Publications

Publications

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YearTitleJournalAuthorsApplication(s)
2014Polynucleotide 3'-terminal phosphate modifications by RNA and DNA ligasesJournal of Biological ChemistryAlexander M. Zhelkovsky and Larry A. McReynolds
2015Population genomic evidence for adaptive differentiation in Baltic Sea three-spined sticklebacks.BMCBiol.Guo B, DeFaveri J, Sotelo G, Nair A, Merilä J.
2006Post-translational covalent labeling reveals heterogeneous mobility of individual G protein-coupled receptors in living cellsChemBioChem Prummer M. et al.
2011Potent Anti-Tumor Effect Generated by a Novel Human Papilllomavirus (HPV) Antagonist Peptide Reactivating the pRb/E2F PathwayPLoS OneGuo, C.P. et al.
1996Potent Inhibition Of T7 Rna-Polymerase With A Truncated T7 Promoter.Abstracts Of Papers Of The American Chemical SocietyNoren, C.J., and Moreira, R.F.
2010Potential amyloid plaque-specific peptides for the diagnosis of Alzheimer's diseaseNeurobiol. Aging.Larbanoix, L. et al.
2005Preparation of an immunoadsorbent coupled with a recombinant antigen to remove anti-acetylcholine receptor antibodies in abnormal serum.J.Immunol.MethodsGuo, C.Y., Li, Z.Y., Xu, M.Q.and Yuan, J.M.
2015Pre-steady-state Kinetic Analysis of a Family D DNA Polymerase from Thermococcus sp. 9°N Reveals Mechanisms for Archaeal Genomic Replication and MaintenanceJ Biol ChemSchermerhorn KM, Gardner AF.
2015Pre-Steady-State Kinetic Analysis of a Family D DNA Polymerase from Thermococcus sp. 9°N Reveals Mechanisms for Archaeal Genomic Replication and MaintenanceJ Biol ChemSchermerhorn KM, Gardner AF
2009Prion protein glycosylation is not required for strain-specific neurotropism J Virol.  Piro, J.R., Harris, B.T., Nishina, K., Soto, C., Morales, R., Rees, J.R., Supattapone, S.
2014Probing homodimer formation of epidermal growth factor receptor by selective crosslinkingEur J Med ChemSun X, Dusserre-Bresson F, Baker B, Zhang A, Xu P, Fibbe C, Noren CJ, Corrêa IR Jr, Xu MQ
2015Probing the Run-On Oligomer of Activated SgrAI Bound to DNAPLoS OneShah, S., Sanchez, J., Stewart, A., et al.Cloning & Synthetic Biology, DNA Preparation, Restriction Enzyme Digestion
2014Procerain B, a cysteine protease from Calotropis procera, requires N-terminus pro-region for activity: cDNA cloning and expression with pro-sequence.Protein Expr PurifVidhyadhar Nandana, Sushant Singh, Abhay Narayan Singh, Vikash Kumar DubeyHigh-Fidelity PCR
2004Producing peptide arrays for epitope mapping by intein-mediated protein ligation.BioTechniquesSun, L., Rush, J., Ghosh, I., Maunus, J.R.and Xu, M.Q.
2006Production and purification of recombinant human glucagons overexpressed as intein fusion protein in Escherichia coliProtein Pept. Lett.Esipov, R.S., et. al.
2015Production of a Highly Protease-Resistant Fungal α-Galactosidase in Transgenic Maize Seeds for Simplified Feed ProcessingPLoS OneYang W., Zhang Y., Zhou X., Zhang W., Xu X., Chen R., Meng Q., Yuan J., Yang P., Yao B.
2015Production of bioactive chicken (Gallus gallus) follistatin-type proteins in E. coliAMB ExpressLee S.B., Park S.K., Kim Y.S.
2012Production of disulfide-bonded proteins in Escherichia coliProtein Expression and PurificationBerkmen, M.
Production of disulfide-bonded proteins in Escherichia coliBerkmen, M.
