Detailed Program

Zoom Link

If you are registered or invited, you should have got an email with the Zoom link.
We welcome everyone who is interested in attending BIOKDD 2020 remotely, but we cannot share the Zoom password in this public website for security reasons. Please email Da Yan at for the connection information.

The time is in PDT – Pacific Daylight Time

Opening (8:00 am - 8:10 am)

Time Event
8:00 am - 8:05 am Welcome Remarks    (by Program Co-Chair:  Da Yan)
8:05 am - 8:10 am Opening Remarks    (by General Chair:  Jake Chen)

Session 1: Bioinformatics (8:10 am - 10:00 am, Chair: Hong Qin) [video]

Time Talk
8:10 pm - 8:30 pm Invited talk: Reconstruct cell phenotype transition dynamics from single cell data.
Invited speaker: Jianhua Xing.
8:30 pm - 8:50 pm Invited talk: Human leukocyte antigen susceptibility map for SARS-CoV-2.
Invited speaker: Reid Thompson.
8:50 pm - 9:10 pm Invited talk: Genetic spectrum and distinct evolution patterns of SARS-CoV-2. [slides]
Invited speaker: Jun Wan.
9:10 pm - 9:30 pm #28. Identifying Taxonomic Units in Metagenomic DNA Streams. [video]
Vicky Zheng, A. Erdem Sarıyüce and Jaroslaw Zola.
9:30 pm - 9:50 pm #33. Using Outliers to Find Genes Relevant for Basal Breast Cancer. [video]
Rayol Mendonca-Neto, David Fenyö, Fabiola Nakamura and Eduardo Nakamura.
9:30 pm - 9:50 pm Session Break

Session 2: Data Curation (10:00 am - 12:00 pm, Chair: Hong Qin) [video]

Time Talk
10:00 am - 10:20 am Invited talk: PAGER-CoV: An Online Curated Gene Signature Database Resource for Coronavirus Disease Functional Genomic Studies.
Invited speaker: Jake Y. Chen.
10:20 am - 10:40 am #10. Biomedical Knowledge Graph of COVID-19: Construction and Applications. [video]
Shuangjia Zheng, Jixian Zhang, Jiahua Rao, Xianglu Xiao, Wade Menpes-Smith, Jake Y. Chen, Yuedong Yang and Zhangming Niu.
10:40 am - 11:00 am #13. CovidNet: To Bring Data Transparency in the Era of COVID-19. [video]
Tong Yang, Kai Shen, Sixuan He, Enyu Li, Peter Sun, Lin Zuo, Jiayue Hu, Yiwen Mo, Weiwei Zhang, Pingying Chen, Haonan Zhang, Jingxue Chen and Yu Guo.
11:00 am - 11:20 am #23. emrKBQA: Towards Creating a Clinical Knowledge Base Question Answering Dataset.
Rachita Chandra, Preethi Raghavan, Jennifer Liang and Peter Szolovits.
11:20 am - 12:00 pm #27. Curation at Scale: Computational approaches to support curation in LitCovid. [video]
Qingyu Chen, Alexis Allot and Zhiyong Lu.

Lunch Break and Networking (12:00 pm - 1:00 pm, Chair: Jake Chen) [video]

Time Event
12:00 pm - 1:00 pm Recommended Topics    (Chair:  Jake Chen)
1. How can the KDD community fight COVID-19?    Resource: U-Brite
2. How would you like to see BIOKDD to evolve in the future?

Session 3: Deep Learning with Biomedical Data (1:00 pm - 3:00 pm, Chair: Da Yan) [video]

Time Talk
1:00 pm - 1:20 pm Invited talk: Deep Learning for Biomedical and Science Time Series.
Invited speaker: Geoffrey Charles Fox.
1:20 pm - 1:40 pm #17. Cross Attention DTI: Drug-Target Interaction Prediction with Cross Attention module in the Blind Evaluation Setup. [video]
Kyohei Koyama, Kotaro Kamiya and Koki Shimada.
1:40 pm - 2:00 pm #26. A Deep Learning Pipeline for Patient Diagnosis Prediction Using Electronic Health Records. [video]
Leopold Franz, Yash Raj Shrestha and Bibek Paudel.
2:00 pm - 2:20 pm #29. MGATRx: Discovering Drug Repositioning Candidates Using Multi-view Graph Attention. [video]
Jaswanth Yella and Anil Jegga.
2:20 pm - 2:40 pm #31. Explainable CNN-attention Networks (C-Attention Network) for Automated Detection of Alzheimer’s Disease. [video]
Ning Wang, Mingxuan Chen and Koduvayur P Subbalakshmi.
2:40 pm - 3:00 pm #35. SODA: Detecting Covid-19 in Chest X-rays with Semi-supervised Open Set Domain Adaptation. [video]
Jieli Zhou, Baoyu Jing and Zeya Wang.

Session 4: Data Mining & Statistical Methods
(3:00 pm - 5:00 pm, Chair: Hsiang-Yun Wu) [video]

Time Talk
3:00 pm - 3:20 pm Invited talk: Analysis of the Mount Sinai Health System EMR reveals racial disparities and identified prognostic factors in the COVID-19 hospitalized patient population.
Invited speaker: Li Li.
3:20 pm - 3:40 pm Invited talk: VRNetzer: A Virtual Reality Network Analysis Platform.
Invited talk: Jörg Menche.
3:40 pm - 4:00 pm #7. Scalable Bayesian Functional Connectivity Inference for Multi-Electrode Array Recordings. [video]
Yun Zhao, Richard Jiang, Zhenni Xu, Elmer Guzman, Paul K. Hansma and Linda Petzold.
4:00 pm - 4:20 pm #22. Learning Prognostic Models using Disease Progression Patterns: Predicting the Need for Non-Invasive Ventilation in Amyotrophic Lateral Sclerosis. [video]
Andreia S. Martins, Marta Gromicho, Susana Pinto, Mamede de Carvalho and Sara Madeira.
4:20 pm - 4:40 pm #34. A Data-driven Approach for Assessing the Impact of Re-opening Order and Non-pharmaceutical Interventions on the Spread of COVID-19 using Time-dependent SEIR Model. [video], [slides]
Fauziya Yakasai, Ismail Abdulrashid, Yuexin Li, Nedret Billor, Yang Zhou and Jingyi Zheng.
4:40 pm - 5:00 pm Assessing reliable COVID-19 infected number: the Italian case.
Giuseppe Tradigo, Pietro Hiram Guzzi, Tamer Kahveci and Pierangelo Veltri.