Biomedical discovery through the integrative biomedical knowledge hub (iBKH)
Chang Su,
Yu Hou,
Manqi Zhou,
Suraj Rajendran,
Jacqueline R.M. A. Maasch,
Zehra Abedi,
Haotan Zhang,
Zilong Bai,
Anthony Cuturrufo,
Winston Guo,
Fayzan F. Chaudhry,
Gregory Ghahramani,
Jian Tang,
Feixiong Cheng,
Yue Li,
Rui Zhang,
Steven T. DeKosky,
Jiang Bian,
Fei Wang
Affiliations
Chang Su
Department of Health Service Administration and Policy, College of Public Health, Temple University, Philadelphia, PA 19122, USA
Yu Hou
Department of Population Health Sciences, Weill Cornell Medicine, New York, NY 10065, USA; Department of Surgery, University of Minnesota, Minneapolis, MN 55455, USA
Manqi Zhou
Department of Computational Biology, Cornell University, Ithaca, NY 14850, USA
Suraj Rajendran
Tri-Institutional Computational Biology & Medicine Program, Cornell University, New York, NY 10065, USA
Jacqueline R.M. A. Maasch
Department of Computer Science, Cornell Tech, New York, NY 10044, USA
Zehra Abedi
Department of Population Health Sciences, Weill Cornell Medicine, New York, NY 10065, USA
Haotan Zhang
Department of Physiology and Biophysics, Weill Cornell Medicine, New York, NY 10065, USA
Zilong Bai
Department of Population Health Sciences, Weill Cornell Medicine, New York, NY 10065, USA
Anthony Cuturrufo
Computer Science, Cornell University, Ithaca, NY 14850, USA
Winston Guo
Department of Medicine, Weill Cornell Medicine, New York, NY 10021, USA
Fayzan F. Chaudhry
Department of Physiology and Biophysics, Weill Cornell Medicine, New York, NY 10065, USA
Gregory Ghahramani
Department of Physiology and Biophysics, Weill Cornell Medicine, New York, NY 10065, USA
Jian Tang
Mila-Quebec AI Institute and HEC Montreal, Montreal, QC H2S 3H1, Canada
Feixiong Cheng
Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195, USA; Department of Molecular Medicine, Cleveland Clinic Lerner College of Medicine, Case Western Reserve University, Cleveland, OH 44195, USA; Case Comprehensive Cancer Center, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA
Yue Li
School of Computer Science, McGill University, Montreal, QC H3A 0C6, Canada
Rui Zhang
Department of Surgery, University of Minnesota, Minneapolis, MN 55455, USA
Steven T. DeKosky
Department of Neurology, College of Medicine, University of Florida, Gainesville, FL 32610, USA
Jiang Bian
Department of Health Outcomes & Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL 32610, USA
Fei Wang
Department of Population Health Sciences, Weill Cornell Medicine, New York, NY 10065, USA; Corresponding author
Summary: The abundance of biomedical knowledge gained from biological experiments and clinical practices is an invaluable resource for biomedicine. The emerging biomedical knowledge graphs (BKGs) provide an efficient and effective way to manage the abundant knowledge in biomedical and life science. In this study, we created a comprehensive BKG called the integrative Biomedical Knowledge Hub (iBKH) by harmonizing and integrating information from diverse biomedical resources. To make iBKH easily accessible for biomedical research, we developed a web-based, user-friendly graphical portal that allows fast and interactive knowledge retrieval. Additionally, we also implemented an efficient and scalable graph learning pipeline for discovering novel biomedical knowledge in iBKH. As a proof of concept, we performed our iBKH-based method for computational in-silico drug repurposing for Alzheimer’s disease. The iBKH is publicly available.
