### SOM + genes

Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation.

-> [pdf]
SOMs take a fundamentally different approach. They attempt

to provide an ‘‘executive summary’’ of a massive data set

by extracting the n most prominent patterns (where n is the

number of nodes in the geometry) and arranging them so that

similar patterns occur as neighbors in the SOM. As with all

exploratory data analysis tools, the use of SOMs involves

inspection of the data to extract insights.

SOMs are widely used in data mining because they have

many desirable mathematical properties, including scaling well

to large data sets. In our own hands, we have indeed found

them valuable in analyses involving hundreds of experiments.

A SOM calculated on the twoday-survey data, with a 4x4 grid, and pre-ordered columns:
Such a chart wont scale well with a high number of variables.

-> [pdf]

to provide an ‘‘executive summary’’ of a massive data set

by extracting the n most prominent patterns (where n is the

number of nodes in the geometry) and arranging them so that

similar patterns occur as neighbors in the SOM. As with all

exploratory data analysis tools, the use of SOMs involves

inspection of the data to extract insights.

SOMs are widely used in data mining because they have

many desirable mathematical properties, including scaling well

to large data sets. In our own hands, we have indeed found

them valuable in analyses involving hundreds of experiments.

A SOM calculated on the twoday-survey data, with a 4x4 grid, and pre-ordered columns:

michi - 4. Sep, 21:44