebra RP, Landweber LF.

Cell. 2014 Aug 28;158(5):1187-1198. doi: 10.1016/j.cell.2014.07.034.

16.

A phosphohistidine proteomics strategy based on elucidation of a unique gas-phase phosphopeptide fragmentation mechanism.

Oslund RC, Kee JM, Couvillon AD, Bhatia VN, Perlman DH, Muir TW.

J Am Chem Soc. 2014 Sep 17;136(37):12899-911. doi: 10.1021/ja507614f. Epub 2014 Sep 8.

17.

Transcription-independent functions of an RNA polymerase II subunit, Rpb2, during genome rearrangement in the ciliate, Oxytricha trifallax.

Khurana JS, Wang X, Chen X, Perlman DH, Landweber LF.

Genetics. 2014 Jul;197(3):839-49. doi: 10.1534/genetics.114.163279. Epub 2014 May 1.

18.

Kinetic flux profiling elucidates two independent acetyl-CoA biosynthetic pathways in Plasmodium falciparum.

Cobbold SA, Vaughan AM, Lewis IA, Painter HJ, Camargo N, Perlman DH, Fishbaugher M, Healer J, Cowman AF, Kappe SH, Llinás M.

J Biol Chem. 2013 Dec 20;288(51):36338-50. doi: 10.1074/jbc.M113.503557. Epub 2013 Oct 25.

19.

Extensive post-translational modification of active and inactivated forms of endogenous p53.

DeHart CJ, Chahal JS, Flint SJ, Perlman DH.

Mol Cell Proteomics. 2014 Jan;13(1):1-17. doi: 10.1074/mcp.M113.030254. Epub 2013 Sep 20.

20.

Calpain A modulates Toll responses by limited Cactus/IκB proteolysis.

Fontenele M, Lim B, Oliveira D, Buffolo M, Perlman DH, Schupbach T, Araujo H.

Mol Biol Cell. 2013 Sep;24(18):2966-80. doi: 10.1091/mbc.E13-02-0113. Epub 2013 Jul 17.

21.

A pan-specific antibody for direct detection of protein histidine phosphorylation.

Kee JM, Oslund RC, Perlman DH, Muir TW.

Nat Chem Biol. 2013 Jul;9(7):416-21. doi: 10.1038/nchembio.1259. Epub 2013 May 26.

22.

Efficient retrograde transport of pseudorabies virus within neurons requires local protein synthesis in axons.

Koyuncu OO, Perlman DH, Enquist LW.

Cell Host Microbe. 2013 Jan 16;13(1):54-66. doi: 10.1016/j.chom.2012.10.021. Epub 2013 Jan 16.

23.

Novel phosphorylation sites in the S. cerevisiae Cdc13 protein reveal new targets for telomere length regulation.

Wu Y, DiMaggio PA Jr, Perlman DH, Zakian VA, Garcia BA.

J Proteome Res. 2013 Jan 4;12(1):316-27. doi: 10.1021/pr300408v. Epub 2012 Dec 13.

24.

Cytosine methylation and hydroxymethylation mark DNA for elimination in Oxytricha trifallax.

Bracht JR, Perlman DH, Landweber LF.

Genome Biol. 2012 Oct 17;13(10):R99. doi: 10.1186/gb-2012-13-10-r99.

25.

Regulation of yeast pyruvate kinase by ultrasensitive allostery independent of phosphorylation.

Xu YF, Zhao X, Glass DS, Absalan F, Perlman DH, Broach JR, Rabinowitz JD.

Mol Cell. 2012 Oct 12;48(1):52-62. doi: 10.1016/j.molcel.2012.07.013. Epub 2012 Aug 16.

26.

Quantitative measurement of allele-specific protein expression in a diploid yeast hybrid by LC-MS.

Khan Z, Bloom JS, Amini S, Singh M, Perlman DH, Caudy AA, Kruglyak L.

Mol Syst Biol. 2012;8:602. doi: 10.1038/msb.2012.34.

27.

Accurate proteome-wide protein quantification from high-resolution 15N mass spectra.

Khan Z, Amini S, Bloom JS, Ruse C, Caudy AA, Kruglyak L, Singh M, Perlman DH, Tavazoie S.

Genome Biol. 2011 Dec 19;12(12):R122. doi: 10.1186/gb-2011-12-12-r122.

