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Adamian L, Naveed H, Liang J. Lipid-binding surfaces of membrane proteins: evidence from evolutionary and structural analysis. Biochim Biophys Acta. 2011 Apr;1808(4):1092-102. (PubMed)
Aguirre B, Costas M, Cabrera N, Mendoza-Hernández G, Helseth DL Jr, Fernández P, Tuena de Gómez-Puyou M, Pérez-Montfort R, Torres-Larios A, Gómez-Puyou A. A Ribosomal Misincorporation of Lys for Arg in Human Triosephosphate Isomerase Expressed in Escherichia coli Gives Rise to Two Protein Populations. PLoS ONE. 2011 6(6): e21035. doi:10.1371/journal.pone.0021035 (PubMed)
Albert BJ, Yamaoka Y, Yamamoto H. Rapid total syntheses utilizing “supersilyl” chemistry. Angew Chem Int Ed Engl. 2011 Mar 7;50(11):2610-2. (PubMed)
Al-Dhaheri M, Wu J, Skliris GP, Li J, Higashimato K, Wang Y, White KP, Lambert P, Zhu Y, Murphy L, Xu W. CARM1 is an important determinant of ER{alpha}-dependent breast cancer cell differentiation and proliferation in breast cancer cells. Cancer Res. 2011 Mar 15;71(6):2118-28. (PubMed)
Ames BD, Haynes SW, Gao X, Evans BS, Kelleher NL, Tang Y, Walsh CT. Complexity Generation in Fungal Peptidyl Alkaloid Biosynthesis: Oxidation of Fumiquinazoline A to the Heptacyclic Hemiaminal Fumiquinazoline C by the Flavoenzyme Af12070 from Aspergillus fumigatus. Biochemistry. 2011 Oct 11;50(40):8756-69. (PubMed)
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Bai H, Sun M, Ghosh P, Hatfull GF, Grindley ND, Marko JF. Single-molecule analysis reveals the molecular bearing mechanism of DNA strand exchange by a serine recombinase. Proc Natl Acad Sci U S A. 2011 May 3;108(18):7419-24. (PubMed)
Barrière A, Gordon KL, Ruvinsky I. Distinct functional constraints partition sequence conservation in a cis-regulatory element. PLoS Genet. 2011 Jun;7(6):e1002095. (PubMed)
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Bellis AD, Bernabé BP, Weiss MS, Yarrington ME, Barbolina MV, Pannier AK, Jeruss JS, Broadbelt LJ, Shea LD. Cellular arrays for large-scale analysis of transcription factor activity. Biotechnol Bioeng. 2011 Feb;108(2):395-403. (PubMed)
Below JE, Gamazon ER, Morrison JV, Konkashbaev A, Pluzhnikov A, McKeigue PM, Parra EJ, Elbein SC, Hallman DM, Nicolae DL, Bell GI, Cruz M, Cox NJ, Hanis CL. Genome-wide association and meta-analysis in populations from Starr County, Texas, and Mexico City identify type 2 diabetes susceptibility loci and enrichment for expression quantitative trait loci in top signals. Diabetologia. 2011 Aug;54(8):2047-55. (PubMed)
Bernhardt ML, Kim AM, O’Halloran TV, Woodruff TK. Zinc requirement during meiosis I-meiosis II transition in mouse oocytes is independent of the MOS-MAPK pathway. Biol Reprod. 2011 Mar;84(3):526-36. (PubMed)
Bissonnette CJ, Lyass L, Bhattacharyya BJ, Belmadani A, Miller RJ, Kessler JA. The controlled generation of functional basal forebrain cholinergic neurons from human embryonic stem cells. Stem Cells. 2011 May;29(5):802-11. (PubMed)
Bonnell DA, Dravid VP, Weiss PS, Ginger D, Jackson K, Eigler D, Craighead H, Isaacs E. Enabling and Investigative Tools: Measuring Methods, Instruments, and Metrology. In: Nanotechnology Research Directions for Societal Needs in 2020: Retrospective and Outlook. 2011 71-107. (wtec.org)
Brugarolas P, Duguid EM, Zhang W, Poor CB, He C. Structural and biochemical characterization of N5-carboxyaminoimidazole ribonucleotide synthetase and N5-carboxyaminoimidazole ribonucleotide mutase from Staphylococcus aureus. Acta Cryst. 2011 D67, 707-715. (scripts.iucr.org)
