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We believe that basic research and the cultivation of scientific knowledge is critical for us to stay connected with our customers and to drive scientific breakthroughs. At NEB, over 30 labs participate in research projects, which are aided by post-doctoral fellows and students in Masters and Ph.D. programs. NEB researchers have authored or co-authored over 1,000 publications (as of 1/17) many of which are in peer-reviewed journals. Further, NEB products have been used successfully in numerous publications by scientists throughout the world.

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Year Title Journal Authors Application(s)
2011 Filarial and Wolbachia genomics Parasite Immunol Scott, A.L., Ghedin, E., Nutman, T.B., McReynolds, L.A., Poole, C.B., Slatko, B.E. and Foster, J.M.
2011 Kinetic study of de novo chromophore maturation of fluorescent proteins Anal. Biochem. Iizuka, R., Yamagishi-Shirasaki, M. and Funatsu, T.
2011 Mutational and biochemical analysis of the DNA-entry nuclease EndA from Streptococcus pneumoniae Nucleic Acids Res. Midon, M., Schäfer, P., Pingoud, A., Ghosh, M., Moon, A.F., Cuneo, M.J., London, R.E. and Meiss, G.
2011 Natural and engineered nicking endonucleases--from cleavage mechanism to engineering of strand-specificity. Nucl.Acids.Res. Chan, S.H., Stoddard, B.L.and Xu, S.Y.
2011 Intravesicle Isothermal DNA Replication. BMC Res Notes Torino, D., Del Bianco, C., Ross, L., Ong, J.and Mansy, S.
2011 Introduction and historical overview of DNA sequencing Curr. Prot. Mol. Biol. Nelson, F.K, et. al.
2011 Kinetic characterization of single strand break ligation in duplex DNA by T4 DNA Ligase. J Biol Chem. Lohman, G.J.S., Chen, L.and Evans, T.C., Jr.
2011 Ordered and dynamic assembly of single spliceoseoms Science Hoskins, A. et al.
2011 Overexpression and purification of U24 from human herpesvirus type-6 in E. coli: unconvential use of oxidizing environments with a maltose binding protein-hexahistidine dual tag to enhance membrane protein yield Microbial Cell Factories Tait, A.R. and Straus, S.K.
2011 Overview of DNA Sequencing Strategies Curr.Protoc.Mol.Biol. Shendure, J.A., Porreca, G.J., Church, G.M., Gardner, A.F.Hendrickson, C.L., Kieleczawa, J.and Slatko, B.E.
2011 New Clues in the Allosteric Activation of DNA Cleavage by SgrAI; Structures of SgrAI Bound to Cleaved Primary Site DNA and Uncleaved Secondary Site DNA. Acta Crystallogr.F.Structural biology and crystallization communications Little, E.J., Dunten, P.W., Bitinaite, J.and Horton, N.C.
2011 Next-gen expression systems Ritter, A.
2011 Optimization of Medium Composition for Production of Recombinant Calf Chymosin from Kluyveromyces lactis in Submerged Fermentation J. of Northeast Agricultural University Feng, Z., et al.
2011 Identification of targeting peptides for ischemic myocardium by in vivo phage display J. Mol. Cell. Cardiol. Kanki, S. et al.
2011 Genome-wide mapping of the sixth base Genome Biol. Diep, D. and Zhang, K.
2011 Heterologous expression of a thermophilic esterase in Kluyveromyces yeasts Appl. Microbiol. Biotechnol. Rocha S.N., et al.
2011 High sensitivity 4-hydroxymethylcytosine detection in Balb/C brain tissue. J Vis Exp. Davis, T.and Vaisvila, R.
2011 "First Generation" automated DNA sequencing technology Curr. Prot. Mol. Biol. Slatko, B.E., et al.
2011 Fluorescent peptides highlight peripheral nerves during surgery in mice Nat. Biotechnol. Whitney, M.A. et al.
2011 Fluorescent site-specific labeling of Escherichia coli expressed proteins with Sfp phosphopantetheinyl transferase Methods Mol.Biol. Zhang, A., Sun, L., Buswell, J., Considine, N., Ghosh, I., Masharina, A., Noren, C.and Xu, M.Q.
2011 Identification and characterization of protein glycosylation using specific endo- and exoglycosidases. Methods Mol.Biol. Magnelli, P., Bielik, A.and Guthrie, E.
2011 Identification and characterization of the cofactor-independent phosphoglycerate mutases of Dirofilaria immitis and its Wolbachia endosymbiont. Veterinary Parasitology Li.Z., Galvin, B., Raverdy, S.and Carlow, C.K.S.
