Abstract: Methods for quantitatively assessing the status of a biological event in a testing sample comprise computing a pair-wise energy score for each analyte pair for the biological event based on a testing magnitude value and a relative correlation value for the analyte pair, computing an energy-paired score for the biological event in the testing sample by combining the pair-wise energy score for each analyte pair, and optionally computing a significance level of the energy-paired score. Systems to implement such methods comprise computer readable medium, processors, or hardware to carry out these steps. The energy-paired score provides an estimation of how likely the biological event in the testing sample is up-regulated or down-regulated, which could aid in therapy, drug discovery, prognostic evaluation, or characterization of diseases.