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Comparative study of two thioredoxin peroxidases from disk abalone (Haliotis discus discus): Cloning, recombinant protein purification, characterization of antioxidant activities and expression analysis.
Fish Shellfish Immunol. 2008 Mar;24(3):294-307
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PILRalpha is a herpes simplex virus-1 entry coreceptor that associates with glycoprotein B.
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Characterisation and expression analysis of the interleukin genes, IL-1beta, IL-8 and IL-10, in Atlantic cod (Gadus morhua L.).
Mol Immunol. 2008 Feb;45(4):887-97
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Blood. 2008 Feb 1;111(3):1690-9
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Photoactivation cell labeling for cell tracing in avian development.
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Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing.
Mol Ecol. 2008 Apr;17(7):1636-47
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A novel C-type lectin from abalone, Haliotis discus discus, agglutinates Vibrio alginolyticus.
Dev Comp Immunol. 2008 Mar 3;Epub ahead of print
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SSA/Ro52 autoantigen interacts with Dcp2 to enhance its decapping activity.
Biochem Biophys Res Commun. 2008 Mar 21;Epub ahead of print
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Quantitative telomeric overhang determination using a double-strand specific nuclease.
Nucleic Acids Res. 2008 Feb;36(3):e14
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A mitotic kinase TOPK enhances Cdk1/cyclin B1-dependent phosphorylation of PRC1 and promotes cytokinesis.
J Mol Biol. 2007 Jul 6;370(2):231-45
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Generation and analysis of expressed sequence tags from the ciliate protozoan parasite Ichthyophthirius multifiliis.
BMC Genomics. 2007 Jun 18;8:176
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Identification of two down-regulated genes in entomopathogenic nematode Heterorhabditis bacteriophora infective juveniles upon contact with insect hemolymph.
Mol Biochem Parasitol. 2007 Dec;156(2):162-6
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Nucleotide excision repair eliminates unique DNA-protein cross-links from mammalian cells.
J Biol Chem. 2007 Aug 3;282(31):22592-604
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Novel insights into the regulation of the bound and diffusible glucokinase in MIN6 beta-cells.
Diabetes. 2007 May;56(5):1305-15
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A comparative analysis of novel fluorescent proteins as reporters for gene transfer studies.
J Histochem Cytochem. 2007 Sep;55(9):931-9
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Overexpression of the S-phase kinase-associated protein 2 in thyroid cancer.
Endocr Relat Cancer. 2007 Jun;14(2):405-20
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Tracking intracellular protein movements using photoswitchable fluorescent proteins PS-CFP2 and Dendra2.
Nat Protoc. 2007;2(8):2024-32
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Using photoactivatable fluorescent protein Dendra2 to track protein movement.
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Surviving extreme polar winters by desiccation: clues from Arctic springtail (Onychiurus arcticus) EST libraries.
BMC Genomics. 2007 Dec 21;8:475
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Insect Mol Biol. 2007 Oct;16(5):573-80
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A cricket Gene Index: a genomic resource for studying neurobiology, speciation, and molecular evolution.
BMC Genomics. 2007 Apr 25;8:109
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Functional genomic studies of tick cells in response to infection with the cattle pathogen, Anaplasma marginale.
Genomics. 2007 Dec;90(6):712-22
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First report of invertebrate Mx: cloning, characterization and expression analysis of Mx cDNA in disk abalone (Haliotis discus discus).
Fish Shellfish Immunol. 2007 Jul;23(1):86-96
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Molecular cloning and expression analysis of interferon-gamma inducible lysosomal thiol reductase (GILT)-like cDNA from disk abalone (Haliotis discus discus).
J Invertebr Pathol. 2007 Nov;96(3):221-9
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Comprehensive EST analysis of Atlantic halibut (Hippoglossus hippoglossus), a commercially relevant aquaculture species.
BMC Genomics. 2007 Jun 4;8:144
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MELOGEN: an EST database for melon functional genomics.
