Dynamic Proteomics

Other names: DynamicProteomics DB, dynamicproteomics_db

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.

Webpage:
http://www.weizmann.ac.il/mcb/UriAlon/DynamProt/

Publications:

Tags:

metabolic and signaling pathways protein-protein interactions proteomics molecular dynamics imaging gene transcripts

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