Help

Welcome to the help section of Transfind. Here you find information for using the website, and background information on the algorithms.



Submission

Read here in a point-by-point description, how to submit your list for predictions.

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Results table

A description on how to interpret the results

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Affinity prediction algorithm

The affinity prediction algorithm is a custom implementation of a algorithm proposed by Manke et al (2008).

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Identifier Conversion

TransFind features automatic identifier conversion.

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Promoter sets used

Promoter sets were extracted from Ensembl Version 57.

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Algorithm to test for enrichment

The test for enrichment is done using the Fisher's exact test with a multiple-testing extension. 

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About Transfind

Given a set of genes, Transfind predicts transcription factors with affinities to the gene promoters significantly higher compared to a background set of genes. It provides an easy-to-use, reliable and fast interface for performing the calculation.

Transfind has been developed in a cooperation between Szymon M. Kiełbasa, Holger Klein, Helge Roider (Max-Planck-Institute of Molecular Genetics, Berlin, Germany) and Nils Blüthgen (Institute of Pathology at Charite, Berlin and Institute of Theoretical Biology, Humboldt University, Berlin, Germany).

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