BMC Genomics. 2007 Sep 3;8:306
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CD4+ T cell acquisition of the bystander pMHC I colocalizing in the same immunological synapse comprising pMHC II and costimulatory CD40, CD54, CD80, OX40L, and 41BBL
Biochem Biophys Res Commun. 2007 Nov 3;362(4):822-8
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Identifying Candidate Genes Associated with Cold Adaptation in Douglas-fir using DNA Microarrays.
Master of Science thesis (Oregon State University). 2007;P.118 - Hultman KA, Bahary N, Zon LI, Johnson SL.
Gene Duplication of the zebrafish kit ligand and partitioning of melanocyte development functions to kit ligand a.
PLoS Genet. 2007 Jan 26;3(1):e17
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Glutamine stimulates translation of uncoupling protein 2mRNA.
Cell Mol Life Sci. 2007 Jul;64(14):1853-60
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Corticosteroid inhibition of growth-related oncogene protein-alpha via mitogen-activated kinase phosphatase-1 in airway smooth muscle cells.
J Immunol. 2007 Jun 1;178(11):7366-75
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Analysis of de novo Golgi complex formation after enzyme-based inactivation.
Mol Biol Cell. 2007 Nov;18(11):4637-47
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Regulation of neurite growth by spontaneous Ca2+ oscillations in astrocytes.
J Neurosci. 2007 Aug 15;27(33):8957-66
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Small interfering RNA of cyclooxygenase-2 induces growth inhibition and apoptosis independently of Bcl-2 in human myeloma RPMI8226 cells.
Acta Pharmacol Sin. 2007 Jul;28(7):1031-6
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Selective suppression of polymerase chain reaction and its most popular applications.
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Suppression subtractive hybridization
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Bright monomeric red fluorescent protein with an extended fluorescence lifetime.
Nat Methods. 2007 Jul;4(7):555-7
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Cdk5 regulates differentiation of oligodendrocyte precursor cells through the direct phosphorylation of paxillin.
J Cell Sci. 2007 Dec 15;120(Pt 24):4355-66
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Fluorescent proteins and their use in marine biosciences, biotechnology, and proteomics.
Mar Biotechnol (NY). 2007 May-Jun;9(3):305-28
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Visualization of mitotic HeLa cells by advanced polarized light microscopy.
Micron. 2007 May 10;
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Yeast peroxisomes multiply by growth and division
J Cell Biol. 2007 Jul 30;178(3):399-410
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The fluorescent protein color palette.
Curr Protoc Cell Biol. 2007 Sep;Chapter 21:Unit 21.5
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Kamchatka crab duplex-specific nuclease mediated transcriptome subtraction method for identifying long cDNAs of differentially expressed genes
Anal Biochem. 2007 Aug 22;
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The exceptional stem cell system of Macrostomum lignano: Screening for gene expression and studying cell proliferation by hydroxyurea treatment and irradiation.
Front Zool. 2007 Mar 9;4:9
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Generation and analysis of ESTs from the eastern oyster, Crassostrea virginica Gmelin and identification of microsatellite and SNP markers.
BMC Genomics. 2007 Jun 8;8:157
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Genomic resources for Myzus persicae: EST sequencing, SNP identification, and microarray design.
BMC Genomics. 2007 Nov 16;8:423
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Efficient nucleofection of primary human B cells and B-CLL cells induces apoptosis, which depends on the microenvironment and on the structure of transfected nucleic acids.
Leukemia. 2007 Sep;21(9):1977-83
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Generation of normalized cDNA libraries.
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Bright far-red fluorescent protein for whole-body imaging.
Nat Methods. 2007 Sep;4(9):741-6
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Dual-color superresolution imaging of genetically expressed probes within individual adhesion complexes.
Proc Natl Acad Sci U S A. 2007 Dec 18;104(51):20308-13
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Keeping tabs on fluorescent tags.
Nat Methods. 2007;4(9):755-760 - Souslova EA, Belousov VV, Lock J, Stromblad S, Kasparov S, Bolshakov AP, Pinelis VG, Labas YA, Lukyanov S, Mayr LM, Chudakov DM.
Single fluorescent protein-based Ca2+ sensors with increased dynamic range.
