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Figure 1 | BMC Bioinformatics

Figure 1

From: PSSM-based prediction of DNA binding sites in proteins

Figure 1

Rows of Position Specific Scoring Matrices selected for neural network input: Network inputs consist of the PSSM of the target residue and its two neighboring residues on C- and N-terminals. Each residue is thereby represented by a 20 dimensional vector with integer values. These values represent (logarithmic) effective frequencies of occurrence at respective positions in a multiple alignment. Neural network input layer is therefore made of 20 × 5 = 100 units. Two units in the only hidden layer and one unit in the output layer add up to a total of 202 neural units to be trained in the fully connected neural network.

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