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Publications

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)
2013 Three-color single molecule imaging shows WASP detachment from Arp2/3 complex triggers actin filament branch formation eLife Benjamin A Smith, Shae B Padrick, Lynda K Doolittle, Karen Daugherty-Clarke, Ivan R Corrêa Jr, Ming-Qun Xu, Bruce L Goode3, Michael K Rosen, Jeff Gelles
2015 Overview of Target Enrichment Strategies. current Protocols in Molecular Biology Kozarewa, I., Armisen, J., Gardner, A.F., Slatko, B.E. and Hendrickson, C.L.
2016 Detecting DNA Methylation using the Oxford Nanopore Technologies MinION sequencer bioRxiv Simpson, J.T. et al.
2015 Two new phragmotic ant species from Africa: morphology and next-generation sequencing solve a caste association problem in the genus Carebara Westwood. Zookeys. Fischer G, Azorsa F, Garcia FH, Mikheyev AS, Economo EP.
2010 Codon optimization of the calf prochymosin gene and its expression in Kluyveromyces lactis World J. Microbiol. Biotechnol. Feng, Z., et al.
2007 It Takes Two: Lessons From the First Nematode Wolbachia Genome Sequence. Wolbachia, A Bug's Life Pfarr, K., Foster, J.and Slatko, B.
2001 Restriction endonucleases. In: Molecular biology problem solver Wiley-Liss, Inc. Robinson, D., Walsh, P.R., Bonventre, J.A.
2009 Fluorescence in living systems: applications in chemical biology Wiley Encyc. of Chem. Biol. Cornish, V. W.
2010 Peptides from phage display library modulate gene expression in mesenchymal cells and potentiate osteogenesis in unicortical bone defects Vis. Exp. Balian, G. et al. Phage Display
2014 Generation of West Nile virus infectious clones containing amino acid insertions between capsid and capsid anchor Viruses Vandergaast R, Hoover LI, Zheng K, Fredericksen BL Gibson Assembly®
2011 A reporter system for assaying influenza virus RNP functionality based on secreted Gaussia luciferase activity Virology J. Zhu, W. et al.
2008 A cell-based luciferase assay amenable to high-throughput screening of inhibitors of arenavirus budding. Virology Capul, A.A. and de la Torre, J.C.
2008 A cell-based luciferase assay amenable to high-throughput screening of inhibitors of arenavirus budding Virology Capul, A.A. and de la Torre, J.C.
2006 The role of single N-glycans in proteolytic processing and cell surface transport of the Lassa virus glycoprotein.GP-C. Virol. J. Eichler, R., Lenz, O., Garten, W., Strecker, T.
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.
1990 Antigenic and dynamic properties of the surface of Onchocerca microfilariae. Trop.Med.Parasitol. Edwards, M.K., Busto, P., James, E.R., Carlow, C.K.S., and Philipp, M.
1998 Novel, sensitive and low-cost diagnostic tests for "river blindness" - detection of specific antigens in tears, urine and dermal fluid. Trop.Med.Inter.Health Ngu, J.L., Knenfou, C., Capuli, E., McMoli, T.E., Perler, F., Mbwagbor, J., Tumme, C., Nlatte, O.B., Donfack, J.and Asonganyi, T.
2001 Nuclear receptors in nematodes: themes and variations. Trends in Genetics Sluder, A.E.and Maina, C.V.
1988 Type II restriction-modification systems. Trends in Genetics Wilson, G.G.
2004 First sequenced genome of a parasitic nematode. Trends Parasitol. Ghedin, E., Wang, S., Foster, J.and Slatko, B.
2005 Mining nematode genome data for novel drug targets. Trends Parasitol. Foster, J.M., Zhang, Y., Kumar, S.and Carlow, C.K.S.
2015 Expanding the MDx toolbox for filarial diagnosis and surveillance Trends Parasitol. Alhassan, A., Li, Z., Poole, C.B. and Carlow, C.K.S.
2002 Helminth genomics: from gene discovery to genome sequencing. Trends Parasitol Foster, J.M.and Johnston, D.A.
2010 Lighting up multiprotein complexes: lessons from GPCR oligomerization Trends Biotechnol Ciruela F. et al.
1984 Acetylcholinesterase secreted by intestinal nematodes: a reinterpretation of its putative role of "biochemical holdfast." Trans.Royal Soc Trop.Med.and Hyg. Philipp, M.