BMC Biotechnol. 2007 Jun 29;7(1):37
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Genetically encoded intracellular sensors based on fluorescent proteins.
Biochemistry (Mosc). 2007 Jul;72(7):683-97
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Collembase: a repository for springtail genomics and soil quality assessment.
BMC Genomics. 2007 Sep 27;8:341
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Fluorescence diffuse tomography for detection of RFP-expressed tumors in small animals.
Proc SPIE. 2007 Feb 14;6449:644915 http://spiedl.aip.org/ - Vaupotic T, Plemenitas A.
Differential gene expression and Hog1 interaction with osmoresponsive genes in the extremely halotolerant black yeast Hortaea werneckii.
BMC Genomics. 2007 Aug 16;8:280
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Developmental biology of the Psammomys obesus pancreas: cloning and expression of the Neurogenin-3 gene.
J Histochem Cytochem. 2007 Jan;55(1):97-104
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An annotated cDNA library and microarray for large-scale gene-expression studies in the ant Solenopsis invicta.
Genome Biol. 2007;8(1):R9
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Redundant enhancement of mouse constitutive androstane receptor transactivation by p160 coactivator family members.
Arch Biochem Biophys. 2007 Dec 1;468(1):49-57
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Construction of cDNA library of cotton mutant (Xiangmian-18) library during gland forming stage.
Colloids Surf B Biointerfaces. 2007 Nov 15;60(2):258-263
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Gadd45a, the gene induced by the mood stabilizer valproic acid, regulates neurite outgrowth through JNK and the substrate paxillin in N1E-115 neuroblastoma cells.
Exp Cell Res. 2007 May 15;313(9):1886-96
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Expressed sequences tags of the anther smut fungus, Microbotryum violaceum, identify mating and pathogenicity genes.
BMC Genomics. 2007 Aug 10;8:272
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Nucleofection is a valuable transfection method for transient and stable transgene expression in adipose tissue-derived stem cells.
Stem Cells. 2007 Mar;25(3):790-7
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Method for real-time monitoring of protein degradation at the single cell level.
Biotechniques. 2007 Apr;42(4):446, 448, 450
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2006- Abe Y, Takeuchi T, Imai Y, Murase R, Kamei Y, Fujibuchi T, Matsumoto S, Ueda N, Ogasawara M, Shigemoto K, Kito K.
A Small Ras-like protein Ray/Rab1c modulates the p53-regulating activity of PRPK.
Biochem Biophys Res Commun. 2006 May 26;344(1):377-85
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Genetically encoded fluorescent indicator for intracellular hydrogen peroxide.
Nat Methods. 2006 Apr;3(4):281-6
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A genetically encoded photosensitizer.
Nat Biotechnol. 2006 Jan;24(1):95-9
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Chromophore-assisted light inactivation (CALI) using the phototoxic fluorescent protein KillerRed.
Nat Protoc. 2006;1(2):947-53
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Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology.
BMC Genomics. 2006 Oct 24;7:272
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Fast and precise protein tracking using repeated reversible photoactivation.
Traffic. 2006 Oct;7(10):1304-10
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Organization of the Caenorhabditis elegans small non-coding transcriptome: genomic features, biogenesis, and expression.
Genome Res. 2006 Jan;16(1):20-9
pmid: 16344563 - Du C, Ge B, Liu Z, Fu K, Chan WC, McKeithan TW.
PCR-based generation of shRNA libraries from cDNAs.
BMC Biotechnol. 2006 Jun 21;6:28
pmid: 16790063 - Ebert A, Tittmann BR, Du J, Scheuchenzuber W.
Technique for rapid in vitro single-cell elastography.
Ultrasound Med Biol. 2006 Nov;32(11):1687-702
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Hydroxyproline-based DNA mimics provide an efficient gene silencing in vitro and in vivo.
Nucleic Acids Res. 2006 May 2;34(8):2247-57
pmid: 16670431 - Evdokimov AG, Pokross ME, Egorov NS, Zaraisky AG, Yampolsky IV, Merzlyak EM, Shkoporov AN, Sander I, Lukyanov KA, Chudakov DM.