2014Production of Disulfide-Bonded Proteins in Escherichia coliCurr Protoc Mol BiolKe N, Berkmen M
2005Productive interaction of chaperones with substrate protein domains allows correct folding of the downstream GFP domain.GeneZhang, A., Cantor, E.J., Barshevsky, T.and Chong, S.
2016Profiling of core fucosylated N-glycans using a novel bacterial lectin that specifically recognizes α1,6 fucosylated chitobiose. Sci Rep.Vainauskas, S., Duke, R.M., McFarland, J., McClung, C., Ruse, C. and Taron, C.H.
2009Profiling the T-cell receptor beta-chain repertoire by massively parallel sequencingGenome Res. Freeman, J.D., Warren, R.L., Webb, J.R., Nelson, B.H. and Holt, R.A.
2006Profluorescent protein fragments for fast bimolecular fluorescence complementation in vitroNat. Protoc.Demidov, V.V., and Broude, N.E.
2013Prokaryotic super program advisory committee DOE Joint Genome Institute, Walnut Creek, CA, March 27, 2013Stand Genomic ScienceGarrity, G.M. Banfield, J., Eisen, J., van der Lelie, N., McMahon, T., Rusch, D., Delong, E., Moran, M.A., Currie, C., Fuhrman, J., Hallam, S., Hugenholtz, P., Moran, N., Nelson, K., Roberts, R., Stepanauskas, R.
2007Propagation of centromeric chromatin requires exit from mitosis J. of Cell Bio. Jansen L. et al
1987Properties and uses of restriction endonucleases.Methods Enzymol.Brooks, J.E.
2006Properties of the C-terminal domain of enzyme I of the Escherichia coli phosphotransferase system.J Biol Chem.Patel, H.V., Vyas, K.A., Mattoo, R.L., Southworth M., Perler, F.B., Comb, D.and Roseman, S.
2014Prospective identification of parasitic sequences in phage display screensNucleic Acids ResMatochko WL, Cory Li S, Tang SK, Derda RPhage Display
1993Protecting Recognition Sequences on DNA by a Cleavage-Deficient Restriction Endonuclease.BioTechniquesXu, S., and Schildkraut, I.
1987Protective immunity to Brugia malayi larvae in BALB/c mice: potential of this model for the identification of protective antigens.Am.J.Trop.Med.Hyg.Carlow, C.K.S., and Philipp, M.
2005Protein chemistry on the surface of living cells Chembiochem. Johnsson N. et al.
2009Protein conjugates of SH3-domain ligands and ATP- competitive inhibitors as bivalent inhibitors of protein kinasesChemBioChem. Tivari R. and Parang K.
2013Protein engineering: single or multiple site-directed mutagenesis Methods Mol Biol. Hsieh, P.C. and Vaisvila, R.
2006Protein function microarrays based on self-immobilizing and self-labeling fusion proteinsChemBioChem. Sielaff I. et al.
2006Protein function microarrays based on self-immobilizing and self-labeling fusion proteinsChemBioChem.Sielaff I. et al.
2010Protein mediated miRNA detection and siRNA enichment using p19.BioTechniquesJin, J., Cid, M., Poole, C.B.and McReynolds, L.A.
1997Protein splicing and autoproteolysis mechanisms.Curr.Opin.Chem.Biol.Perler, F.B., Xu, M.-Q.and Paulus, H.
2001Protein splicing and its aplications.Genet.Eng.(NY) Giriat, I., Muir, T.W.and Perler, F.B.
2000Protein splicing and its applications.Curr.Opin.Biotech.Perler, F.B.and Adam, E.
2005Protein Splicing Elements and Plants: From Transgene Containment to Protein Purification.Plant Biol.Evans, T.C., Jr., Xu, M.-Q.and Pradhan, S.
1994Protein splicing elements: inteins and exteins - a definition of terms and recommended nomenclature.Nucl.Acids Res.Perler, F.B., Davis, E.O., Dean, G.E., Gimble, F.S., Jack, W.E., Neff, N., Noren, C.J., Thorner, J., and Belfort, M.