2014 Stable cell surface expression of GPI-anchored proteins, but not intracellular transport, depends on their fatty acid structure Traffic Janesh, N. Correa, I.R., Jr. and Watanabe, R.
2009 Development of a dual luciferase TrAC Trends in Analytical Chemistry Roda, A., Guardigli, M., Michelini, E. and Mirasoli, M.
2009 Bioluminescence in analytical chemistry and in vivo imaging TrAC Trends in Analytical Chemistry Roda, A., Guardigli, M., Michelini, E., Mirasoli, M.
2015 Rescue of cells from apoptosis increases DNA repair in UVB exposed cells: implications for the DNA damage response Toxicol. Res. Karbaschi, Mahsa., Macip, Salvador., Mistry, Vilas., Abbas, Hussein H.K., Delinassios, George J., Evans, Mark D., Young, Antony R., Cooke, Marcus S.
2015 Developmental exposure to 2,3,7,8-tetrachlorodibenzo-p-dioxin alters DNA methyltransferase (dnmt) expression in zebrafish (Danio rerio) Toxicol Appl Pharmacol Aluru N, Kuo E, Helfrich LW, Karchner SI, Linney EA, Pais JE, Franks DG
2015 Bovine embryo sex determination by multiplex loop-mediated isothermal amplification. Theriogenology Trisadee Khamlor, Petai Pongpiachan, Rangsun Parnpai, Kanchana Punyawai, Siwat Sangsritavong, Nipa Chokesajjawatee Isothermal Amplification
2009 "Translational Recoding" The Wiley Encyclopedia of Chemical Biology, Tadhg P.Begley, Ed Osborne, E.M.and Noren, C.J.
2013 The First Identification and Retrospective Study of Severe Fever With Thrombocytopenia Syndrome in Japan The Journal of Infectious Diseases Toru Takahashi, Ken Maeda, Tadaki Suzuki, Aki Ishido, Toru Shigeoka, Takayuki Tominaga, Toshiaki Kamei, Masahiro Honda, Daisuke Ninomiya, Takenori Sakai, Takanori Senba, Shozo Kaneyuki, Shota Sakaguchi, Akira Satoh, Takanori Hosokawa, Yojiro Kawabe, Shintaro Kurihara, Koichi Izumikawa, Shigeru Kohno, Taichi Azuma, Koichiro Suemori, Masaki Yasukawa, Tetsuya Mizutani, Tsutomu Omatsu, Yukie Katayama, Masaharu Miyahara, Masahito Ijuin, Kazuko Doi, Masaru Okuda, Kazunori Umeki, Tomoya Saito, Kazuko Fukushima, Kensuke Nakajima, Tomoki Yoshikawa, Hideki Tani, Shuetsu Fukushi, Aiko Fukuma, Momoko Ogata, Masayuki Shimojima, Noriko Nakajima, Noriyo Nagata, Harutaka Katano, Hitomi Fukumoto, Yuko Sato, Hideki Hasegawa, Takuya Yamagishi, Kazunori Oishi, Ichiro Kurane, Shigeru Morikawa, Masayuki Saijo
1999 "Protein Splicing" The Encyclopedia of Molecular Biology Perler, F.B., Xu, M.and Noren, C.J.
2006 Protein splicing in cis and in trans. The Chemical Record Saleh, L.and Perler, F.B.
2006 Synthesis and evaluation of the bioluminescent activity of (S)-Cypridina luciferin and its analogs Tetrahedron Letters Wu, C., Kawasaki, K., Ohgiya, S., Ohmiya, Y.
2006 Syntheses and evaluation of the bioluminescent activity of (S)-Cypridina luciferin and its analogs Tetrahedron Letters Wu, C., Kawasaki, K., Ohgiya.S. and Ohmiya, Y.
1997 Discovery and Uses of Novel Glycosidases Techniques in Glycobiology Wong-Madden, S.T., Landry, D., and Guthrie, E.P. Glycobiology
1998 Discovery and Uses of Novel Glycosidases Techniques in Glycobiology Wong-Madden, S.T., Landry, D., and Guthrie, E.P.
1999 A natural example of protein trans-splicing. TIBS Perler, F.B.
2010 The Wolbachia endosymbiont as an anti-filarial nematode target. Symbiosis Slatko, B.E., Taylor, M.J.& Foster, J.M.
2012 Targeted genome enrichment for efficient purification of endosymbiont DNA from host DNA Symbiosis Geniez, S., Foster, J.M., Kumar, S., Moumen, B., Leproust, E., Hardy, O., Guadalupe, M., Thomas, S.J., Boone, B., Hendrickson, C., Bouchon, D., Greve, P and Slatko, B.E.
