Case:
Depending on the research question and the data available, ligand- or structure-based target prediction methods can be applied. In ligand-based methods, potential targets can either be inferred from the most similar known ligands or through elaborated machine learning models. The latter require sufficient and well annotated data in order to train proper models. Structure-based approaches compare a query protein based on their binding sites or interaction fingerprints to a panel of protein structures or screen a query compound against these panels using a docking or pharmacophore screening engine. The former provides more quantitative information such as predicted bioactivities that can directly be associated with experimental values, whereas the latter can give additional information about the binding pose of ligands to potential targets. (Sydow et al., 2019)
Source:
Sydow, D., Burggraaff, L., Szengel, A., van Vlijmen, H. W., IJzerman, A. P., van Westen, G. J., & Volkamer, A. (2019). Advances and challenges in computational target prediction. Journal of Chemical Information and Modeling, 59(5), 1728-1742. https://doi.org/10.1021/acs.jcim.8b00832
Sample
Ligand based target prediction provides more quantitative information, such as predicted bioactivities that can directly be associated with experimental values, while structure-based target prediction gives additional information about the binding pose of ligands to potential targets.
Q1: In the above sample, what changes should be made to ensure best academic integrity practices?
- A. Double Quote “provides more…. experimental value”
- B. Double Quote “gives additional…. Potential targets”
- C. Add in text citation at the end of the sentence: (Sydow D et al., 2019)
- D. Provide complete proper reference at the end.
- E. All of the above
Q2: Which one of the below options represents the correct APA format reference of the above case?
- A. Sydow, Dominique et al. “Advances and Challenges in Computational Target Prediction.” Journal of chemical information and modeling vol. 59,5 (2019): 1728-1742. doi:10.1021/acs.jcim.8b00832
- B. Sydow, D., Burggraaff, L., Szengel, A., van Vlijmen, H., IJzerman, A. P., van Westen, G., & Volkamer, A. (2019). Advances and challenges in computational target prediction. Journal of Chemical Information and Modeling, 59(5), 1728–1742. https://doi.org/10.1021/acs.jcim.8b00832
- C. Sydow D, Burggraaff L, Szengel A, et al. Advances and Challenges in Computational Target Prediction. J Chem Inf Model. 2019;59(5):1728-1742. doi:10.1021/acs.jcim.8b00832
