NERC Environmental Bioinformatics Centre Loading annotated spreadsheets into maxdLoad2

NERC EnvironmentalBioinformatics Centre

Loading annotated spreadsheets into maxdLoad2


The maxdLoad2 database

BrowseEdit

Load


Worksheets with experiment data in maxdLoad2 format


Spreadsheet overview


Comment boxes are available on each worksheet to display help text

maxdLoad2 attribute name

Field Data Requirement describes the format of

the data and if it is a compulsory field within

maxdLoad2

Name of table within maxdLoad2

The number with dollar prefix is used to match the

data to the table fields within maxdLoad2

Worksheet layout


Using “presets” to load spreadsheets into maxdLoad2

Data can be entered into maxdLoad2 by one of two methods .

• Entering data directly into the database using the “Create” option.

• Loading data from a text file or Excel spreadsheet using the “Load” option.


The Load option allows data from worksheets and text files to be entered

in a batch format.

The preset file adds a dollar prefixed number into each attribute field of the maxdLoad2 table that corresponds to

a column of data in the worksheet.


A single worksheet can be selected from a

spreadsheet and loaded into the database.

The data from the worksheet can be previewed prior to upload to ensure the data is correct.


After loading the worksheet, the

data can be viewed using the Browse

function.

In this example, only the Name and

Title have been loaded from the

worksheet.

Browsing the loaded data


We recommend that the data tables are loaded in the following order:-

SampleTreated SampleExtractLabelled ExtractArray

Order of loading

SourceSampling ProtocolTreatment ProtocolExtraction ProtocolLabelling ProtocolHybridisation ProtocolScanning ProtocolImage Analysis Protocol

HybridisationImageMeasurementSubmitterExperiment


• Fast to annotate experiments

• Annotate to MIAME or MIAME/Env standards

• Simple auto-naming generation of samples (making the experiment and relationships of samples easy to follow)

• Incorporates data fields for lab-specific id's

• Easy to up-load into maxdLoad2

• Easy to customize

Benefits of using the spreadsheet


NEBC OxfordDawn FieldBela TiwariTim BoothStewart HoutenAshley Morley

NEBC ManchesterAndy BrassDave HancockNorman Morrison

University of CardiffPete Kille

University of ManchesterKevin GarwoodGiles Velarde

Documents

NERC Environmental Bioinformatics Centre Loading annotated spreadsheets into maxdLoad2