2011 Identification of a chitin-induced small RNA that regulates translation of the tfoX gene, encoding a positive regulator of natural competence in Vibrio cholerae J Bacteriol. Yamamoto, S., Izumiya, H., Mitobe, J., Morita, M., Arakawa, E., Ohnishi, M. and Watanabe, H.
2011 High-throughput analysis of the mutagenic and cytotoxic properties of DNA lesions by next-generation sequencing Nuc. Acids Res. Yuan, B., Wang, J., Cao, H. et al
2011 Identification and Characterization of Protein Glycosylation using Specific Endo- and Exoglycosidases J Vis Exp. Magnelli PE, Bielik AM, Guthrie EP.
2011 Permanent Genetic Resources added to Molecular Ecology Resources Database 1 April 2011-31 May 2011. Mol Ecol Resour. Molecular Ecology Resources Primer Development Consortium, Bonizzoni, M., Bourjea, J., Chen, B., Crain, B.J., Cui, L., Fiorentino, V., Hartmann, S., Hendricks, S., Ketmaier, V., Ma, X., Muths, D., Pavesi, L., Pfautsch, S., Rieger, M.A., Santonastaso, T., Sattabongkot, J., Taron, C.H., Taron, D.J., Tiedemann, R., Yan, G., Zheng, B.and Zhong, D.
2011 The MspJI family of modification-dependent restriction endonucleases for epigenetic studies. Proc.Natl.Acad.Sci. Cohen-Karni, D., Xu, D., Apone, L., Formenkov, A., Sun, Z., Davis, P.J., Morey Kinney, S.R., Yamada-Mabuchi, M., Xu, S.-y., Davis, T., Pradhan, S.Roberts, R.J., Zheng, Y.
2011 Tissue specific distribution and dynamic changes of 5-hydroxymethylcytosine in mammalian genome J. Biol. Chem. Kinney, S.M. et al.
2011 TrbB from conjugative plasmid F is a structurally distinct disulfide isomerase that requires DsbD for redox state maintenance. J Bacteriol Hemmis, C.W., Berkmen, M., Eser, M.and Schildbach, J.F.
2011 Recent developments in difficult protein expression: A guide to E. colistrains, promoters, and relevant host mutations. Methods in Molecular Biology Samuelson, J.C.
2011 The Molecular Biology, Immunology and chemotherapy of Wolbachia bacterial endosymbionts of filarial nematodes Parasitic Nematodes: Molecular Biology, Biochemistry & Immunology (Kennedy, M.and Harnett, W., eds.) Foster, J.M., Hoerauf, A., Slatko, B.E.and Taylor, M.J.
2011 The MspJI family of modification-dependent restriction endonucleases for epigenetic studies Proc. Natl. Acad. Sci. Cohen-Karni, D, et al.
2011 Uptake of radiolabeled GlcNAc into Saccharomyces cerevisiae via native hexose transporters and its in vivo incorporation into GPI precursors in cells expressing heterologous GlcNAc kinase. REMS Yeast Res Scarcelli, J.J., Colussi, P.A., Fabre, A.L., Boles, E., Orlean, P.and Taron, C.H.
2011 Using a structural and logics systems approach to infer bHLH-DNA binding specificity determinants Nucleic Acids Res. De Masi, F., Grove, C.A., Vedenko, A., Alibés, A., Gisselbrecht, S.S., Serrano, L., Bulyk, M.L. and Walhout, A.J.
2011 YaeJ is a novel ribosome-associated protein inEscherichia coli that can hydrolyze peptidyl-tRNA on stalled ribosomes Nucleic Acids Res.  Handa, Y., Inaho, N. and Nameki, N.
2011 Tuned Escherichia coli as a host for the expression of disulfide-rich proteins Biotechnology Journal Salinas, G., Pellizza, L., Margenat, M., et al.
2011 Tuning different expression parameters to achieve soluble recombinant proteins in E. coli: Advantages of high-throughput screening Biotechnology Journal Correa, A. and Oppezzo, P.
2011 Two Color STED microscopy in living cells. Biomedical Optics Express Pellett, P.A., Sun, X., Gould, T.J., Rothman, J.E., Xu, M-Q, Corrêa, I.R.Jr.and Bewersdorf, J.
2011 The characterization of human adenylate kinases 7 and 8 demonstrates differences in kinetic parameters and structural organization among the family of adenylate kinase isoenzymes Biochem J.  Panayiotou, C., Solaroli, N., Xu, Y., Johansson, M. and Karlsson, A.