Structural basis for the fast maturation of Arthropoda green fluorescent protein.
EMBO Rep. 2006 Oct;7(10):1006-12
pmid: 16936637 - Fujibe T, Saji H, Watahiki MK, Yamamoto KT.
Overexpression of the RADICAL-INDUCED CELL DEATH1 (RCD1) gene of Arabidopsis causes weak rcd1 phenotype with compromised oxidative-stress responses.
Biosci Biotechnol Biochem. 2006 Aug;70(8):1827-31
pmid: 16926493 - Gamas P, Debelle F., Berges H, Godiard L, Niebel A, Journet E, Gouzy J.
Medicago truncatula cDNA and genomic libraries
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Engineering of a monomeric green-to-red photoactivatable fluorescent protein induced by blue light.
Nat Biotechnol. 2006 Apr;24(4):461-5
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Discovery and properties of GFP-like proteins from nonbioluminescent anthozoa.
Methods Biochem Anal. 2006;47:121-38
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Identification of an interferon antagonist protein encoded by segment 7 of infectious salmon anaemia virus
Virus Res. 2006 Feb;115(2):176-84
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Expression of two vitellogenin genes (vg1 and vg3) in fathead minnow (Pimephales promelas) liver in response to exposure to steroidal estrogens and androgens.
Ecotoxicol Environ Saf. 2006 Mar;63(3):337-42
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Neuronal transcriptome of aplysia: neuronal compartments and circuitry.
Cell. 2006 Dec 29;127(7):1453-67
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Genes differentially expressed in oropharyngeal tonsils and mandibular lymph nodes of tuberculous and nontuberculous European wild boars naturally exposed to Mycobacterium bovis.
FEMS Immunol Med Microbiol. 2006 Mar;46(2):298-312
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RNA polymerase II mediated transcription from the polymerase III promoters in short hairpin RNA expression vector.
Biochem Biophys Res Commun. 2006 Jan 13;339(2):540-7
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Comparative analysis of the expressed genome of the infective juvenile entomopathogenic nematode, Heterorhabditis bacteriophora.
Mol Biochem Parasitol. 2006 Feb;145(2):239-44
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Non-invasive molecular imaging and reporter genes.
Central European Journal of Biology. 2006 1;1:88-123 http://www.springer.com/ - Simon A, Gl?ckner G, Felder M, Melkonian M, Becker B
EST analysis of the scaly green flagellate Mesostigma viride (Streptophyta): implications for the evolution of green plants (Viridiplantae).
BMC Plant Biol. 2006 Feb 13;6:2
pmid: 16476162 - Souslova EA, Chudakov DM.
Photoswitchable cyan fluorescent protein as a FRET donor.
Microsc Res Tech. 2006 Mar;69(3):207-9
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Molecular cloning and characterization of Nop25, a novel nucleolar RNA binding protein, highly conserved in vertebrate species.
Exp Cell Res. 2006 Apr 15;312(7):1031-41
pmid: 16430885 - Tateyama S, Horisawa K, Takashima H, Miyamoto-Sato E, Doi N, Yanagawa H.
Affinity selection of DNA-binding protein complexes using mRNA display.
Nucleic Acids Res. 2006 Feb 14;34(3):e27
pmid: 16478713 - Vallon M, Essler M.
Proteolytically processed soluble tumor endothelial marker (TEM) 5 mediates endothelial cell survival during angiogenesis by linking integrin alpha(v)beta3 to glycosaminoglycans.
J Biol Chem. 2006 Nov 10;281(45):34179-88
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Decoding the fine-scale structure of a breast cancer genome and transcriptome.
Genome Res. 2006 Mar;16(3):394-404
pmid: 16461635 - Wilmann PG, Battad J, Petersen J, Wilce MC, Dove S, Devenish RJ, Prescott M, Rossjohn J.
The 2.1A crystal structure of copGFP, a representative member of the copepod clade within the green fluorescent protein superfamily.
J Mol Biol. 2006 Jun 16;359(4):890-900
pmid: 16697009 - Wolff M, Wiedenmann J, Nienhaus GU, Valler M, Heilker R.