Campanharo AS, Sirer MI, Malmgren RD, Ramos FM, Amaral LA. Duality between time series and networks. PLoS One. 2011;6(8):e23378. (PubMed)
Chaudhuri R, Tang S, Zhao G, Lu H, Case DA, Johnson ME. Comparison of SARS and NL63 Papain-Like Protease Binding Sites and Binding Site Dynamics: Inhibitor Design Implications. J Mol Biol. 2011 Nov 25;414(2):272-88. (PubMed)
Chen P, Lingen M, Sonis ST, Walsh-Reitz MM, Toback FG. Role of AMP-18 in oral mucositis. Oral Oncol. 2011 Sep;47(9):831-9. (PubMed)
Chen PR, Brugarolas P, He C. Redox signaling in human pathogens. Antioxid Redox Signal. 2011 Mar 15;14(6):1107-18. (PubMed)
Chen T, Benmohamed R, Arvanites AC, Ralay Ranaivo H, Morimoto RI, Ferrante RJ, Watterson DM, Kirsch DR, Silverman RB. Arylsulfanyl pyrazolones block mutant SOD1-G93A aggregation. Potential application for the treatment of amyotrophic lateral sclerosis. Bioorg Med Chem. 2011 Jan 1;19(1):613-22. (PubMed)
Chen ZX, Zhang YE, Vibranovski M, Luo J, Gao G, Long M. Deficiency of X-linked inverted duplicates with male-biased expression and the underlying evolutionary mechanisms in the Drosophila genome. Mol Biol Evol. 2011 Oct;28(10):2823-32. (PubMed)
Cheng J, Tiyaboonchai A, Yamashita YM, Hunt AJ. Asymmetric division of cyst stem cells in Drosophila testis is ensured by anaphase spindle repositioning. Development. 2011 Mar;138(5):831-7. (PubMed)
Cheon CH, Yamamoto H. Super Brønsted acid catalysis. Chem Commun (Camb). 2011 Mar 21;47(11):3043-56. (PubMed)
Cheung D, Miles C, Kreitman M, Ma J. Scaling of the Bicoid morphogen gradient by a volume-dependent production rate. Development. 2011 Jul;138(13):2741-9. (PubMed)
Chevrier N, Mertins P, Artyomov MN, Shalek AK, Iannacone M, Ciaccio MF, Gat-Viks I, Tonti E, DeGrace MM, Clauser KR, Garber M, Eisenhaure TM, Yosef N, Robinson J, Sutton A, Andersen MS, Root DE, von Andrian U, Jones RB, Park H, Carr SA, Regev A, Amit I, Hacohen N. Systematic discovery of TLR signaling components delineates viral-sensing circuits. Cell. 2011 Nov 11;147(4):853-67. (PubMed)
Chow CR, Yau DM, Kozasa T. p115RhoGEF. UCSD-Nature Molecule Pages. 2011. (signaling-gateway.org)
Collier JH, Segura T. Evolving the use of peptides as components of biomaterials. Biomaterials. 2011 Jun;32(18):4198-204. (PubMed)
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Compton PD, Zamdborg L, Thomas PM, Kelleher NL. On the Scalability and Requirements of Whole Protein Mass Spectrometry. Anal Chem. 2011 Sep 1;83(17):6868-74. (PubMed)
Cui J, Hao J, Ulanovskaya OA, Dundas J, Liang J, Kozmin SA. Organic Synthesis Toward Small-Molecule Probes and Drugs Special Feature: Creation and manipulation of common functional groups en route to a skeletally diverse chemical library. Proc Natl Acad Sci U S A. 2011 Apr 26;108(17):6763-8. (PubMed)
Curtis MW, Russell B. Micromechanical regulation in cardiac myocytes and fibroblasts: implications for tissue remodeling. Pflugers Arch. 2011 Jul;462(1):105-17. (PubMed)
Cutler JI, Zhang K, Zheng D, Auyeung E, Prigodich AE, Mirkin CA. Polyvalent nucleic acid nanostructures. J Am Chem Soc. 2011 Jun 22;133(24):9254-7. (PubMed)
Dai Q, Sengupta R, Deb SK, Piccirilli JA. Synthesis of 2′-N-methylamino-2′-deoxyguanosine and 2′-N,N-dimethylamino-2′-deoxyguanosine and their incorporation into RNA by phosphoramidite chemistry. J Org Chem. 2011 Nov 4;76(21):8718-25. (PubMed)
