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  1. Dynamic Proteomics
    Resource Category : Databases -> Metabolic and Signaling Pathways -> Protein-protein interactions

    Brief Description : The Dynamic Proteomics database is a compendium of endogenously YFP-tagged human proteins and their time-lapse microscopy movies. These movies show the protein dynamics in space and in time in individual living human cancer cells in response to an anti-cancer drug, camptothecin. Recent advances in molecular cell biology allow tracking the levels and locations of over a thousand proteins in individual living human cancer cells over time using a library of annotated reporter cell clones (LARC). This library was created by Cohen et al. to study proteome dynamics in individual living cells of a human lung carcinoma cell-line treated with the anti-cancer drug, camptothecin [1]. Here, we report the Dynamic Proteomics database for the proteins studied by Cohen et al [1]. Each cell-line clone in the LARC library has a protein tagged with yellow fluorescent protein (eYFP or Venus), expressed from its endogenous chromosomal location and under its natural regulation [2-4]. The Dynamic Proteomics interface facilitates searches for genes of interest as well as downloads of protein fluorescent movies and alignments of protein dynamics following drug addition [1]. Each protein in the database is displayed with a detailed annotation, its cDNA sequence, fluorescent images and movies obtained by time-lapse microscopy. The protein dynamics in the database represent a quantitative trace of the tagged-protein fluorescence levels in the nucleus and cytoplasm produced by image analysis of the movies over time [1-4]. Furthermore, a sequence analysis tool provides a search and comparison of up to 50 input DNA sequences with all cDNAs in the library. The raw movies presented in the database may be useful as a benchmark for developing image analysis tools for individual-cell dynamic proteomics.

    Institute/s :
    Bioinformatics Unit, Weizmann Institute of Science, Rehovot, 76100, Israel
    Address of Institute/s :
    Bioinformatics Unit, Weizmann Institute of Science, Rehovot, 76100, Israel
    Country : Israel

    Associated Institutes :

    • Molecular Cell Biology Department
    • Bioinformatics Unit
    • Weizmann Institute of Science
    • Rehovot, 76100, Israel
    • Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA

    Associated Country : Israel; USA


    Authors/Contributors : Milana Frenkel-Morgenstern; Ariel A. Cohen; Naama Geva-Zatorsky; Eran Eden; Jaime Prilusky; Irina Issaeva; Alex Sigal; Cellina Cohen-Saidon; Yuvalal Liron; Lydia Cohen; Tamar Danon; Natalie Perzov; Uri Alon
    Contact Email : milana.frenkel@weizmann.ac.il
    Year : 2009
    Language : English


  2. Dynamic Proteomics
    Resource Category : Databases -> Metabolic and Signaling Pathways -> Protein-protein interactions

    Brief Description : The Dynamic Proteomics database is a compendium of endogenously YFP-tagged human proteins and their time-lapse microscopy movies. These movies show the protein dynamics in space and in time in individual living human cancer cells in response to an anti-cancer drug, camptothecin. Recent advances in molecular cell biology allow tracking the levels and locations of over a thousand proteins in individual living human cancer cells over time using a library of annotated reporter cell clones (LARC). This library was created by Cohen et al. to study proteome dynamics in individual living cells of a human lung carcinoma cell-line treated with the anti-cancer drug, camptothecin [1]. Here, we report the Dynamic Proteomics database for the proteins studied by Cohen et al [1]. Each cell-line clone in the LARC library has a protein tagged with yellow fluorescent protein (eYFP or Venus), expressed from its endogenous chromosomal location and under its natural regulation [2-4]. The Dynamic Proteomics interface facilitates searches for genes of interest as well as downloads of protein fluorescent movies and alignments of protein dynamics following drug addition [1]. Each protein in the database is displayed with a detailed annotation, its cDNA sequence, fluorescent images and movies obtained by time-lapse microscopy. The protein dynamics in the database represent a quantitative trace of the tagged-protein fluorescence levels in the nucleus and cytoplasm produced by image analysis of the movies over time [1-4]. Furthermore, a sequence analysis tool provides a search and comparison of up to 50 input DNA sequences with all cDNAs in the library. The raw movies presented in the database may be useful as a benchmark for developing image analysis tools for individual-cell dynamic proteomics.

    Institute/s :
    Weizmann Institute of Science, Rehovot, 76100, Israel
    Address of Institute/s :
    Weizmann Institute of Science, Rehovot, 76100, Israel
    Country : Israel

    Associated Institutes :

    • Molecular Cell Biology Department, Bioinformatics Unit, Weizmann Institute of Science, Rehovot, 76100, Israel
    • Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA

    Associated Country : Israel; USA


    Authors/Contributors : Milana Frenkel-Morgenstern; Ariel A. Cohen; Naama Geva-Zatorsky; Eran Eden; Jaime Prilusky; Irina Issaeva; Alex Sigal; Cellina Cohen-Saidon; Yuvalal Liron; Lydia Cohen; Tamar Danon; Natalie Perzov; Uri Alon
    Contact Email : milana.frenkel@weizmann.ac.il
    Year : 2009
    Language : English