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1
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0035860499
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Global analysis of protein activities using proteome chips
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This paper reports the first use of protein microarrays for biological discovery purposes. The authors developed a protein microarray containing the majority of the yeast proteome spotted onto slides. These slides were then used to identify known and new calmodulin binders. In addition, lipid binding specificity was profiled using phosphoinoside-doped liposomes.
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Zhu H., Bilgin M., Bangham R., Hall D., Casamayor A., Bertone P., Lan N., Jansen R., Bidlingmaier S., Houfek T. et al. Global analysis of protein activities using proteome chips. Science. 293:2001;2101-2105 This paper reports the first use of protein microarrays for biological discovery purposes. The authors developed a protein microarray containing the majority of the yeast proteome spotted onto slides. These slides were then used to identify known and new calmodulin binders. In addition, lipid binding specificity was profiled using phosphoinoside-doped liposomes.
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Science
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Zhu, H.1
Bilgin, M.2
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Bertone, P.6
Lan, N.7
Jansen, R.8
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3
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0042954271
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A human cDNA library for high-throughput protein expression screening
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Bussow K., Nordhoff E., Lubbert C., Lehrach H., Walter G. A human cDNA library for high-throughput protein expression screening. Genomics. 65:2000;1-8.
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Genomics
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Bussow, K.1
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A non-redundant human protein chip for antibody screening and serum profiling
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ePub ahead of print
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Lueking A, Possling A, Huber O, Beveridge A, Horn M, Eickhoff H, Schuchardt J, Lehrach H, Cahill DJ: A non-redundant human protein chip for antibody screening and serum profiling. Mol Cell Proteomics 2003, ePub ahead of print.
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Mol Cell Proteomics
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Lueking, A.1
Possling, A.2
Huber, O.3
Beveridge, A.4
Horn, M.5
Eickhoff, H.6
Schuchardt, J.7
Lehrach, H.8
Cahill, D.J.9
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5
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0037022657
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Proteome-scale purification of human proteins from bacteria
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Braun P., Hu Y., Shen B., Halleck A., Koundinya M., Harlow E., LaBaer J. Proteome-scale purification of human proteins from bacteria. Proc. Natl. Acad. Sci. USA. 99:2002;2654-2659.
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Proc. Natl. Acad. Sci. USA
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Braun, P.1
Hu, Y.2
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Labaer, J.7
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6
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0034536527
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From genes to proteins: High-throughput expression and purification of the human proteome
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Albala J.S., Franke K., McConnell I.R., Pak K.L., Folta P.A., Rubinfeld B., Davies A.H., Lennon G.G., Clark R. From genes to proteins: high-throughput expression and purification of the human proteome. J. Cell. Biochem. 80:2000;187-191.
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Albala, J.S.1
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McConnell, I.R.3
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Folta, P.A.5
Rubinfeld, B.6
Davies, A.H.7
Lennon, G.G.8
Clark, R.9
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8
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0036662167
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The FLEXGene repository: Exploiting the fruits of the genome projects by creating a needed resource to face the challenges of the post-genomic era
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Brizuela L., Richardson A., Marsischky G., Labaer J. The FLEXGene repository: exploiting the fruits of the genome projects by creating a needed resource to face the challenges of the post-genomic era. Arch Med. Res. 33:2002;318-324.
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Brizuela, L.1
Richardson, A.2
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Labaer, J.4
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0035665932
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FLEXGene repository: From sequenced genomes to gene repositories for high-throughput functional biology and proteomics
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Brizuela L., Braun P., LaBaer J. FLEXGene repository: from sequenced genomes to gene repositories for high-throughput functional biology and proteomics. Mol. Biochem. Parasitol. 118:2001;155-165.
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Brizuela, L.1
Braun, P.2
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0037168586
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Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences
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Strausberg R.L., Feingold E.A., Grouse L.H., Derge J.G., Klausner R.D., Collins F.S., Wagner L., Shenmen C.M., Schuler G.D., Altschul S.F. et al. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proc. Natl. Acad. Sci. USA. 99:2002;16899-16903.
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Proc. Natl. Acad. Sci. USA
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Strausberg, R.L.1
Feingold, E.A.2
Grouse, L.H.3
Derge, J.G.4
Klausner, R.D.5
Collins, F.S.6
Wagner, L.7
Shenmen, C.M.8
Schuler, G.D.9
Altschul, S.F.10
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11
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0038708337
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C. elegans ORFeome version 1.1: Experimental verification of the genome annotation and resource for proteome-scale protein expression
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This is the first peer-reviewed report describing the construction of a major protein expression resource for a higher eukaryote. Over 10 000 C. elegans open reading frames were cloned into a Gateway cloning system.
