Models, Inference & Algorithms Seminar
Broad Institute of MIT and Harvard, Cambridge, United States
Characterizing homology-induced data leakage and memorization in genome-trained sequence models
2026
Talks
Talks, posters and workshops.
Invited
Invited talks.
Biomedical Horizons Seminar Series
IBM Thomas J. Watson Research Center, New York, United States
From inflated benchmarks to trustworthy predictions: addressing reliability in genomic models
2025
London SynBio Network Meeting
Imperial College London, London, United Kingdom
A community effort to optimize sequence-based deep learning models of gene regulation
2025
Genentech internal seminar
South San Francisco, United States
A community effort to optimize sequence-based deep learning models of gene regulation
2025 Online
Deep Learning in Genomics Journal Club
Johns Hopkins University
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024–2025 Online
IGVF Consortium, Machine Learning Focus Group Journal Club
IGVF Consortium
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024–2025 Online
Kipoi Seminar
Kipoi community
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024–2025 Online
Guest lecture, ELEC 8280: Image Processing
University of Windsor, Windsor, Canada
Tumor segmentation from CT scans using deep learning
2021
Contributed
Conference and meeting talks.
MASSIV 1.0 — Advanced Synthetic Biology and Systems Bioengineering
Vancouver, Canada
Characterizing homology-induced data leakage and memorization in genome-trained sequence models
2026
UBC Life Sciences Symposium
Vancouver, Canada
Characterizing homology-induced data leakage and memorization in genome-trained sequence models
2026
ISMB/ECCB 2025
Liverpool, United Kingdom
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2025
Tom Ellis Lab, Imperial College London
London, United Kingdom
Beyond the genome: engineering and modeling synthetic DNA to uncover cis-regulatory logic
2025
Biological Data Science
Cold Spring Harbor Laboratory, New York, United States
A community effort to optimize sequence-based deep learning models of gene regulation
2025
AI in Molecular Biology, Keystone Symposia
Santa Fe, United States
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024–2025
Kundaje Lab Journal Club
Stanford University, Stanford, United States
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024–2025
Kelley Group Journal Club
Calico Life Sciences, South San Francisco, United States
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024–2025
Pacific Northwest Yeast Club Meeting
Fred Hutchinson Cancer Center, Seattle, United States
Evaluation and optimization of sequence-based gene regulatory deep learning models
2024
14th RECOMB/ISCB Conference on Regulatory & Systems Genomics with DREAM Challenges
Las Vegas, United States
Predicting gene expression using random promoter sequences — challenge overview
2022
Advances in Image Manipulation Workshop, ECCV 2020
ECCV 2020
L2-constrained RemNet for camera model identification and image manipulation detection
2020 Online
Second International Workshop on Thoracic Image Analysis, MICCAI 2020
MICCAI 2020
Lung cancer tumor region segmentation using recurrent 3D-DenseUNet
2020 Online
IEEE International Conference on Image Processing
Athens, Greece
IEEE SPS Video and Image Processing Cup 2018 — final round
2018
4th IEEE WIECON-ECE Conference
Thailand
Shongket: Bengali sign language alphabet interpreter for the deaf community in Bangladesh
2018 Online
Posters
Selected posters.
90th Cold Spring Harbor Symposium on Quantitative Biology (AI in Biology)
New York, United States
gRely: reliability estimation of variant effect predictions for genome-trained models
2026
90th Cold Spring Harbor Symposium on Quantitative Biology (AI in Biology)
New York, United States
Evaluation of active learning selection strategies and characterization of informative sequences
2026
Biological Data Science
Cold Spring Harbor Laboratory, New York, United States
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024
23rd European Conference on Computational Biology
Turku, Finland
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024
Machine Learning in Computational Biology
Seattle, United States
Detecting and avoiding homology-based data leakage in genome-trained sequence models
2024
Machine Learning in Computational Biology
Seattle, United States
Evaluation and optimization of sequence-based gene regulatory deep learning models
2023
Kipoi Summit
Zugspitze, Germany
Evaluation and optimization of sequence-based gene regulatory deep learning models
2023
Media Forensics Workshop, CVPR 2019
Long Beach, United States
Application of DenseNet in camera model identification and post-processing detection
2019
Workshops
Workshops I have run.
Hands-on sessions on building and using sequence-based gene regulatory models.
IEEE EMBS Region 9 Conference
Guadalajara, Mexico
Invited three-hour workshop on designing sequence-based gene regulatory deep learning models.
Oct 2023
Advanced Genomics & Genome Engineering Workshop
Michael Smith Laboratories, UBC
Invited 30-minute lecture on designing sequence-based gene regulatory deep learning models.
Sep 2023
Machine Learning for Genome Editing
Stem Cell Network, Canada (online)
Invited 90-minute workshop: using publicly available ML models for genome editing experiments, training networks on sequence-to-expression data from massively parallel reporter assays, and showing when simpler models outperform complex neural networks.
Jun 2023