Publications

  • M. Pourreza Shahri and I. Kahanda, “ProPheno 1.0: An online dataset for accelerating the complete characterization of the human protein-phenotype landscape in biomedical literature”, 14th International IEEE Conference on Semantic Computing, 2020. (Accepted) (Link)
  • M. Pourreza Shahri, G. Reynolds, M. M. Roe, and I. Kahanda, “PPPred: Classifying Protein-phenotype Co-mentions Extracted from Biomedical Literature”, The 10th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB), Niagara Falls, NY, USA, 2019. (Link)
  • M. Pourreza Shahri, M. Srinivasan, G. Reynolds, D. Bimczok, I. Kahanda, and U. Kanewala, “Metamorphic Testing for Quality Assurance of Protein Function Prediction Tools”, The 1st IEEE International Conference on Artificial Intelligence Testing, San Francisco, CA, USA, 2019. (Link)
  • M. Pourreza Shahri, M. Srinivasan, U. Kanewala, and I. Kahanda, “A Look Back at the Quality of Protein Function Prediction Tools in CAFA”, 26th Conference on Intelligent Systems for Molecular Biology (ISMB), Chicago, IL, USA, 2018. (Link)
  • M. Srinivasan, M. Pourreza Shahri, U. Kanewala, and I. Kahanda, “Quality Assurance of Bioinformatics Software: A Case Study of Testing a Biomedical Text Processing Tool Using Metamorphic Testing”, Proceedings of the 3rd International Workshop on Metamorphic Testing, ACM, Gothenburg, Sweden, 2018. (Link)
  • M. Pourreza Shahri and I. Kahanda, “Extracting Co-mention Features from Biomedical Literature for Automated Protein Phenotype Prediction using PHENOstruct”, 10th International Conference on Bioinformatics and Computational Biology (BiCOB), Las Vegas, NV, USA, 2018. (Link)
  • M. Pourreza Shahri and I. Kahanda, “Evaluating the effectiveness of using literature features for automated protein phenotype prediction using PHENOstruct”, 15th Annual Rocky Mountain Bioinformatics Conference, Snowmass, CO, USA, 2017. (Link)
  • M. Pourreza Shahri, M. Srinivasan, U. Kanewala, and I. Kahanda, “Quality assurance of bioinformatics software”, 15th Annual Rocky Mountain Bioinformatics Conference, Snowmass, CO, USA, 2017. (Link)
  • M. Pourreza Shahri, M. Kahani, and H. Ekbia, “Providing FAQ lists based on ontology”, 24th IEEE Iranian Conference on Electrical Engineering (ICEE), Shiraz, Iran, 2016. (Link)

Posters

  • M. Pourreza Shahri, M. Srinivasan, D. Bimczok, U. Kanewala, and I. Kahanda, “A Look Back at the Quality of Protein Function Prediction Tools in CAFA”, (poster) (PDF)
  • M. Pourreza Shahri and I. Kahanda, “Evaluating the effectiveness of using literature features for automated protein phenotype prediction using PHENOstruct” [version 1; not peer reviewed], F1000Research 2018, 7:432 (poster) (doi: 10.7490/f1000research.1115370.1) (PDF)
  • M. Pourreza Shahri, M. Srinivasan, U. Kanewala, and I. Kahanda, “Quality assurance of bioinformatics software” [version 1; not peer reviewed], F1000Research 2018, 7(ISCB Comm J):480 (poster) (doi: 10.7490/f1000research.1115396.1) (PDF)