Dai Q, Song CX, Pan T, He C. Syntheses of Two 5-Hydroxymethyl-2′-deoxycytidine Phosphoramidites with TBDMS as the 5-Hydroxymethyl Protecting Group and Their Incorporation into DNA. J Org Chem. 2011 May 20;76(10):4182-8. (PubMed)
De M, Chou SS, Dravid VP. Graphene oxide as an enzyme inhibitor: modulation of activity of α-chymotrypsin. J Am Chem Soc. 2011 Nov 9;133(44):17524-7. (PubMed)
De M, Chou SS, Joshi HM, Dravid VP. Hybrid magnetic nanostructures (MNS) for magnetic resonance imaging applications. Adv Drug Deliv Rev. 2011 Nov;63(14-15):1282-99. (PubMed)
Divoli A, Mendonça EA, Evans JA, Rzhetsky A. Conflicting biomedical assumptions for mathematical modeling: the case of cancer metastasis. PLoS Comput Biol. 2011 Oct;7(10):e1002132. (PubMed)
Dizon ML, Maa T, Kessler JA. The bone morphogenetic protein antagonist noggin protects white matter after perinatal hypoxia-ischemia. Neurobiol Dis. 2011 Jun;42(3):318-26. (PubMed)
Doré LC, Crispino JD. Transcription factor networks in erythroid cell and megakaryocyte development. Blood. 2011 Blood. 2011 Jul 14;118(2):231-9. (PubMed)
Doucette AA, Tran JC, Wall MJ, Fitzsimmons S. Intact proteome fractionation strategies compatible with mass spectrometry. Review. Expert Review of Proteomics. December 2011, Vol. 8, No. 6, Pages 787-800, DOI 10.1586/epr.11.67 (PubMed)
Dundas J, Adamian L, Liang J. Structural signatures of enzyme binding pockets from order-independent surface alignment: a study of metalloendopeptidase and NAD binding proteins. J Mol Biol. 2011 Mar 11;406(5):713-29. (PubMed)
ENCODE Project Consortium, Myers RM, Stamatoyannopoulos J, Snyder M, Dunham I, Hardison RC, Bernstein BE, Gingeras TR, Kent WJ, Birney E, Wold B, Crawford GE. A user’s guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol. 2011 Apr;9(4):e1001046. (PubMed)
Evans BS, Chen Y, Metcalf WW, Zhao H, Kelleher NL. Directed Evolution of the Nonribosomal Peptide Synthetase AdmK Generates New Andrimid Derivatives In Vivo. Chem Biol. 2011 May 27;18(5):601-7. (PubMed)
Evans BS, Ntai I, Chen Y, Robinson SJ, Kelleher NL. Proteomics-Based Discovery of Koranimine, a Cyclic Imine Natural Product. J Am Chem Soc. 2011 May 18;133(19):7316-9. (PubMed)
Evans BS, Robinson SJ, Kelleher NL. Surveys of non-ribosomal peptide and polyketide assembly lines in fungi and prospects for their analysis in vitro and in vivo. Fungal Genet Biol. 2011 Jan;48(1):49-61. (PubMed)
Evans JA, Rzhetsky A. Advancing science through mining libraries, ontologies, and communities. J Biol Chem. 2011 Jul 8;286(27):23659-66. (PubMed)
Fajans SS, Bell GI. MODY: history, genetics, pathophysiology, and clinical decision making. Diabetes Care. 2011 Aug;34(8):1878-84. (PubMed)
Feng X, Grossman R, Stein L. PeakRanger: a cloud-enabled peak caller for ChIP-seq data. BMC Bioinformatics. 2011 May 9;12:139. (PubMed)
Fenner D, Odili S, Hong HK, Kobayashi Y, Kohsaka A, Siepka SM, Vitaterna MH, Chen P, Zelent B, Grimsby J, Takahashi JS, Matschinsky FM, Bass J. Generation of ENU diabetes models in the mouse demostrates genotype-specific action of glucokinase activators. J Biol Chem. 2011 Nov 11;286(45):39560-72. (PubMed)
Ferreira A, Bigio EH. Calpain-mediated tau cleavage: a mechanism leading to neurodegeneration shared by multiple tauopathies. Mol Med. 2011;17(7-8):676-85. (PubMed)