Novel fluorescent proteins for high-content screening.
Drug Discov Today. 2006 Dec;11(23-24):1054-60
pmid: 17129823 - Xia J, Kim SH, Macmillan S, Truant R.
Practical three color live cell imaging by widefield microscopy.
Biol Proced Online. 2006;8:63-8
pmid: 16909160 - Xu YX, Zhu ZY, Lo LC, Wang CM, Lin G, Feng F, Yue GH.
Characterization of two parvalbumin genes and their association with growth traits in Asian seabass (Lates calcarifer).
Anim Genet. 2006 Jun;37(3):266-8
pmid: 16734689
2005- Abdeeva IA, Komakhin RA, Musiichuk KA, Goldenkova IV.
The development of yeast vector system for study of regulational functions of eukaryotic noncoding elements
Mol Biol (Mosk). 2005 Mar-Apr;39(2):207-13 (in Russian)
pmid: 15856943 - Altshuler IM, Zhulidov PA, Bogdanova EA, Mudrik NN, Shagin DA.
Application of the duplex-specific nuclease preference method to the analysis of point mutations in human genes.
Bioorg Khim. 2005 Nov-Dec;31(6):627-36 (in Russian)
pmid: 16363136 - Chudakov DM, and Lukyanov KA.
Using photoactivatable GFPs to study protein dynamics and function.
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Fluorescent proteins as a toolkit for in vivo imaging.
Trends Biotechnol. 2005 Dec;23(12):605-13
pmid: 16269193 - Comley J.
HIGH CONTENT SCREENING emerging importance of novel reagents/probes and pathway analysis.
Drug Discovery World Summer. 2005;31-53 - Diatchenko L, Slade GD, Nackley AG, Bhalang K, Sigurdsson A, Belfer I, Goldman D, Xu K, Shabalina SA, Shagin D, Max MB, Makarov SS, Maixner W.
Genetic basis for individual variations in pain perception and the development of a chronic pain condition.
Hum Mol Genet. 2005 Jan 1;14(1):135-43
pmid: 15537663 - Hasdemir B, Fitzgerald DJ, Prior IA, Tepikin AV, Burgoyne RD.
Traffic of Kv4 K+ channels mediated by KChIP1 is via a novel post-ER vesicular pathway.
J Cell Biol. 2005 Nov 7;171(3):459-69
pmid: 16260497 - Lukyanov KA, Chudakov DM, Fradkov AF, Labas YA, Matz MV and Lukyanov SA.
Discovery and properties of GFP-like proteins from non-bioluminescent Anthozoa.
In: Green fluorescent protein: properties and applications. Chalfie, M., Kain, S., (Eds). Willey-Liss, New York. 2005;121-38 - Lukyanov KA, Chudakov DM, Lukyanov S, Verkhusha VV.
Innovation: Photoactivatable fluorescent proteins.
Nat Rev Mol Cell Biol. 2005 Nov;6(11):885-91
pmid: 16167053 - Melton L.
Imaging: the big picture.
Nature. 2005 Sep 29;437(7059):775-9
pmid: 16193058 - Nguyen B, Bowers RM, Wahlund TM, Read BA.
Suppressive subtractive hybridization of and differences in gene expression content of calcifying and noncalcifying cultures of Emiliania huxleyi strain 1516.
Appl Environ Microbiol. 2005 May;71(5):2564-75
pmid: 15870347 - Ozalp C, Szczesna-Skorupa E, Kemper B.
Bimolecular fluorescence complementation analysis of cytochrome p450 2c2, 2e1, and NADPH-cytochrome p450 reductase molecular interactions in living cells.
Drug Metab Dispos. 2005 Sep;33(9):1382-90
pmid: 15980100 - Peyker A, Rocks O, Bastiaens PI.
Imaging activation of two Ras isoforms simultaneously in a single cell.
Chembiochem. 2005 Jan;6(1):78-85
pmid: 15637661 - Quillin ML, Anstrom DM, Shu X, O'Leary S, Kallio K, Chudakov DM, Remington SJ.
Kindling fluorescent protein from Anemonia sulcata: dark-state structure at 1.38 A resolution.
