Dynamic Proteomics: a database for dynamics and localizations of endogenous fluorescently-tagged proteins in living human cells.
Recent advances allow tracking the levels and locations of a thousand proteins in individual living human cells over time using a library of annotated reporter cell clones (LARC). This library was created by Cohen et al. to study the proteome dynamics of a human lung carcinoma cell-line treated with an anti-cancer drug. Here, we report the Dynamic Proteomics database for the proteins studied by Cohen et al. Each cell-line clone in LARC has a protein tagged with yellow fluorescent protein, expressed from its endogenous chromosomal location, under its natural regulation. The Dynamic Proteomics interface facilitates searches for genes of interest, downloads of protein fluorescent movies and alignments of dynamics following drug addition. Each protein in the database is displayed with its annotation, cDNA sequence, fluorescent images and movies obtained by the time-lapse microscopy. The protein dynamics in the database represents a quantitative trace of the protein fluorescence levels in nucleus and cytoplasm produced by image analysis of movies over time. Furthermore, a sequence analysis provides a search and comparison of up to 50 input DNA sequences with all cDNAs in the library. The raw movies may be useful as a benchmark for developing image analysis tools for individual-cell dynamic-proteomics. The database is available at http://www.dynamicproteomics.net/.
Frenkel-Morgenstern
Milana
M
Molecular Cell Biology Department, Bioinformatics Unit, Weizmann Institute of Science, Rehovot 76100, Israel. milana.frenkel@weizmann.ac.il
Cohen
Ariel A
AA
Geva-Zatorsky
Naama
N
Eden
Eran
E
Prilusky
Jaime
J
Issaeva
Irina
I
Sigal
Alex
A
Cohen-Saidon
Cellina
C
Liron
Yuvalal
Y
Cohen
Lydia
L
Danon
Tamar
T
Perzov
Natalie
N
Alon
Uri
U
D000970:Antineoplastic Agents / Q000494:pharmacology; D045744:Cell Line, Tumor; D019295:Computational Biology / Q000379:methods* / Q000639:trends; D030541:Databases, Genetic; D030561:Databases, Nucleic Acid; D030562:Databases, Protein; D004354:Drug Screening Assays, Antitumor; D005456:Fluorescent Dyes / Q000737:chemistry / Q000494:pharmacology; D015723:Gene Library; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods; D020407:Internet; D017434:Protein Structure, Tertiary; D040901:Proteomics / Q000379:methods*; D012984:Software
D000970:Antineoplastic Agents; D005456:Fluorescent Dyes