2008 The symbiotic relationship between filarial parasitic nematodes and their wolbachia endosymbionts - a resource for a new generation of control measures. Symbiosis Ghedin, E., Daehnel, K., Foster, J., Slatko, B.and Lustigman S.
2016 Characterization of innate immunity genes in the parasitic nematode Brugia malayi Symbiosis Libro, S., Slatko, B.E. and Foster, J.M.
2010 Unusual target site disruption by the rare-cutting HNH restriction endonuclease PacI Structure Shen, B.W., Heiter, D.F., Chan, S.H., Wang, H., Xu, S.Y., Morgan, R.D., Wilson, G.G. and Stoddard, B.L.
2008 Structures of the rare-cutting restriction endonuclease NotI reveal a unique metal binding fold involved in DNA binding. Structure Lambert, A.R., Sussman, D., Shen, b., Maunus, R., Nix, J., Samuelson, J., Xu, S.Y.and Stoddard, B.L.
2001 Restriction enzyme BsoBI-DNA complex: a tunnel for recognition of degenerate DNA sequences and potential histidine catalysis. Structure van der Woerd, M.J., Pelletier, J.J., Xu, S.and Friedman, A.M.
2002 Structure of a tRNA Repair Enzyme and Molecular Biology Workhorse: T4 Polynucleotide Kinase. Structure Galburt, E.A., Pelletier, J., Wilson, G.and Stoddard, B.L.
2003 A Dual Role for an Aspartic Acid in Glycosylasparaginase Autoproteolysis. Structure Qian, X., Guan, C.and Guo, H.-C.
2004 An asymmetric complex of restriction endonuclease MspI on its palindromic DNA recognition site. Structure Xu, Q.S., Kucera, R.B., Roberts, R.J.and Guo, H.-C.
2005 Implications for Switching Restriction Enzyme Specificities from the Structure of BstYI Bound to a BglII DNA Sequence Structure Townson, S.A., Samuelson, J.C., Xu, S.Y.and Aggarwal, A.K.
2005 Crystal structure of the restriction-modification system control element C.BclI and mapping of its binding site. Structure Sawaya, M.R., Zhu, Z., Fana, M., Chan, S.H., Dabur, R., Xu, S.Y.and Balendiran, G.K.
1995 Crystal structure of endo-beta-N-acetylglucosaminidase H at 1.9 A resolution: active-site geometry and substrate recognition. Structure Rao, V., Guan, C., and Van Roey, P.
1994 Structure of restriction endonuclease BamHI phased at 1.95 A resolution by MAD analysis. Structure Newman, M., Strzelecka, T., Dorner, L.F., Schildkraut, I., and Aggarwal, A.K.
2007 Selecting targeting of adenoviral vectors to neural precursor cells in the hippocampus of adult mice: new prospects for in situ gene therapy Stem Cells Schmidt, A. et al.
2016 High-efficiency generation of induced pluripotent mesenchymal stem cells from human dermal fibroblasts using recombinant proteins. Stem Cell Res Ther. Chen, F., Zhang, G., Yu, L., Feng, Y., Li, X., Zhang, Z., Wang, Y., Sun, D. and Pradhan, S.
2013 Prokaryotic super program advisory committee DOE Joint Genome Institute, Walnut Creek, CA, March 27, 2013 Stand Genomic Science Garrity, 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.
2010 Open source tool for prediction of genome wide protein-protein interaction network based on ortholog information. Source Code for Biology and Medicine Pedamallu, C.and Posfai, J.
2010 Gene synthesis of the bovine prochymosin gene and high-level expression in Kluyvermyces lactis Sheng Wu Gong Cheng Xue Bao Yuan W, et al.
2016 Epidemiological typing of Neisseria gonorrhoeae and detection of markers associated with antimicrobial resistance directly from urine samples using next generation sequencing Sex. Transm. Infect Graham, R.M.A. et al.
2013 Massively parallel characterization of restriction endonucleases Scopus Kamps-Hughes, N., Quimby, A., Zhu, Z., Johnson, E.A.
2002 Inteins in microbial genomes: distribution, mechanism and function. Scientific World Journal 2 Southworth, M.W.and Perler, F.B.
2017 Serotyping dengue virus with isothermal amplification and a portable sequencer Scientific Reports Yamagishi, J., et al.