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Reboul J., Vaglio P., Rual J.F., Lamesch P., Martinez M., Armstrong C.M., Li S., Jacotot L., Bertin N., Janky R. et al. C. elegans ORFeome version 1.1: experimental verification of the genome annotation and resource for proteome-scale protein expression. Nat. Genet. 34:2003;35-41 This is the first peer-reviewed report describing the construction of a major protein expression resource for a higher eukaryote. Over 10 000 C. elegans open reading frames were cloned into a Gateway cloning system.
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Nat. Genet.
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Reboul, J.1
Vaglio, P.2
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Lamesch, P.4
Martinez, M.5
Armstrong, C.M.6
Li, S.7
Jacotot, L.8
Bertin, N.9
Janky, R.10
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12
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0033762813
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Structural genomics projects in Japan
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Yokoyama S., Hirota H., Kigawa T., Yabuki T., Shirouzu M., Terada T., Ito Y., Matsuo Y., Kuroda Y., Nishimura Y. et al. Structural genomics projects in Japan. Nat. Struct. Biol. 7:2000;943-945.
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Nat. Struct. Biol.
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Yokoyama, S.1
Hirota, H.2
Kigawa, T.3
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Shirouzu, M.5
Terada, T.6
Ito, Y.7
Matsuo, Y.8
Kuroda, Y.9
Nishimura, Y.10
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13
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0037316368
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Method for printing functional protein microarrays
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Delehanty J.B., Ligler F.S. Method for printing functional protein microarrays. BioTechniques. 34:2003;380-385.
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BioTechniques
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Delehanty, J.B.1
Ligler, F.S.2
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14
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0036752498
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Picoliter-scale protein microarrays by laser direct write
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Ringeisen B.R., Wu P.K., Kim H., Pique A., Auyeung R.Y., Young H.D., Chrisey D.B., Krizman D.B. Picoliter-scale protein microarrays by laser direct write. Biotechnol. Prog. 18:2002;1126-1129.
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Biotechnol. Prog.
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Ringeisen, B.R.1
Wu, P.K.2
Kim, H.3
Pique, A.4
Auyeung, R.Y.5
Young, H.D.6
Chrisey, D.B.7
Krizman, D.B.8
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15
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0142092525
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Microfabricated fountain pens for high-density DNA arrays
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Reese M.O., Van Dam R.M., Scherer A., Quake S.R. Microfabricated fountain pens for high-density DNA arrays. Genome Res. 13:2003;2348-2352.
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Genome Res.
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Reese, M.O.1
Van Dam, R.M.2
Scherer, A.3
Quake, S.R.4
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0037007834
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Fabricating microarrays of functional proteins using affinity contact printing
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Renault J.P., Bernard A., Juncker D., Michel B., Bosshard H.R., Delamarche E. Fabricating microarrays of functional proteins using affinity contact printing. Angew. Chem. Int. Ed. Engl. 41:2002;2320-2323.
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Renault, J.P.1
Bernard, A.2
Juncker, D.3
Michel, B.4
Bosshard, H.R.5
Delamarche, E.6
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17
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0043192619
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Preparing protein microarrays by soft-landing of mass-selected ions
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This report describes the success of electrospray ionization followed by sequential mass separation and surface deposition to manufacture protein microarrays. Retention of biological activity was demonstrated for lysozyme, trypsin, a protein kinase A catalytic subunit and hexokinase.
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Ouyang Z., Takats Z., Blake T.A., Gologan B., Guymon A.J., Wiseman J.M., Oliver J.C., Davisson V.J., Cooks R.G. Preparing protein microarrays by soft-landing of mass-selected ions. Science. 301:2003;1351-1354 This report describes the success of electrospray ionization followed by sequential mass separation and surface deposition to manufacture protein microarrays. Retention of biological activity was demonstrated for lysozyme, trypsin, a protein kinase A catalytic subunit and hexokinase.