2011 Regulation of expression and activity of DNA (cytosine-5) methyltransferases in mammalian cells Prog Mol Biol Transl Sci. Kinney, S.R. and Pradhan, S.
2011 Screening of specific binding peptide targeting blood vessel of human esophageal cancer in vivo in mice Chin. Med. J. Zhi, M. et al.
2011 Selection of peptides targeting helix 31 of bacterial 16S ribosomal RNA by screening M13 phage-display libraries Molecules Lamichhane, T.N., Abeydeera, N.D., Duc, A.C., Cunningham, P.R. and Chow, C.S
2011 Potent Anti-Tumor Effect Generated by a Novel Human Papilllomavirus (HPV) Antagonist Peptide Reactivating the pRb/E2F Pathway PLoS One Guo, C.P. et al.
2011 "Recent Developments in Difficult Protein Expression: A Guide to E.coli strains, Promoters and Relevant Host Mutations" editors Tom C.Evans Jr.and Ming-Qun Xu, Humana Press Methods Mol.Biol. Samuelson, J.C.
2011 Recombination in Wolbachia endosymbionts of filarial nematodies? Appl.Environ.Microbiol. Foster, J., Slatko, B., Bandi, C.and Kumar, S.
2011 Targeting the Wolbachia Cell Division Protein FtsZ as a New Approach for Antifilarial Therapy. PLoS Neglected Tropical Diseases Li, Z., Garner, A.L., Gloeckner, C., Janda, K.D.and Carlow, C.K.
2011 The Arthrobacter Species FB24 Arth_1007 (DnaB) Intein Is a Pseudogene. PLoS ONE Tori, K.and Perler, F.B.
2011 Simple and efficient synthesis of 5′ pre-adenylated DNA using thermostable RNA ligase. Nucl.Acids Res. Zhelkovsky, A.M.and McReynolds, L.A.
2011 Site-specific protein labeling by intein-mediated protein ligation. Methods Mol.Biol. Ghosh, I., Considine, N., Maunus, E., Sun, L., Zhang, A., Buswell, J., Evans, T.C.Jr.and Xu, M.Q.
2011 T4 RNA ligase 2 truncated active site mutants: improved tools for RNA analysis. BMC Biotechnol. Viollet, S., Fuchs, R.T., Munafo, D.B., Zhuang, F.and Robb, G.B.
2011 Activity, specificity and structure of I-Bth03051: a representative of a new homing endonuclease family Taylor, G.K., Heiter, D.F., Pietrokovski, S. and Stoddard, B.L.
2011 Asymmetric DNA recognition by the OkrAI endonuclease, an isoschizomer of BamHI. Nucl.Acids.Res. Vanamee, E.S., Viadiu, H., Chan, S.H., Ummat, A., Hartline, A.M., Xu, S.Y.and Aggarwal, A.K.
2011 Biochemical Characterization of a Structure-Specific Resolving Enzyme from Sulfolobus Islandicus Rod-Shaped Virus 2. PLoS ONE Gardner, A.F., Guan, C.and Jack, W.E.
2011 A set of aspartyl protease-deficient strains for improved expression of heterologous proteins in Kluyveromyces lactis. FEMS Yeast Res. Ganatra, M.B., Vainauskus, S., Hong, J.M., Taylor, T.E., Denson, J.P., Esposito, D., Read, J.D., Schmeisser, H., Zoon, K.C., Hartley, J.L.and Taron, C.H.
2011 A SNAP-tagged detivative of HIV-1 - A versatile tool to study virus-cell interactions PLoS One Eckhardt, M. et al.
2011 A type IV modification-dependent restriction enzyme SauUSI from Staphylococcus aureus subsp.aureus USA300. Nucl.Acids.Res. Xu, S.Y., Corvaglia, A.R., Chan, S.H., Zheng, Y.and Linder, P.
2011 Characterization of MspNI (G/GWCC) and MspNII (R/GATCY), novel thermostable Type II restriction endonucleases from Meiothermus sp., isoschizomers of AvaII and BstYI Mol Biol Rep. Gupta, R., Xu, S.Y., Sharma, P. and Capalash, N.
2011 Characterization of Sulfolobus islandicus rod-shaped virus 2 gp19, a single-strand specific endonuclease. Extremophiles Gardner, A.F., Prangishvili, D.and Jack.W.E.
2011 Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq Genome Res. Saiful, I., Kjällquist, U., Moliner, A. et al
2011 Branched Intermediate Formation is the Slowest Step in th Protein Splicing Reaction of the Ala1 KbA Intein from Methanococcus jannaschii Saleh, L., Southworth, M.W., Considine, N., O'Neill, C., Benner, J., Bollinger, J.M. and Perler, F.B.
