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The GDS markdown guide is available on GOV.UK.
However, its advice on some things is wrong. Here are the correct instructions.
Using sub or superscripts
For subscript, surround the text to change with the <sub> </sub> markdown.
This is an example of using subscript in text.
For superscript, surround the text to change with the <sup> </sup> markdown.
This is an example of using superscript in text.
Linking to footnotes or references
Put the reference numbers in square brackets next to the text in the page, for example:
The second edition was subsequently published in 2010 [^1].
Then in the references at the foot of the document, mark them thus:
[^1]: Burford D, Kirby M, Austoker J. Prostate Cancer Risk Management Programme information for primary care; PSA testing in asymptomatic men. [Evidence document. NHS Cancer Screening Programmes; 2010 Jan](http://www.cancerscreening.nhs.uk/prostate/pcrmp-guide-2.html). Accessed June 2014
Using markdown in tables
If you need to add line breaks in a table cell, use the </br> tag.
If you need to convert large amounts of text into a table, use the table convertor tool.