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Science
, vol.301
, pp. 1351-1354
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Ouyang, Z.1
Takats, Z.2
Blake, T.A.3
Gologan, B.4
Guymon, A.J.5
Wiseman, J.M.6
Oliver, J.C.7
Davisson, V.J.8
Cooks, R.G.9
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18
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0037205866
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Intein-mediated biotinylation of proteins and its application in a protein microarray
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This paper describes the first use of inteins to site-specifically introduce biotins into recombinant proteins. These proteins were then immobilized in an oriented fashion onto an avidin slide. Retention of protein fold on the array was demonstrated through binding of Cy3-glutathione to immobilized GST.
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Lesaicherre M.L., Lue R.Y., Chen G.Y., Zhu Q., Yao S.Q. Intein-mediated biotinylation of proteins and its application in a protein microarray. J. Am. Chem. Soc. 124:2002;8768-8769 This paper describes the first use of inteins to site-specifically introduce biotins into recombinant proteins. These proteins were then immobilized in an oriented fashion onto an avidin slide. Retention of protein fold on the array was demonstrated through binding of Cy3-glutathione to immobilized GST.
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J. Am. Chem. Soc.
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Lesaicherre, M.L.1
Lue, R.Y.2
Chen, G.Y.3
Zhu, Q.4
Yao, S.Q.5
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19
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0037439369
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Optimizing antibody immobilization strategies for the construction of protein microarrays
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Peluso P., Wilson D.S., Do D., Tran H., Venkatasubbaiah M., Quincy D., Heidecker B., Poindexter K., Tolani N., Phelan M. et al. Optimizing antibody immobilization strategies for the construction of protein microarrays. Anal. Biochem. 312:2003;113-124.
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Anal. Biochem.
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Peluso, P.1
Wilson, D.S.2
Do, D.3
Tran, H.4
Venkatasubbaiah, M.5
Quincy, D.6
Heidecker, B.7
Poindexter, K.8
Tolani, N.9
Phelan, M.10
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20
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0036629196
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Protein microarrays to detect protein-protein interactions using red and green fluorescent proteins
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Kukar T., Eckenrode S., Gu Y., Lian W., Megginson M., She J.X., Wu D. Protein microarrays to detect protein-protein interactions using red and green fluorescent proteins. Anal. Biochem. 306:2002;50-54.
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Anal. Biochem.
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Kukar, T.1
Eckenrode, S.2
Gu, Y.3
Lian, W.4
Megginson, M.5
She, J.X.6
Wu, D.7
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21
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Toward optimized antibody microarrays: A comparison of current microarray support materials
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Angenendt P., Glokler J., Murphy D., Lehrach H., Cahill D.J. Toward optimized antibody microarrays: a comparison of current microarray support materials. Anal. Biochem. 309:2002;253-260.
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Anal. Biochem.
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Angenendt, P.1
Glokler, J.2
Murphy, D.3
Lehrach, H.4
Cahill, D.J.5
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22
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0034651571
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Protein microchips: Use for immunoassay and enzymatic reactions
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Arenkov P., Kukhtin A., Gemmell A., Voloshchuk S., Chupeeva V., Mirzabekov A. Protein microchips: use for immunoassay and enzymatic reactions. Anal. Biochem. 278:2000;123-131.
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Anal. Biochem.
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Arenkov, P.1
Kukhtin, A.2
Gemmell, A.3
Voloshchuk, S.4
Chupeeva, V.5
Mirzabekov, A.6
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23
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0034622925
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Printing proteins as microarrays for high-throughput function determination
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MacBeath G., Schreiber S.L. Printing proteins as microarrays for high-throughput function determination. Science. 289:2000;1760-1763.
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Science
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MacBeath, G.1
Schreiber, S.L.2
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24
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0036846034
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A protein-domain microarray identifies novel protein-protein interactions
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The authors have used a protein-domain microarray to identify protein interactions using cellular extracts followed by antibody detection of proteins of interest. Using this approach, they are able to identify both expected and novel interactions. Labeled peptides were also used to probe the arrays and post-translational type modifications were observed to change the binding profiles.
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Espejo A., Cote J., Bednarek A., Richard S., Bedford M.T. A protein-domain microarray identifies novel protein-protein interactions. Biochem. J. 367:2002;697-702 The authors have used a protein-domain microarray to identify protein interactions using cellular extracts followed by antibody detection of proteins of interest. Using this approach, they are able to identify both expected and novel interactions. Labeled peptides were also used to probe the arrays and post-translational type modifications were observed to change the binding profiles.
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Biochem. J.
