Gel informatics

From MIBBI

1. General features

1.1. Person or responsible role

1.2. Electrophoresis type

1.3. Electrophoresis context

1.4. Image(s)

1.5. Image analysis software

2. Gel analysis design

2.1. Type

2.2. Replicates

2.3. Groups¹

2.4. Standards

3. Image preparation²

3.1. Software

3.2. Preparation steps

3.2.1. Type

3.2.2. Parameters

4. Image processing³

4.1. Input image(s)

4.2. Software

4.3. Processing steps

4.3.1. Algorithm name and version

4.3.2. Parameters

5. Data extraction process⁴

5.1. Input image(s)

5.2. Feature detection⁵

5.2.1. Algorithm name and version

5.2.2. Parameters

5.2.3. Feature editing

5.3. Matching⁶

5.3.1. Algorithm name and version

5.3.2. Parameters

5.3.3. Reference image used

5.3.4. Landmarks

5.3.5. Match editing

5.4. Feature quantitation⁷

5.4.1. Type

5.4.2. Quantitation

5.4.3. Background subtraction⁸

5.4.4. Normalization⁹

6. Data analysis¹⁰

6.1. Analysis intent

6.2. Input data

6.3. Data transformation

6.4. Software

6.5. Type

6.6. Parameters

7. Data reporting

7.1. List of image features

7.2. List of matches

7.3. Analysis results

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Footnotes

¹ Not applicable on blind design.

² If performed, edits made to the image(s) using image software.

³ If any, processing performed by the bioinformatics software.

⁴ For the following possible processes, assemble the sections that are most appropriate for the workflow performed.

⁵ If performed, whether automatic or manual.

⁶ If performed

⁷ If performed

⁸ If applicable

⁹ If applicable

¹⁰ Analysis protocol used -- repeat this section as necessary.

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Sources

MIAPE

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Notes

This module identifies the minimum information required to report an informatics analysis performed with gel electrophoresis images in a proteomics experiment, sufficient to support both the effective interpretation and assessment of the data and the potential recreation of the work that generated it.