Edward H. Lee

Edward H. Lee, Brendan Kelly, Emre Altinmakas et al.

While it is well known that population differences from genetics, sex, race, and environmental factors contribute to disease, AI studies in medicine have largely focused on locoregional patient cohorts with less diverse data sources. Such limitation stems from barriers to large-scale data share and ethical concerns over data privacy. Federated learning (FL) is one potential pathway for AI development that enables learning across hospitals without data share. In this study, we show the results of various FL strategies on one of the largest and most diverse COVID-19 chest CT datasets: 21 participating hospitals across five continents that comprise >10,000 patients with >1 million images. We also propose an FL strategy that leverages synthetically generated data to overcome class and size imbalances. We also describe the sources of data heterogeneity in the context of FL, and show how even among the correctly labeled populations, disparities can arise due to these biases.

Edward H. Lee, Mario Michael Krell, Alexander Tsyplikhin et al.

Differentially private SGD (DPSGD) has recently shown promise in deep learning. However, compared to non-private SGD, the DPSGD algorithm places computational overheads that can undo the benefit of batching in GPUs. Micro-batching is a common method to alleviate this and is fully supported in the TensorFlow Privacy library (TFDP). However, it degrades accuracy. We propose NanoBatch Privacy, a lightweight add-on to TFDP to be used on Graphcore IPUs by leveraging batch size of 1 (without microbatching) and gradient accumulation. This allows us to achieve large total batch sizes with minimal impacts to throughput. Second, we illustrate using Cifar-10 how larger batch sizes are not necessarily optimal from a privacy versus utility perspective. On ImageNet, we achieve more than 15x speedup over TFDP versus 8x A100s and significant speedups even across libraries such as Opacus. We also provide two extensions: 1) DPSGD for pipelined models and 2) per-layer clipping that is 15x faster than the Opacus implementation on 8x A100s. Finally as an application case study, we apply NanoBatch training for use on private Covid-19 chest CT prediction.

Liyue Shen, Katie Shpanskaya, Edward Lee et al.

Fetal brain imaging is a cornerstone of prenatal screening and early diagnosis of congenital anomalies. Knowledge of fetal gestational age is the key to the accurate assessment of brain development. This study develops an attention-based deep learning model to predict gestational age of the fetal brain. The proposed model is an end-to-end framework that combines key insights from multi-view MRI including axial, coronal, and sagittal views. The model also uses age-activated weakly-supervised attention maps to enable rotation-invariant localization of the fetal brain among background noise. We evaluate our methods on the collected fetal brain MRI cohort with a large age distribution from 125 to 273 days. Our extensive experiments show age prediction performance with R2 = 0.94 using multi-view MRI and attention.

Daisuke Miyashita, Edward H. Lee, Boris Murmann

Recent advances in convolutional neural networks have considered model complexity and hardware efficiency to enable deployment onto embedded systems and mobile devices. For example, it is now well-known that the arithmetic operations of deep networks can be encoded down to 8-bit fixed-point without significant deterioration in performance. However, further reduction in precision down to as low as 3-bit fixed-point results in significant losses in performance. In this paper we propose a new data representation that enables state-of-the-art networks to be encoded to 3 bits with negligible loss in classification performance. To perform this, we take advantage of the fact that the weights and activations in a trained network naturally have non-uniform distributions. Using non-uniform, base-2 logarithmic representation to encode weights, communicate activations, and perform dot-products enables networks to 1) achieve higher classification accuracies than fixed-point at the same resolution and 2) eliminate bulky digital multipliers. Finally, we propose an end-to-end training procedure that uses log representation at 5-bits, which achieves higher final test accuracy than linear at 5-bits.