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Espejo, A.1
Cote, J.2
Bednarek, A.3
Richard, S.4
Bedford, M.T.5
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25
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0037595546
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Comprehensive identification of human bZIP interactions with coiled-coil arrays
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In a very eloquent series of experiments, the authors used protein microarrays to comprehensively characterize human coiled-coil interactions. This approach should be feasible with a wide variety of other interaction domains.
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Newman J.R., Keating A.E. Comprehensive identification of human bZIP interactions with coiled-coil arrays. Science. 300:2003;2097-2101 In a very eloquent series of experiments, the authors used protein microarrays to comprehensively characterize human coiled-coil interactions. This approach should be feasible with a wide variety of other interaction domains.
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(2003)
Science
, vol.300
, pp. 2097-2101
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Newman, J.R.1
Keating, A.E.2
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26
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18344385481
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Autoantigen microarrays for multiplex characterization of autoantibody responses
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This is the first proof-of-concept example of the use of autoantigen microarrays for profiling serum antibodies. The arrays were probed with both normal and autoimmune sera, and the expected autoimmune response was identified. Use of anti-immunoglobulin G subclass antibodies enable characterization of the response on the subclass level.
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Robinson W.H., DiGennaro C., Hueber W., Haab B.B., Kamachi M., Dean E.J., Fournel S., Fong D., Genovese M.C., de Vegvar H.E. et al. Autoantigen microarrays for multiplex characterization of autoantibody responses. Nat. Med. 8:2002;295-301 This is the first proof-of-concept example of the use of autoantigen microarrays for profiling serum antibodies. The arrays were probed with both normal and autoimmune sera, and the expected autoimmune response was identified. Use of anti-immunoglobulin G subclass antibodies enable characterization of the response on the subclass level.
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(2002)
Nat. Med.
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Robinson, W.H.1
Digennaro, C.2
Hueber, W.3
Haab, B.B.4
Kamachi, M.5
Dean, E.J.6
Fournel, S.7
Fong, D.8
Genovese, M.C.9
De Vegvar, H.E.10
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27
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0141565124
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Microarray profiling of antibody responses against simian-human immunodeficiency virus: Postchallenge convergence of reactivities independent of host histocompatibility type and vaccine regimen
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This paper describes the use of autoantigen microarrays to profile macaque immune response to vaccination. The arrays were able to distinguish challenged from vaccinated animals and were predictive of survival. The arrays were also used to monitor epitope diversity and divergence.
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Neuman de Vegvar H.E., Amara R.R., Steinman L., Utz P.J., Robinson H.L., Robinson W.H. Microarray profiling of antibody responses against simian-human immunodeficiency virus: postchallenge convergence of reactivities independent of host histocompatibility type and vaccine regimen. J. Virol. 77:2003;11125-11138 This paper describes the use of autoantigen microarrays to profile macaque immune response to vaccination. The arrays were able to distinguish challenged from vaccinated animals and were predictive of survival. The arrays were also used to monitor epitope diversity and divergence.
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J. Virol.
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Neuman De Vegvar, H.E.1
Amara, R.R.2
Steinman, L.3
Utz, P.J.4
Robinson, H.L.5
Robinson, W.H.6
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28
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10744231057
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Protein microarrays guide tolerizing DNA vaccine treatment of autoimmune encephalomyelitis
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Robinson W.H., Fontoura P., Lee B.J., de Vegvar H.E., Tom J., Pedotti R., DiGennaro C.D., Mitchell D.J., Fong D., Ho P.P. et al. Protein microarrays guide tolerizing DNA vaccine treatment of autoimmune encephalomyelitis. Nat. Biotechnol. 21:2003;1033-1039.
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Nat. Biotechnol.
, vol.21
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Robinson, W.H.1
Fontoura, P.2
Lee, B.J.3
De Vegvar, H.E.4
Tom, J.5
Pedotti, R.6
Digennaro, C.D.7
Mitchell, D.J.8
Fong, D.9
Ho, P.P.10
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29
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0036749243
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Application of self-assembly techniques in the design of biocompatible protein microarray surfaces
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Schaeferling M., Schiller S., Paul H., Kruschina M., Pavlickova P., Meerkamp M., Giammasi C., Kambhampati D. Application of self-assembly techniques in the design of biocompatible protein microarray surfaces. Electrophoresis. 23:2002;3097-3105.
