| GRN | Gene Regulatory Network |
| TF | Transcription Factor |
| TG | Target Gene |
| RPM | Reads per Million |
| RPK | Reads per Kilobase |
| RPKM | Reads per Kilobase Million |
| TPM | Transcripts Per Kilobase |
| EFD | Equal Frequency Discretization |
| EWD | Equal Width Discretization |
| KMr | K-Means Row Discretization |
| KMc | K-Means Column Discretization |
| BKM | Bidirectional K-Means |
| Zc | Column-Wise Z-Score Standardization |
| Zr | Row-Wise Z-Score Standardization |
| P | Z-Score Polishing Standardization |
| I | Identity |
| MI | Mutual Information |
| SVMs | Support Vector Machines |
| AB | AdaBoost |
| GB | Gradient Boosting |
| RF | Random Forest |
| XRT | eXtreme Randomized Trees |
| c | Classifier |
| r | Regressor |
| BRSr | Bayesian Ridge Regressor |
| CNBc | Complement Naive Bayes Classifier |
| PR | Pearson Correlation Coefficient |
| SR | Spearman Correlation Coefficient |
| KT | Kendall Tau Statistic |
| CLR | Context Likelihood of Relatedness |
| TIGRESS | Trustful Inference of Gene Regulation using Stability Selection |
| SRL | Stability Randomized Lasso |
| AUROC | Area Under the Receiver Operating Characteristic Curve |
| AUPR | Area Under the Precision Recall Curve |