2006Protein splicing in cis and in trans.The Chemical Record Saleh, L.and Perler, F.B.
2000Protein Splicing in the Absence of an Intein Penultimate Histidine.J.Biol.Chem.Chen, L., Benner, J.and Perler, F.
1996Protein splicing involving the Saccharomyces cerevisiae VMA intein.The steps in the splicing pathway, side reactions leading to protein cleavage, and establishment of an in vitro splicing system.J.Biol.Chem.Chong, S., Shao, Y., Paulus, H., Benner, J., Perler, F.B., and Xu, M.Q.
2006Protein splicing mechanisms and applications.IUBMB Life Perler, F.B.
1998Protein Splicing of inteins and hedgehog autoproteolysis: structure, function and evolution.CellPerler, F.B.
2002Protein Splicing of the Deinococcus radiodurans Strain R1 Snf2 Intein.J.Bacteriol.Southworth, M.W.and Perler, F.B.
1997Protein Splicing of the Saccharomyces cerevisiae VMA Intein without the Endonuclease Motifs*.J Biol.Chem.Chong, S., and Xu, M.Q.
1992Protein splicing removes intervening sequences in an archaea DNA polymerase.Nucl.Acids Res.Hodges, R.A., Perler, F.B., Noren, C.J., and Jack, W.E.
2001Protein splicing.Encyclopedia of GeneticsXu, M.Q., Chong, S.and T.C.Evans, Jr.
2009Protein Splicing: A Versatile Tool for Drug Discovery.Adv.Drug Deliv.Rev.Cheriyan, M.and Perler, F.B.
1994Protein splicing: an analysis of the branched intermediate and its resolution by succinimide formation.EMBO J.Xu, M.Q., Comb, D.G., Paulus, H., Noren, C.J., Shao, Y., and Perler, F.B.
1995Protein splicing: Chracterization of the aminosuccinimide residue at the carboxyl terminus of the excised intervening sequence.BiochemistryShao, Y., Xu, M.Q.and Paulus, H.
1996Protein Splicing: Evidence for an N-O Acyl Rearrangement as the Initial Step in the Splicing Process.BiochemistryShao, Y., Xu, M.Q., and Paulus, H.
2014Protein splicing: how inteins escape from precursor proteinsJ Biol ChemMills KV, Johnson MA, Perler FB
2007Protein synthesis in liposomes with a minimal set enzymesBiochem. Biophys. Res. Commun.  Murtas, G., Kuruma, Y., Bianchini, P., Diaspro, A., and Luisi, P.L.
2014Protein synthesis using a reconstituted cell-free systemCurr Protoc Mol BiolTuckey C, Asahara H, Zhou Y, Chong S
2005Protein synthesus by pure translation systemsMethodsShimizu, Y. Kanamori, T. and Ueda, T.
2000Protein trans-Splicing and Cyclization by a Naturally Split Intein from the dnaE Gene of Synechocystis Species PCC6803.J.Biol.Chem.Evans, T.C., Martin, D., Kolly, R., Panne, D., Sun, L., Ghosh, I., Chen, L., Benner, J., Liu, X-Q and Xu, M-Q
1998Protein trans-splicing and functional mini-inteins of a cyanobacterial dnaB intein.Biochim.et Biophys.Acta Wu, H., Xu, M-Q and Liu, X-Q
2003Protein trans-splicing in transgenic plant chloroplast: Reconstruction of herbicide resistance from split genes.Proc.Natl.Acad.Sci.USA Chin, H.G., Kim, G.D., Marin, I., Mersha, F., Evans, T.C.Jr., Chen, L., Xu, M.-Q.and Pradhan, S.
2001Protein trans-Splicing To Produce Herbicide-Resistant Acetolactate Synthase.Appl.Environ.Microbiol.Sun, L., Ghosh, I., Paulus, H.and Xu, M.Q.