Biochemistry. 2005 Apr 19;44(15):5774-87
pmid: 15823036 - Shaner NC, Steinbach PA, Tsien RY.
A guide to choosing fluorescent proteins.
Nat Methods. 2005 Dec;2(12):905-9
pmid: 16299475 - Wang Z, Chua HK, Gusti AA, He F, Fenner B, Manopo I, Wang H, Kwang J.
RING-H2 protein WSSV249 from white spot syndrome virus sequesters a shrimp ubiquitin-conjugating enzyme, PvUbc, for viral pathogenesis.
J Virol. 2005 Jul;79(14):8764-72
pmid: 15994770 - Wilmann PG, Petersen J, Devenish RJ, Prescott M, Rossjohn J.
Variations on the GFP chromophore: A polypeptide fragmentation within the chromophore revealed in the 2.1-A crystal structure of a nonfluorescent chromoprotein from Anemonia sulcata.
J Biol Chem. 2005 Jan 28;280(4):2401-4
pmid: 15542608 - Yanushevich YG, Shagin DA, Fradkov AF, Shakhbazov KS, Barsova EV, Gurskaya NG, Labas YA, Matz MV, Lukyanov KA, Lukyanov SA.
Spectral diversity among the members of the family of Green Fluorescent Protein in hydroid jellyfish (Cnidaria, Hydrozoa).
Bioorg Khim. 2005 Jan-Feb;31(1):49-53 (in Russian)
pmid: 15787213 - Zhu JX, Goldoni S, Bix G, Owens RT, McQuillan DJ, Reed CC, Iozzo RV.
Decorin evokes protracted internalization and degradation of the epidermal growth factor receptor via caveolar endocytosis.
J Biol Chem. 2005 Sep 16;280(37):32468-79
pmid: 15994311 - Zhulidov PA, Bogdanova EA, Shcheglov AS, Shagina IA, Wagner LL, Khazpekov GL, Kozhemyako VV, Lukyanov SA, Shagin DA.
A method for the preparation of normalized cDNA libraries enriched with full-length sequences.
Bioorg Khim. 2005 Mar-Apr;31(2):186-94 (in Russian)
pmid: 15889793
2004- Chudakov DM, Verkhusha VV, Staroverov DB, Souslova EA, Lukyanov S, Lukyanov KA.
Photoswitchable cyan fluorescent protein for protein tracking.
Nat Biotechnol. 2004 Nov;22(11):1435-9
pmid: 15502815 - Gelfand M.
Doing Science in Uncertain Times
PLoS Biol. 2004 Jul;2(7):E214
pmid: 15252457 - Hawley TS, Herbert DJ, Eaker SS, Hawley RG.
Multiparameter flow cytometry of fluorescent protein reporters.
Methods Mol Biol. 2004;263:219-38
pmid: 14976369 - Lu L, Kwang J.
Identification of a novel shrimp protein phosphatase and its association with latency-related ORF427 of white spot syndrome virus.
FEBS Lett. 2004 Nov 5;577(1-2):141-6
pmid: 15527775 - Rebrikov DV, Desai SM, Siebert PD, Lukyanov SA.
Suppression subtractive hybridization.
Methods Mol Biol. 2004;258:107-34
pmid: 14970460 - Shagin DA, Barsova EV, Yanushevich YG, Fradkov AF, Lukyanov KA, Labas YA, Semenova TN, Ugalde JA, Meyers A, Nunez JM, Widder EA, Lukyanov SA, Matz MV.
GFP-like proteins as ubiquitous metazoan superfamily: evolution of functional features and structural complexity.
Mol Biol Evol. 2004 May;21(5):841-50
pmid: 14963095 - Zhulidov PA, Bogdanova EA, Shcheglov AS, Vagner LL, Khaspekov GL, Kozhemyako VB, Matz MV, Meleshkevitch E, Moroz LL, Lukyanov SA, Shagin DA.
Simple cDNA normalization using kamchatka crab duplex-specific nuclease.
Nucleic Acids Res. 2004 Feb 18;32(3):e37
pmid: 14973331
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