Dataset Information

Cellular phenotype database: a repository for systems microscopy data.

ABSTRACT:

Motivation

The Cellular Phenotype Database (CPD) is a repository for data derived from high-throughput systems microscopy studies. The aims of this resource are: (i) to provide easy access to cellular phenotype and molecular localization data for the broader research community; (ii) to facilitate integration of independent phenotypic studies by means of data aggregation techniques, including use of an ontology and (iii) to facilitate development of analytical methods in this field.

Results

In this article we present CPD, its data structure and user interface, propose a minimal set of information describing RNA interference experiments, and suggest a generic schema for management and aggregation of outputs from phenotypic or molecular localization experiments. The database has a flexible structure for management of data from heterogeneous sources of systems microscopy experimental outputs generated by a variety of protocols and technologies and can be queried by gene, reagent, gene attribute, study keywords, phenotype or ontology terms.

Availability and implementation

CPD is developed as part of the Systems Microscopy Network of Excellence and is accessible at http://www.ebi.ac.uk/fg/sym.

Contact

jes@ebi.ac.uk or ugis@ebi.ac.uk

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Kirsanova C

PROVIDER: S-EPMC4528631 | biostudies-literature | 2015 Aug

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Cellular phenotype database: a repository for systems microscopy data.

Kirsanova Catherine C Brazma Alvis A Rustici Gabriella G Sarkans Ugis U

Bioinformatics (Oxford, England) 20150409 16

<h4>Motivation</h4>The Cellular Phenotype Database (CPD) is a repository for data derived from high-throughput systems microscopy studies. The aims of this resource are: (i) to provide easy access to cellular phenotype and molecular localization data for the broader research community; (ii) to facilitate integration of independent phenotypic studies by means of data aggregation techniques, including use of an ontology and (iii) to facilitate development of analytical methods in this field.<h4>Re ...[more]

PMID: 25861964

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Dataset Information

Cellular phenotype database: a repository for systems microscopy data.

Motivation

Results

Availability and implementation

Contact

Supplementary information

Publications

Cellular phenotype database: a repository for systems microscopy data.

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