CSAIL at TREC 2007 Question Answering. - Boris Katz; Sue Felshin; Gregory Marton; Federico Mora 001; Yuan Kui Shen; Gabriel Zaccak; Ammar Ammar; Eric Eisner; Asli Turgut; Linda Brown Westrick (TREC, 2007)

Ranking: Compare, don't score. - Ammar Ammar; Devavrat Shah (Allerton, 2011)

Efficient rank aggregation using partial data. - Ammar Ammar; Devavrat Shah (SIGMETRICS, 2012)

What's your choice?: learning the mixed multi-nomial. - Ammar Ammar; Sewoong Oh; Devavrat Shah; Luis Filipe Voloch (SIGMETRICS, 2014)

Ranked personalized recommendations using discrete choice models. - Ammar Ammar (2015)

Fact Validation with Knowledge Graph Embeddings. - Ammar Ammar; Remzi Celebi (ISWC (Satellites), 2019)

A Methodology for Hierarchical Classification of Semantic Answer Types of Questions. - Ammar Ammar; Shervin Mehryar; Remzi Celebi (SMART@ISWC, 2020)

Semantic Answer Type Prediction by Using BERT classifier and Rule-based Ranking Strategies. - Xiao Ning; Ammar Ammar; Arif Yilmaz; Shervin Mehryar; Remzi Celebi (SMART@ISWC, 2021)

WikiPathways: connecting communities. - Marvin Martens; Ammar Ammar; Anders Riutta; Andra Waagmeester; Denise N. Slenter; Kristina Hanspers; Ryan A. Miller; Daniela Digles; Elisson N. Lopes; Friederike Ehrhart; Lauren J. Dupuis; Laurent A. Winckers; et al. (Nucleic Acids Res., 2021)

PSnpBind: a database of mutated binding site protein-ligand complexes constructed using a multithreaded virtual screening workflow. - Ammar Ammar; Rachel Cavill; Chris T. A. Evelo; Egon L. Willighagen (J. Cheminformatics, 2022)

PSnpBind-ML: predicting the effect of binding site mutations on protein-ligand binding affinity. - Ammar Ammar; Rachel Cavill; Chris T. A. Evelo; Egon L. Willighagen (J. Cheminformatics, 2023)

BioDataFuse: Enhancing data interoperability through modular queries and knowledge graph construction. - Tooba Abbassi-Daloii; Yojana Gadiya; Ammar Ammar; Egon L. Willighagen; Ana Claudia Sima; Hasan Balci (SWAT4HCLS, 2024)

Nanosafety data made interoperable using semantic modeling and linked-data knowledge graphs. - Ammar Ammar; Egon L. Willighagen (SWAT4HCLS, 2024)

From papers to RDF-based integration of physicochemical data and adverse outcome pathways for nanomaterials. - Jeaphianne P. M. van Rijn; Marvin Martens; Ammar Ammar; Mihaela Roxana Cimpan; Valerie Fessard; Peter Hoet; Nina Jeliazkova; Sivakumar Murugadoss; Ivana Vinkovic Vrcek; Egon L. Willighagen (J. Cheminformatics, 2024)