2016 Advanced uracil DNA glycosylase-supplemented real-time reverse transcription loop-mediated isothermal amplification (UDG-rRT-LAMP) method for universal and specific detection of Tembusu virus Scientific Reports Tang Y, Chen H, Diao Y
2015 Restriction Cascade Exponential Amplification (RCEA) assay with an attomolar detection limit: a novel, highly specific, isothermal alternative to qPCR Scientific Reports
2015 Expression and purification of single-chain Type IV restriction enzyme Eco94GmrSD and determination of it substrate preference Scientific Reports He, X., Hull, V., Thomas, J.A., Fu, X., Gidwani, S., Gupta, Y.K., Black, L.W. and Xu, S-Y.
2014 Science for the suffering Scientific American World View Slatko, B.
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.
2010 Frequent mutations of chromatin remodeling gene ARID1A in ovarian clear cell carcinoma Science  Jones, S., Wang, T.-L., Shih, Ie-M., et al
2007 UHRF1 Plays a Role in Maintaining DNA Methylation in Mammalian Cells. Science Bostick, M., Kim, J.K., Esteve, P-O., Clark, A., Pradhan, S and Jacobsen, S.
2007 Widespread lateral gene transfer from intracellular bacteria to multicellular eukaryotes. Science Hotopp, J.C., Clark, M.E., Oliveira, D.C., Foster, J.M., Fischer, P., Torres, M.C., Giebel, J.D., Kumar, N., Ishmael, N., Wang, S., Ingram, J., Nene, R.V., Shepard, J., Tomkins, J., Richards, S., Spiro, D.J., Ghedin, E., Slatko, B., Tettelin, H.and Werren, J.H.
2007 Draft Genome of the Filarial Parasite Brugia malayi. Science Ghedin E, Wang S, Spiro D, Caler E, Zhao Q, Crabtree J, Allen JE, Delcher AL, Guiliano DB, Miranda-Saavedra D, Angiuoli SV, Creasy T, Amedeo P, Haas B, El-Sayed NM, Wortman JR, Feldblyum T, Tallon L, Schatz M, Shumway M, Koo H, Salzberg SL, Schobel S, Pertea M, Pop M, White O, Barton GJ, Carlow CK, Crawford MJ, Daub J, Dimmic MW, Estes CF, Foster JM, Ganatra M, Gregory WF, Johnson NM, Jin J, Komuniecki R, Korf I, Kumar S, Laney S, Li BW, Li W, Lindblom TH, Lustigman S, Ma D, Maina CV, Martin DM, McCarter JP, McReynolds L, Mitreva M, Nutman TB, Parkinson J, Peregrín-Alvarez JM, Poole C, Ren Q, Saunders L, Sluder AE, Smith K, Stanke M, Unnasch TR, Ware J, Wei AD, Weil G, Williams DJ, Zhang Y, Williams SA, Fraser-Liggett C, Slatko B, Blaxter ML, Scott AL.
2009 Comprehensive mapping of long range interactions reveals folding principles of the human genome Science Lieberman-Aiden E., van Berkum N., Williams L., Imakaev M., Ragoczy T., Telling A., Amit I., Lajoie B., Sabo P., Dorschner M., Sandstrom R., Bernstein B., BenderM. A., Groudine M., Gnirke A., Stamatoyannopoulos J., Mirny L., Lander E., Dekker J. Epigenetics
2017 DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification Science Chen, L., Liu, P., Evans, T.C., Jr., Ettwiller, L.M.
2001 The sequence of the human genome Science Venter, J.C., Roberts, R.J.et al.
2001 Information access.Building a "GenBank" of the published literature. Science Roberts, R.J., Varmus, H.D., Ashburner, M., Brown, P.O., Eisen, M.B., Khosla, C., Kirschner, M., Nusse, R., Scott, M.and Wold, B.
2002 Modulation of postendocytic sorting of G protein-coupled receptors Science Whistler, J.L., Enquist, J., Marley, A., Fong, J., Gladher, F., Tsuruda, P., Murray, S.R., Von Zastrow, M.
2003 Structure of Rab GDP-dissociation inhibitor in complex with prenylated YPT1 GTPase Science Rak, A., et al.
2013 The Xist lncRNA exploits three-dimensional genome architecture to spread across the X chromosome Science Engreitz JM, Pandya-Jones A, McDonel P, Shishkin A, Sirokman K, Surka C, Kadri S, Xing J, Goren A, Lander ES, Plath K, and Guttman M
2016 Reminder to deposit DNA sequences Science Blaxter, M., Danchin, A., Savakis, B., Fukami-Kobayashi, K., Kurokawa, K., Sugano, S., Roberts, R.J., Salzberg, S.L. and Wu, C.I.
