A novel representation of RNA secondary structure based on element-contact graphs

Additional file 1:

Supplementary table S1 – S3. Calculation of Wiener, Balaban, Randić indices based on the dataset of 6,305 ncRNAs.

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Additional file 2:

Distribution Fitting results for three representatives of topological indices. The distribution fitting results for three representatives of topological indices based on the dataset of 6,305 ncRNAs are shown. Four typical distribution models (normal distribution, Gamma distribution, Weibull distribution and log-normal distribution) are employed here to model the statistical distributions of the three topological index families. (A) Probability distribution curves (left) and Cumulative distribution curves (right) of weighted Weiner index based on SLCG representation. (B) Probability distribution curves (left) and Cumulative distribution curves (right) of weighted Balaban index based on SLCG representation. (C) Probability distribution curves (left) and Cumulative distribution curves (right) of weighted zero order Randić index based on SLCG representation.

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Additional file 3:

Supplementary table S4 – S7. Statistical properties of topological indices.

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Additional file 4:

Correlations between Wiener indices and the free energy of RNA. Correlations between Wiener indices and free energy for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 5:

Correlations between Balaban indices and the free energy of RNA. Correlations between Balaban indices and free energy for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 6:

Correlations between Randić indices and the free energy of RNA. Correlations between Randić indices and free energy for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 7:

Correlations between Wiener indices and the length of RNA. Correlations between Wiener indices and length for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 8:

Correlations between Balaban indices and the length of RNA. Correlations between Balaban indices and length for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 9:

Correlations between Randić indices and the length of RNA. Correlations between Randić indices and length for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 10:

Correlations between Wiener indices and the GC content of RNA. Correlations between Wiener indices and GC content for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 11:

Correlations between Balaban indices and the GC content of RNA. Correlations between Balaban indices and GC content for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 12:

Correlations between Randić indices and the GC content of RNA. Correlations between Randić indices and GC content for the dataset of 6,305 ncRNAs are shown. For convenience of visualization, both X and Y axes are scaled logarithmically.

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Additional file 13:

Correlations between Wiener indices. Correlations between Wiener indices for the dataset of 6,305 ncRNAs are shown. The diagonal figures show the distributions of the Wiener indices.

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Additional file 14:

Correlations between Balaban indices. Correlations between Balaban indices for the dataset of 6,305 ncRNAs are shown. The diagonal figures show the distributions of the Balaban indices.

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Additional file 15:

Correlations between Randić indices. Correlations between Randić indices for the dataset of 6,305 ncRNAs are shown. The diagonal figures show the distributions of the Randić indices.

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