2005Protein-functionalized polymer brushesBiomacromolecules Tugulu S. et al.
1999Protein-Modulated DNA Electron Transfer.J.Am.Chem.Soc.Rajski, S.R., Kumar, S., Roberts, R.J.and Barton, J.K.
2014Protein-protein interactions leading to the recruitment of the host DNA sliding clamp by the hyperthermophilic archaeal virus SIRV2J VirolGardner AF, Bell SD, White MF, Prangishvili D, Krupovic M
2015Proteomic Analysis Reveals Aberrant O-GlcNAcylation of Extracellular Proteins from Breast Cancer Cell SecretionCancer Genomics ProteomicsNetsirisawan P., Chokchaichamnankit D., Srisomsap C., Svasti J., Champattanachai V.
2003PspGI, a type II restriction endonuclease from the extreme thermophile Pyrococcus sp.: structural and functional studies to investigate an evolutionary relationship with several mesophilic restriction enzymes.J.Mol.Biol.Pingoud, V., Conzelmann, C., Kinzebach, S., Sudina, A., Metelev, V., Kubareva, E., Bujnicki, J.M., Lurz, R., Luder, G., Xu, S.Y.and Pingoud, A
2001PubMed Central: The GenBank of the Published Literature.Proc.Natl.Acad.Sci.Roberts, R.J.
1987Purification and assay of Type II DNA methylases.Methods Enzymol.Nelson, M., and McClelland, M.
2003Purification and characterisation of a novel DNA methyltransferase, M.AhdINucleic Acids ResearchMarks, P., McGeehan, J., Wilson, G., Errington, N. and Kneale, G.
1995Purification and characterization of C.BamHI, a regulator of the BamHI restriction-modification system.GeneSohail, A., Ives, C.L., and Brooks, J.E.
1995Purification and characterization of novel glycosidases from the bacterial genus Xanthomonas.GlycobiologyWong-Madden, S.T., and Landry, D.
2003Purification and characterization of the beta-trefoil fold protein barley alpha-amylase/subtilisin inhibitor overexpressed in Escherichia coliProtein Expr. Purif. Bonsager, B.C., et al.
1999Purification and crystallization of precursors and autoprocessed enzymes of Flavobacterium glycosylasparaginase: an N-terminal nucleophile hydrolase.Acta Crystallogr.D.Biol.Crystallogr.Cui, T., Liao, P.H., Guan, C.and Guo, H.C.
2002Purification and initial crystallization studies of a DnaB intein from Synechocystis sp.PCC 6803.Acta Crystallogr.D.Biol.Crystallogr.Chen, X., Xu, M.-Q., Ding, Y., Ferrandon, S.and Rao, Z.
2008Purification of green fluorescent protein using a two-intein systemAppl. Microbiol. Biotechnol.Zhao, Z., et. al.
1985Purification of MboII methylase (GAAGmA) from Moraxella bovis: site specific cleavage of DNA at nine and ten base pair sequences.Nucl.Acids Res.McClelland, M., Nelson, M., and Cantor, C.R.
2001Purification of proteins fused to either the amino or carboxy terminus of the Mycobacterium xenopi gyrase A intein.BioTechniquesSouthworth, M.W., Amaya, K., Evans, T.C., Xu, M-Q and Perler, F.B.
1999Purification of Proteins Fused to Either the Amino or Carboxy Terminus of the Mycobacterium xenopi Gyrase A Intein.Cloning and Expression vectors for Gene Function Analysis Southworth, M.W., Amaya, K., Evans, T.C., Xu, M.Q.and Perler, F.B.
2003Purification of recombinant proteins from E.coli by engineered inteins.Methods Mol.Biol.Xu, M.-Q.and Evans, T.C., Jr.
2000Purification of the Novel Endonuclease, Hpy188I, and Cloning of Its Restriction-Modification Genes Reveal Evidence of Its Horizontal Transfer to the Helicobacter pylori Genome.J.Biol.Chem.Xu, Q., Stickel, S., Roberts, R.J., Blaser, M.J.and Morgan, R.D.