2011 C.elegans galectins LEC-6 and LEC-10 interact with similar glycoconjugates in the intestine. J Biol Chem. Maduzia, L.L., Yu, E.and Zhang, Y.
2011 Characterization and crystal structure of the type IIG restriction endonuclease RM.BpuSI. Nucl.Acids.Res. Shen, B.W., Xu, D., Chan, S.H., Zheng, Y., Zhu, Z., Xu, S.Y.and Stoddard, B.L.
2011 A set of aspartyl protease-deficient strains for improved expression of heterologous proteins in Kluyveromyces lactis FEMS Yeast Res. Ganatra, M.B., Rainauskas, S., Hong J.M., Taylor, T.E., Denson, J.P.M., Esposito, D., Read, J.D., Schmeisser, H., Zoon, K.C., Hartley, J.L. and Taron, C.H.
2011 6-Thioguanine reactivates epigenetically silenced genes in acute lymphoblastic leukemia cells by facilitating proteasome-mediated degradation of DNMT1 Canc. Res.
2011 A highly controllable reconstituted cell-free system--a breakthrough in protein synthesis research Curr. Pharm. Biotechnol. Ohashi, H., Kanamori, T., Shimizu, Y. and Ueda, T.
2011 A methylation and phosphorylation switch between an adjacent lysine and serine determines human DNMT1 stability. Nat Struct Mol Biol. Estève, P.O., Chang, Y., Samaranayake, M., Upadhyay, A.K., Horton, J.R., Feehery, G.R., Cheng, X.and Pradhan, S.
2011 5-aza-2'-deoxycytidine and interleukin-1 cooperate to regulate matrix metalloproteinase-3 gene expression. Int.J.Cancer Couillard, J., Estève, P.O., Pradhan, S.and St-Pierre, Y.
2011 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells Gen. Biol. Stroud, H., et al.
2011 6-Thioguanine Reactivates Epigenetically Silenced Genes in Acute Lymphoblastic Leukemia Cells by Facilitating Proteasome-mediated Degradation of DNMT1 Cancer Res. Yuan, B., Zhang, J., Wang, H., Xiong, L., Cai, Q., Wang, T., Jacobsen, S., Pradhan, S. andd Wang, Y.
2011 A Radically Different Mechanism for S-Adenosylmethionine-Dependent Methyltransferases. Science Express Grove, T.L., Benner, J.S., Radle, M.I., Ahlum, J.H., Landgraf, B.J., Krebs, C.and Booker, S.J.
2011 A reporter system for assaying influenza virus RNP functionality based on secreted Gaussia luciferase activity Virology J. Zhu, W. et al.
2011 A set of aspartyl protease-deficient strains for improved expression of heterologous proteins in Kluyveromyces lactis FEMS Yeast Res. Ganatra, M.B., Rainauskas, S., Hong, J.M., Taylor, T.E., Denson, J.P.M., Esposito, D., Read, J.D., Schmeisser, H., Zoon, K.C., Hartley, J.L. and Taron, C.H.
2011 A peptide to dimerized translationally controlled tumor protein modulates allergic reactions J. Mol. Med. Kim, M.
2011 A phage-targeting startegy for the design of spatiotemporal drug delivery from grafted matrices Fibrogenesis Tissue Repair Sawada, R. et al.
2011 A piggyBac transposon-based mutagenesis system for the fission yeast Schizosaccharomyces pombe  Nuc. Acids Res. Li, J., Zhang, J.-M., Li, X. et al
2011 Characterization of Type II and III restriction modification systems from Bacillus cereus strains J. Bacteriol. Xu, S.Y., Nugent, R.L., Kasamkattil, J., Fomenkov, A., Gupta, Y., Aggarwal, A., Wang, X., Li, Z., Zheng, Y. and Morgan, R.
2011 Efficient in vivo selection of a novel tumor-associated peptide from a phage display Molecules Veleva, A.N. et al.
2011 Engineering a waste management enzyme to overcome cancer resistance to apoptosis: adding DNase1 to the anti-cancer toolbox Cancer Gene Ther. Rosner, K., Kasprzak, M.F., Horenstein, A.C., Thurston, H.L., Abrams, J., Kerwin, L.Y., Mehregan, D.A. and Mehregan, D.R.
2011 Engineering BL21(DE3) derivative strains to minimize Escherichia coli protein contamination after IMAC purification. Appl. Environ. Microbiol. Robichon, C., Luo, J., Causey, T.B., Benner, J.S. and Samuelson, J.C.