28.

Redox regulation of sirtuin-1 by S-glutathiolation.

Zee RS, Yoo CB, Pimentel DR, Perlman DH, Burgoyne JR, Hou X, McComb ME, Costello CE, Cohen RA, Bachschmid MM.

Antioxid Redox Signal. 2010 Oct 1;13(7):1023-32. doi: 10.1089/ars.2010.3251.

29.

Highly efficient and selective enrichment of peptide subsets combining fluorous chemistry with reversed-phase chromatography.

Ying W, Perlman DH, Li L, Théberge R, Costello CE, McComb ME.

Rapid Commun Mass Spectrom. 2009 Dec;23(24):4019-30. doi: 10.1002/rcm.4343.

30.

Software tool for researching annotations of proteins: open-source protein annotation software with data visualization.

Bhatia VN, Perlman DH, Costello CE, McComb ME.

Anal Chem. 2009 Dec 1;81(23):9819-23. doi: 10.1021/ac901335x.

31.

Immune versus thrombotic stimulation of platelets differentially regulates signalling pathways, intracellular protein-protein interactions, and alpha-granule release.

Rex S, Beaulieu LM, Perlman DH, Vitseva O, Blair PS, McComb ME, Costello CE, Freedman JE.

Thromb Haemost. 2009 Jul;102(1):97-110. doi: 10.1160/TH08-08-0513.

32.

Development of a malignancy-associated proteomic signature for diffuse large B-cell lymphoma.

Romesser PB, Perlman DH, Faller DV, Costello CE, McComb ME, Denis GV.

Am J Pathol. 2009 Jul;175(1):25-35. doi: 10.2353/ajpath.2009.080707. Epub 2009 Jun 4.

33.

Mechanistic insights into nitrite-induced cardioprotection using an integrated metabolomic/proteomic approach.

Perlman DH, Bauer SM, Ashrafian H, Bryan NS, Garcia-Saura MF, Lim CC, Fernandez BO, Infusini G, McComb ME, Costello CE, Feelisch M.

Circ Res. 2009 Mar 27;104(6):796-804. doi: 10.1161/CIRCRESAHA.108.187005. Epub 2009 Feb 19.

34.

Amyloidogenic and associated proteins in systemic amyloidosis proteome of adipose tissue.

Lavatelli F, Perlman DH, Spencer B, Prokaeva T, McComb ME, Théberge R, Connors LH, Bellotti V, Seldin DC, Merlini G, Skinner M, Costello CE.

Mol Cell Proteomics. 2008 Aug;7(8):1570-83. doi: 10.1074/mcp.M700545-MCP200. Epub 2008 May 12.

35.

Identification of oxidative post-translational modification of serum albumin in patients with idiopathic pulmonary arterial hypertension and pulmonary hypertension of sickle cell anemia.

Odhiambo A, Perlman DH, Huang H, Costello CE, Farber HW, Steinberg MH, McComb ME, Klings ES.

Rapid Commun Mass Spectrom. 2007;21(14):2195-203.

PMID:
17569101
36.

Coupling of protein HPLC to MALDI-TOF MS using an on-target device for fraction collection, concentration, digestion, desalting, and matrix/analyte cocrystallization.

Perlman DH, Huang H, Dauly C, Costello CE, McComb ME.

Anal Chem. 2007 Mar 1;79(5):2058-66. Epub 2007 Jan 26.

PMID:
17256876
37.

Regulation of hepadnavirus reverse transcription by dynamic nucleocapsid phosphorylation.

Basagoudanavar SH, Perlman DH, Hu J.

J Virol. 2007 Feb;81(4):1641-9. Epub 2006 Nov 29.

39.
40.

The meningococcal vaccine candidate GNA1870 binds the complement regulatory protein factor H and enhances serum resistance.

Madico G, Welsch JA, Lewis LA, McNaughton A, Perlman DH, Costello CE, Ngampasutadol J, Vogel U, Granoff DM, Ram S.

J Immunol. 2006 Jul 1;177(1):501-10.

41.

Reverse transcription-associated dephosphorylation of hepadnavirus nucleocapsids.

Perlman DH, Berg EA, O'connor PB, Costello CE, Hu J.

Proc Natl Acad Sci U S A. 2005 Jun 21;102(25):9020-5. Epub 2005 Jun 10.

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