2016 Phytochromes function as thermosensors in Arabidopsis. Science Jung, J-H. et al.
2011 Ordered and dynamic assembly of single spliceoseoms Science Hoskins, A. 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.
2014 Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types. Science Jaitin, DA., Kenigsberg, E., Keren-Shaul, H., Elefant, N., Paul, F., Zaretsky, I., Mildner, A., Cohen, N., Jung, S., Tanay, A. and Amit, I.
2014 Integration of growth and patterning during vascular tissue formation in Arabidopsis Science Bert De Rybel, Milad Adibi, Alice S. Breda, Jos R. Wendrich, Margot E. Smit, Ondej Novk, Nobutoshi Yamaguchi, Saiko Yoshida, Gert Van Isterdael, Joakim Palovaara, Bart Nijsse, Mark V. Boekschoten, Guido Hooiveld, Tom Beeckman, Doris Wagner, Karin Ljung, Christian Fleck, Dolf Weijers High-Fidelity PCR
1995 Structure of BamHI endonuclease bound to DNA: partial folding and unfolding on DNA binding. Science Newman, M., Strzelecka, T., Dorner, L.F., Schildkraut, I., and Aggarwal, A.K.
2015 Stem cells. Asymmetric apportioning of aged mitochondria between daughter cells is required for stemness Science P, Katajisto., Dohla, J., Chaffer, CL., Pentinmikko, N., Marjanovic, N., Igbal, S., Zoncu, R., Chen, W., Weinberg, RA., Sabatini, DM. SNAP Cell
1980 Restriction endonucleases from three strains of Haemophilus influenzae Sci. Sin. Shen, S.X., Li, Q.L., Yan, P,F., Zhou, B., Ye, S.Y., Lu, Y.Y., Wang, D.B.
2015 Label-free single-cell protein quantification using a drop-based mix-and-read system. Sci. Rep. Abbaspourrad A, Zhang H, Tao Y, Cui N, Asahara H, Zhou Y, Yue D, Koehler SA, Ung LW, Heyman J, Ren Y, Ziblat R, Chong S, Weitz DA.
2017 Targeted enrichment and sequencing of recent endosymbiont-host lateral gene transfers Sci Rep. Dunning Hotopp, J.C., Slatko, B.E., Foster, J.M.
2016 AnnoTALE: bioinformatics tools for identification, annotation, and nomenclature of TALEs from Xanthomonas genomic sequences. Sci Rep. Grau, J., Reschke, M., Erkes, A., Streubel, J., Morgan, R.D., Wilson, G.G., Koebnik, R. and Boch, J.
2016 The Microbiome of Aseptically Collected Human Breast Tissue in Benign and Malignant Disease Sci Rep. Hieken, T.J. et al.
2016 Metagenomic analysis of bloodstream infections in patients with acute leukemia and therapy induced neutropenia. Sci Rep. Gyarmati, P. et al.
2016 Genomic study of the Ket: a PaleoEskimo-related ethnic group with significant ancient North Eurasian ancestry. Sci Rep. Flegontov, P. et al.
2016 Comparison of intraspecific, interspecific and intergeneric chloroplast diversity in Cycads. Sci Rep. Jiang, G.F. et al.
2016 Profiling 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.
2015 Environmental marine pathogen isolation using mesocosm culture of sharpsnout seabream: striking genomic and morphological features of novel Endozoicomonas sp. Sci Rep. Katharios, P. et al.
2016 A mix-and-read drop-based in vitro two-hybrid method for screening high-affinity peptide binders. Sci Rep Cui, N., Zhang, H., Schneider, N., Tao, Y., Asahara, H., Sun, Z., Cai, Y., Koehler, S.A., de Greef, T.F., Abbaspourrad, A., Weitz, D.A. and Chong, S.
2016 Expression and purification of the modification-dependent restriction enzyme BisI and its homologous enzymes Sci Rep Xu, S.Y., Klein, P., Degtyarev, S.K.h. and Roberts, R.J.
2014 A robust TALENs system for highly efficient mammalian genome editing Sci Rep Feng Y, Zhang S, Huang X DNA Assembly and Cloning,Golden Gate Assembly