2011 Disruption of PMR1 in Kluyveromyces lactis improves secretion of calf prochymosin J. Sci. Food Agric. Feng, Z., et al.
2011 Docking-dependent ubiquitination of the interferon regulatory factor-1 tumor suppressor protein by the ubiquitin ligase CHIP J. Biol. Chem. Narayan, V., Pion, E., Landré, V., Müller, P. and Ball, K.L.
2011 Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation Nature Ficz, G., et al.
2011 Expanding the genetic code of Escherichia coli with Phosphoserine Science Park, H.S., Hohn, M.J., Umehara, T., Guo. L.T., Osborne, E.M., Benner, J., Noren, C.J., Rinehart, J. and Soll, D.
2011 Expression of heparin sulfate sulfotransferases in Kluyveromyces lactisand preparation of PAPS Glycobiology Advance Access Zhou, X., et al.
2011 Expression of recombinant cytochromes c in E.coli. Methods Mol.Biol. Londer, Y.Y.
2011 Engineering BL21(DE3) derivative strains to minimize Escherichia coli protein contamination after IMAC purification. Appl.Environ.Microbiol. Robichon, C., Luo, J., Causey, T.B., Benner, J.S.and Samuelson, J.C.
2011 Exonucleases Curr.Protoc.Mol.Biol. McReynolds, L.A.and Nichols, N.M.
2011 Expanding the definition of class 3 inteins and their proposed phage origin. J.Bacteriol. Tori, K.and Perler, F.B.
2011 Development of SNAP-Tag Fluorogenic Probes for Wash-Free Fluorescence Imaging. Chembiochem. Sun, X., Zhang, A., Baker, B., Sun, L., Howard, A., Buswell, J., Maurel, D., Masharina, A., Johnsson, K., Noren, C.J., Xu, M-Q and Corrêa, I.R., Jr.
2011 COMBREX – COMputational BRidges to EXperiments. Biochem.Soc.Trans. Roberts, R.J.
2011 COMBREX: a project to accelerate the functional annotation of prokaryotic genomes Nucleic Acids Res. Roberts, R.J., Chang, Y.C., Hu, Z., Rachlin, J.N., Anton, B.P., Pokrzywa, R.M., Choi, H.P., Faller, L.L., Guleria, J., Housman, G., Klitgord, N., Mazumdar, V., McGettrick, M.G., Osmani, L., Swaminathan, R., Tao, K.R., Letovsky, S., Vitkup, D., Segre, D., Salzberg, S.L., Delisi, C., Steffen, M. and Kasif, S.,
2011 Comparative characterization of the PvuRts1I family and application in mapping genomic 5-hydroxymethylcytosine. Nucl.Acids Res. Wang, H., Guan, S., Quimby, A., Cohen-Karni, D., Pradhan, S., Wilson, G.G., Roberts, R.J., Zhu, Z.and Zheng, Y.
2011 Chemical Modification of Proteins in Living Cells Methods in Protein Chemistry Hanek, A.; Corrêa, I. R., Jr.
2011 Chitosan but not chitin activates the inflammasome by a mechanism dependent upon phagocytosis. J Biol Chem. Bueter, C.L., Lee, C.K., Rathinam, V.A., Healy, G.J., Taron, C.H., Specht, C.A.and Levitz, S.M.
2011 Cleavage of a model DNA replication fork by a methyl-specific endonuclease. Nucl.Acids.Res. Ishikawa, K., Handa, N.Sears, L., Raleigh, E.A.and Kobayashi, I.
2011 Cyclophosphamide perturbs cytosine methylation in jurkat-T Cells through LSD1-mediated stabilization of DNMT1 Protein Chem. Res. Toxicol. Zhang, J. et al.
2011 Cyclophosphamide Perturbs Cytosine Methylation in Jurkat-T Cells through LSD1-Mediated Stabilization of DNMT1 Protein. Chem.Res.Toxicol. Zhang, J., Yuan, B., Zhang, F., Xiong, L., Pradhan, S.and Wang, Y.
2011 Decoding a Substantial Set of Samples in Parallel by Massive Sequencing PLoS ONE  Neiman, M., Lundin, S., Savolainen, P., Ahmadian, A.
2011 Comparative characterization of the PvuRts1I family of restriction enzymes and their application in mapping genomic 5-hydroxymethylcytosine Nucleic Acids Res Wang H, Guan S, Quimby A, Cohen-Karni D, Pradhan S, Wilson G, Roberts RJ, Zhu Z, Zheng Y
2011 Comparitive characterization of the PvuRts11 family and application in mapping genomic 5-hydroxymethylcytosine Nucl. Acids Res.