Fu H, Chen H, Zhang X, Qu Y, Marko JF, Yan J. Transition dynamics and selection of the distinct S-DNA and strand unpeeling modes of double helix overstretching. Nucleic Acids Res. 2011 Apr 1;39(8):3473-81. (PubMed)
Fushimi K, Long C, Jayaram N, Chen X, Li L, Wu JY. Expression of human FUS/TLS in yeast leads to protein aggregation and cytotoxicity, recapitulating key features of FUS proteinopathy. Protein Cell. 2011 Feb;2(2):141-9. (PubMed)
García J. The calcium channel α2/δ1 subunit interacts with ATP5b in the plasma membrane of developing muscle cells. Am J Physiol Cell Physiol. 2011 Jul;301(1):C44-52. (PubMed)
Gasiorowski JZ, Collier JH. Directed Intermixing in Multicomponent Self-Assembling Biomaterials. Biomacromolecules. 2011 Oct 10;12(10):3549-58. (PubMed)
Gerbasi VR, Preall JB, Golden DE, Powell DW, Cummins TD, Sontheimer EJ. Blanks, a nuclear siRNA/dsRNA-binding complex component, is required for Drosophila spermiogenesis. Proc Natl Acad Sci U S A. 2011 Feb 22;108(8):3204-9. (PubMed)
Gessmann D, Mager F, Naveed H, Arnold T, Weirich S, Linke D, Liang J, Nussberger S. Improving the resistance of a eukaryotic β-barrel protein to thermal and chemical perturbations. J Mol Biol. 2011 Oct 14;413(1):150-61. (PubMed)
Gidalevitz T, Prahlad V, Morimoto RI. The stress of protein misfolding: from single cells to multicellular organisms. Cold Spring Harb Perspect Biol. 2011 Jun 1;3(6). (PubMed)
Godley LA, Cunningham J, Dolan ME, Huang RS, Gurbuxani S, McNerney ME, Larson RA, Leong H, Lussier Y, Onel K, Odenike O, Stock W, White KP, Le Beau MM. An integrated genomic approach to the assessment and treatment of acute myeloid leukemia. Semin Oncol. 2011 Apr;38(2):215-24. (PubMed)
Graham JS, Johnson RC, Marko JF. Concentration-dependent exchange accelerates turnover of proteins bound to double-stranded DNA. Nucleic Acids Res. 2011 Mar 1;39(6):2249-59. (PubMed)
Graham JS, Johnson RC, Marko JF. Counting proteins bound to a single DNA molecule. Biochem Biophys Res Commun. 2011 Nov 11;415(1):131-4. (PubMed)
Greeley SA, John PM, Winn AN, Ornelas J, Lipton RB, Philipson LH, Bell GI, Huang ES. The cost-effectiveness of personalized genetic medicine: the case of genetic testing in neonatal diabetes. Diabetes Care. 2011 Mar;34(3):622-7. (PubMed)
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Gu Y, Grossman R. Toward Efficient and Simplified Distributed Data Intensive Computing. IEEE Transactions on Parallel and Distributed Systems. 2011 Volume 22, Issue 6, pages 974-984. (ieeexplore.ieee.org)
Guan W, Ban L, Cai L, Li L, Chen W, Liu X, Mrksich M, Wang PG. Combining carbochips and mass spectrometry to study the donor specificity for the Neisseria meningitidis β1,3-N-acetylglucosaminyltransferase LgtA. Bioorg Med Chem Lett. 2011 Sep 1;21(17):5025-8. (PubMed)
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Hollenhorst MA, Ntai I, Badet B, Kelleher NL, Walsh CT. A Head-to-Head Comparison of Eneamide and Epoxyamide Inhibitors of Glucosamine-6-Phosphate Synthase from the Dapdiamide Biosynthetic Pathway. Biochemistry. 2011 May 17;50(19):3859-61. (PubMed)
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Khodr CE, Sapru MK, Pedapati J, Han Y, West NC, Kells AP, Bankiewicz KS, Bohn MC. An alpha- synuclein AAV gene silencing vector ameliorates a behavioral deficit in a rat model of Parkinson’s disease, but displays toxicity in dopamine neurons. Brain Research. 2011 Jun 13;1395:94-107. (PubMed)
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