Assays

Some examples of transcriptomics templates for Affymetrix data that conform to the MAGE-TAB specification. These templates were taken from the GEO website (http://www.ncbi.nlm.nih.gov/geo/info/spreadsheet.html) and modified to conform to the SysMO-JERM (Just enough Results Model) for transcriptomics.
Using these templates will mean easier submission to GEO/ArrayExpress and greater consistency of data in SEEK.

This Excel template is an example taken from the GEO web site (http://www.ncbi.nlm.nih.gov/geo/info/spreadsheet.html#GAtemplates) which has been modified to conform to the SysMO JERM (Just Enough Results Model).
Using templates helps with searching and comparing data as well as making it easier to submit data to public repositories for publications.

Contributor: Katy Wolstencroft

Assay type: Transcriptomics

Technology type: ChIP-on-chip

Snapshots: No snapshots

Some generic examples of transcriptomics templates that conform to the MAGE-TAB specification. These templates were created and modified from templates produced by ArrayExpress and GEO.
These templates are generic and non-specific for any particular array platform.

Contributor: Katy Wolstencroft

Assay type: Transcriptomics

Technology type: Microarray

Snapshots: No snapshots

Concentration of glycolytic intermediates over time

This Excel template is the general (master) template for any type of metabolomics data. It can be used as it is, or extended and modified to create a more specific templates for particular technologies and assay types.

Contributor: Katy Wolstencroft

Assay type: Metabolomics

Technology type: Technology Type

Snapshots: No snapshots

Some examples of transcriptomics templates for NimbleGen data that conform to the MAGE-TAB specification. These templates were taken from the GEO website (http://www.ncbi.nlm.nih.gov/geo/info/spreadsheet.html) and modified to conform to the SysMO-JERM (Just enough Results Model) for transcriptomics.
Using templates will mean easier submission to GEO/ArrayExpress upon publication and greater consistency of data in SEEK for easier searching and comparing.

Examples of proteomics templates for gele electrophoresis data that conform to the MIAPE-GE specification

Contributor: Katy Wolstencroft

Assay type: Proteomics

Technology type: Electrophoresis

Snapshots: No snapshots

Some examples of proteomics templates for Mass Spectrometry data that conform to the MIAPE specification

A example of an RT-PCR Excel template. RT-PCR is Reverse Transcriptase PCR (NOT to be confused with Real Time PCR, which is normally referred to as qPCR)

This template was taken from the GEO website (http://www.ncbi.nlm.nih.gov/geo/info/spreadsheet.html) and modified to conform to the SysMO-JERM (Just enough Results Model) for transcriptomics.
Using templates will mean easier submission to public databases on publication and greater consistency of data in SEEK.

Contributor: Katy Wolstencroft

Assay type: Gene Expression Profiling

Technology type: qRT-PCR

Snapshots: No snapshots

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