2010Purification of untagged HIV-1 reverse transcriptase by affinity chromatographyProtein Expr. Purif.Lu, M., et. al.
2001Qualitative detection of apoptotic cells assessed by DNA fragmentation.Methods Mol.Biol.McIlwrath, A.J.
2013Quantifying Elongation Rhythm during Full-Length Protein SynthesisRosenblum G, Chen C, Kaur J, Cui X, Zhang H, Asahara H, Chong S, Smilansky Z, Goldman YE, Cooperman BS.
2016Quantitative profiling of glycans and glycopeptides: an informatics' perspectiveCurr Opin Struct Biol.Walsh, I., Zhao, S., Campbell, M., Taron, C.H. and Rudd, P.M.
2016RAD mapping reveals an evolving polymorphic and fuzzy boundary of a plant pseudoautosomal regionMol Ecol. Qiu S, Bergero R, Guirao-Rico S, Campos JL, Cezard T, Gharbi K, Charlesworth D.
2016RAD mapping reveals an evolving, polymorphic and fuzzy boundary of a plant pseudoautosomal region.Mol Ecol. Qiu S, Bergero R, Guirao-Rico S, Campos JL, Cezard T, Gharbi K, Charlesworth D.
2015RAD sequencing and genomic simulations resolve hybrid origins within North American Canis.Bio Lett.Rutledge LY, Devillard S, Boone JQ, Hohenlohe PA, White BN.
2010Radiation-guided drug delivery to mouse models of lung cancerClin. Cancer Res.Hairiri, G. et al.
2016RAD-seq data point to a northern origin of the arctic-alpine genus Cassiope (Ericaceae).Mol Phylogenet Evol. Hou Y, Nowak MD, Mirré V, Bjorå CS, Brochmann C, Popp M.
2016RAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas.Mol Phylogenet Evol.Díaz-Arce N, Arrizabalaga H, Murua H, Irigoien X, Rodríguez-Ezpeleta N.
2014Rapid and Efficient Assembly of Transcription Activator-Like Effector Genes by USER CloningJ Genet GenomicsWang S, Li W, Wang S, Hu BUSER™ Cloning
2015Rapid detection of equine coronavirus by reverse transcription loop-mediated isothermal amplification.J Virol MethodsManabu Nemoto, Yoshinori Morita, Hidekazu Niwa, Hiroshi Bannai, Koji Tsujimura, Takashi Yamanaka, Takashi KondoIsothermal Amplification
2010Rapid electronic detection of probe-specific microRNAs using thin nanopore sensorsNature NanotechWanunu, M., et al.
2012Rapid incorporation kinetics and improved fidelity of a novel class of 3'-OH unblocked reversible terminatorsNucleic Acids Res.Gardner, A.F., Wang, J., Wu, W., Karouby, J., Li, H., Stupi, B.P., Jack, W.E., Hersh, M.N. and Metzker, M.L.
2015Rapid isolation and single-molecule analysis of ribonucleoproteins from cell lysate by SNAP-SiMPullRNAMargaret L Rodgers, Joshua Paulson, Aaron A HoskinsSNAP Surface, SNAP Cell
2010Rapid optical imaging of EGF receptor expression with a single-chain antibody SNAP-tag fusion proteinEur. J. Med. Mol. Imaging Kampmeier, F. et al.
2015Rapid Preparation of Released N-Glycans for HILIC Analysis Using a Labeling Reagent that Facilitates Sensitive Fluorescence and ESI-MS DetectionAnal ChemLauber, M.A., Yu, Y.Q., Brousmiche,D.W., Hua, Z., Koza, S.M., Magnelli, P., Guthrie, E., Taron, C.H. and Fountain, K.J.
2017Rapid Time Scale Analysis of T4 DNA Ligase–DNA Binding.BiochemistryBauer, R.J., Jurkiw, T.J., Evans, T.C. Jr. and Lohman, G.J.