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Electrophoresis
, vol.23
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Schaeferling, M.1
Schiller, S.2
Paul, H.3
Kruschina, M.4
Pavlickova, P.5
Meerkamp, M.6
Giammasi, C.7
Kambhampati, D.8
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30
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0037069325
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S-layer-streptavidin fusion proteins as template for nanopatterned molecular arrays
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Moll D., Huber C., Schlegel B., Pum D., Sleytr U.B., Sara M. S-layer-streptavidin fusion proteins as template for nanopatterned molecular arrays. Proc. Natl. Acad. Sci. USA. 99:2002;14646-14651.
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Proc. Natl. Acad. Sci. USA
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Moll, D.1
Huber, C.2
Schlegel, B.3
Pum, D.4
Sleytr, U.B.5
Sara, M.6
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0037020278
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G-protein-coupled receptor microarrays
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Fang Y., Frutos A.G., Lahiri J. G-protein-coupled receptor microarrays. ChemBioChem. 3:2002;987-991.
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ChemBioChem
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Fang, Y.1
Frutos, A.G.2
Lahiri, J.3
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0041430941
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G protein-coupled receptor microarrays for drug discovery
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Fang Y., Lahiri J., Picard L. G protein-coupled receptor microarrays for drug discovery. Drug Discov. Today. 8:2003;755-761.
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Drug Discov. Today
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Fang, Y.1
Lahiri, J.2
Picard, L.3
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34
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0037414314
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Arrays of mobile tethered vesicles on supported lipid bilayers
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Yoshina-Ishii C., Boxer S.G. Arrays of mobile tethered vesicles on supported lipid bilayers. J. Am. Chem. Soc. 125:2003;3696-3697.
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Yoshina-Ishii, C.1
Boxer, S.G.2
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35
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0036009139
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Micropattern formation in supported lipid membranes
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Groves J.T., Boxer S.G. Micropattern formation in supported lipid membranes. Acc. Chem. Res. 35:2002;149-157.
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Acc. Chem. Res.
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Groves, J.T.1
Boxer, S.G.2
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36
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Substrate-supported lipid nanotube arrays
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Smirnov A.I., Poluektov O.G. Substrate-supported lipid nanotube arrays. J. Am. Chem. Soc. 125:2003;8434-8435.
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J. Am. Chem. Soc.
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Smirnov, A.I.1
Poluektov, O.G.2
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0242432396
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Developing a strategy for activity-based detection of enzymes in a protein microarray
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Chen G.Y., Uttamchandani M., Zhu Q., Wang G., Yao S.Q. Developing a strategy for activity-based detection of enzymes in a protein microarray. ChemBioChem. 4:2003;336-339.
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(2003)
ChemBioChem
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Chen, G.Y.1
Uttamchandani, M.2
Zhu, Q.3
Wang, G.4
Yao, S.Q.5
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38
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0141453547
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Generation of Arabidopsis protein chips for antibody and serum screening
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Kersten B., Feilner T., Kramer A., Wehrmeyer S., Possling A., Witt I., Zanor M.I., Stracke R., Lueking A., Kreutzberger J. et al. Generation of Arabidopsis protein chips for antibody and serum screening. Plant Mol. Biol. 52:2003;999-1010.
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Plant Mol. Biol.
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Kersten, B.1
Feilner, T.2
Kramer, A.3
Wehrmeyer, S.4
Possling, A.5
Witt, I.6
Zanor, M.I.7
Stracke, R.8
Lueking, A.9
Kreutzberger, J.10
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39
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0037017746
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Direct detection of isotopically labeled metabolites bound to a protein microarray using a charge-coupled device
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Morozov V.N., Gavryushkin A.V., Deev A.A. Direct detection of isotopically labeled metabolites bound to a protein microarray using a charge-coupled device. J. Biochem. Biophys. Methods. 51:2002;57-67.
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J. Biochem. Biophys. Methods
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Morozov, V.N.1
Gavryushkin, A.V.2
Deev, A.A.3
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40
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0041663988
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In vitro protein microarrays for detecting protein-protein interactions: Application of a new method for fluorescence labeling of proteins
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Kawahashi Y., Doi N., Takashima H., Tsuda C., Oishi Y., Oyama R., Yonezawa M., Miyamoto-Sato E., Yanagawa H. In vitro protein microarrays for detecting protein-protein interactions: application of a new method for fluorescence labeling of proteins. Proteomics. 3:2003;1236-1243.
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(2003)
Proteomics
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Kawahashi, Y.1
Doi, N.2
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