• TM4 Microarray Software
• Proteomics Tools
• APEX
• Microarray Tools
• Katsura
• Ginkgo
• Magnolia
• Resources
• PFGRC Microarray Data Analysis Tutorial

Magnolia: Microarray Data Management and Export System for PFGRC Microarrays

View Additional Screenshots

Since it has been an obligation to submit microarray experiment data to public repositories for publishing the experimental results, collecting and storing the data is an essential step in microarray study. Implemented with H2 DBMS as the backend storage, Magnolia provides PFGRC array users with a series of intelligent entry form to collect the information or parameters of experiment, bio-source, sample, probe, slide, scan, expression, and normalization, which is MIAME compliant (Minimal Information About a Microarray Experiment; (Brazma et al., 2001)). The collected data are saved to a relational database defined by users and can be modified easily with a set of corresponding edit pages. Working as an exporter, Magnolia can write out the entered data into GEO sample and series files in SOFT format that is acceptable by GEO, so that the files can be submitted to GEO directly. Magnolia also serves as a platform for launching other data manipulation tools, such as SQL Query Window to report the entered data, Slide Annotation to load array annotation file downloaded from PFGRC site into the database, and Database Schema to present the relationships among the tables.

Download Latest Version

Click here for application: Download Application

For Mac Users:

Click here for application: Download Application

This application is released under the GPL v3 License: View License

Click here for source code: Download Source Code

Older Software Links

Software Manual

The is a detailed description of the workings of Magnolia. It contains complete instructions on entering and exporting data.

View Manual

System Requirements

Magnolia v1.0 runs on the Windows 2000/NT/XP systems and requires Java v1.6.0 or higher.

Download Java v1.6.0

Contact

Contact the PFGRC's Magnolia Development Team by email: [email protected]

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 447

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 447

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 45

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 45

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/inc.stats.php

Line Number: 211

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: A link to the server could not be established

Filename: slimstat/inc.stats.php

Line Number: 211

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/inc.stats.php

Line Number: 221

A PHP Error was encountered

Severity: Warning

Message: mysql_query() [function.mysql-query]: A link to the server could not be established

Filename: slimstat/inc.stats.php

Line Number: 221

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2)

Filename: slimstat/_functions.php

Line Number: 534

A PHP Error was encountered

Severity: Warning

Message: mysql_real_escape_string() [function.mysql-real-escape-string]: A link to the server could not be established

Filename: slimstat/_functions.php

Line Number: 534