AGMDT: Virtual Staining of Renal Histology Images with Adjacency-Guided Multi-Domain Transfer

Renal pathology, as the gold standard of kidney disease diagnosis, requires doctors to analyze a series of tissue slices stained by H&E staining and special staining like Masson, PASM, and PAS, respectively. These special staining methods are costly, time-consuming, and hard to standardize for wide use especially in primary hospitals. Advances of supervised learning methods have enabled the virtually conversion of H&E images into special staining images, but achieving pixel-to-pixel alignment for training remains challenging. In contrast, unsupervised learning methods regarding different stains as different style transfer domains can utilize unpaired data, but they ignore the spatial inter-domain correlations and thus decrease the trustworthiness of structural details for diagnosis. In this paper, we propose a novel virtual staining framework AGMDT to translate images into other domains by avoiding pixel-level alignment and meanwhile utilizing the correlations among adjacent tissue slices. We first build a high-quality multi-domain renal histological dataset where each specimen case comprises a series of slices stained in various ways. Based on it, the proposed framework AGMDT discovers patch-level aligned pairs across the serial slices of multi-domains through glomerulus detection and bipartite graph matching, and utilizes such correlations to supervise the end-to-end model for multi-domain staining transformation. Experimental results show that the proposed AGMDT achieves a good balance between the precise pixel-level alignment and unpaired domain transfer by exploiting correlations across multi-domain serial pathological slices, and outperforms the state-of-the-art methods in both quantitative measure and morphological details.

Follow the Prophet: Accurate Online Conversion Rate Prediction in the Face of Delayed Feedback

The delayed feedback problem is one of the imperative challenges in online advertising, which is caused by the highly diversified feedback delay of a conversion varying from a few minutes to several days. It is hard to design an appropriate online learning system under these non-identical delay for different types of ads and users. In this paper, we propose to tackle the delayed feedback problem in online advertising by "Following the Prophet" (FTP for short). The key insight is that, if the feedback came instantly for all the logged samples, we could get a model without delayed feedback, namely the "prophet". Although the prophet cannot be obtained during online learning, we show that we could predict the prophet's predictions by an aggregation policy on top of a set of multi-task predictions, where each task captures the feedback patterns of different periods. We propose the objective and optimization approach for the policy, and use the logged data to imitate the prophet. Extensive experiments on three real-world advertising datasets show that our method outperforms the previous state-of-the-art baselines.

Towards reliable and fair probabilistic predictions: field-aware calibration with neural networks

In machine learning, it is observed that probabilistic predictions sometimes disagree with averaged actual outcomes on certain subsets of data. This is also known as miscalibration that is responsible for unreliability and unfairness of practical machine learning systems. In this paper, we put forward an evaluation metric for calibration, coined field-level calibration error, that measures bias in predictions over the input fields that the decision maker concerns. We show that existing calibration methods perform poorly under our new metric. Specifically, after learning a calibration mapping over the validation dataset, existing methods have limited improvements in our error metric and completely fail to improve other non-calibration metrics such as the AUC score. We propose Neural Calibration, a new calibration method, which learns to calibrate by making full use of all input information over the validation set. We test our method on five large-scale real-world datasets. The results show that Neural Calibration significantly improves against uncalibrated predictions in all well-known metrics such as the negative log-likelihood, the Brier score, the AUC score, as well as our proposed field-level calibration error.

A Machine Learning Alternative to P-values

This paper presents an alternative approach to p-values in regression settings. This approach, whose origins can be traced to machine learning, is based on the leave-one-out bootstrap for prediction error. In machine learning this is called the out-of-bag (OOB) error. To obtain the OOB error for a model, one draws a bootstrap sample and fits the model to the in-sample data. The out-of-sample prediction error for the model is obtained by calculating the prediction error for the model using the out-of-sample data. Repeating and averaging yields the OOB error, which represents a robust cross-validated estimate of the accuracy of the underlying model. By a simple modification to the bootstrap data involving "noising up" a variable, the OOB method yields a variable importance (VIMP) index, which directly measures how much a specific variable contributes to the prediction precision of a model. VIMP provides a scientifically interpretable measure of the effect size of a variable, we call the "predictive effect size", that holds whether the researcher's model is correct or not, unlike the p-value whose calculation is based on the assumed correctness of the model. We also discuss a marginal VIMP index, also easily calculated, which measures the marginal effect of a variable, or what we call "the discovery effect". The OOB procedure can be applied to both parametric and nonparametric regression models and requires only that the researcher can repeatedly fit their model to bootstrap and modified bootstrap data. We illustrate this approach on a survival data set involving patients with systolic heart failure and to a simulated survival data set where the model is incorrectly specified to illustrate its robustness to model misspecification.

Estimating Individual Treatment Effect in Observational Data Using Random Forest Methods

Estimation of individual treatment effect in observational data is complicated due to the challenges of confounding and selection bias. A useful inferential framework to address this is the counterfactual (potential outcomes) model which takes the hypothetical stance of asking what if an individual had received both treatments. Making use of random forests (RF) within the counterfactual framework we estimate individual treatment effects by directly modeling the response. We find accurate estimation of individual treatment effects is possible even in complex heterogeneous settings but that the type of RF approach plays an important role in accuracy. Methods designed to be adaptive to confounding, when used in parallel with out-of-sample estimation, do best. One method found to be especially promising is counterfactual synthetic forests. We illustrate this new methodology by applying it to a large comparative effectiveness trial, Project Aware, in order to explore the role drug use plays in sexual risk. The analysis reveals important connections between risky behavior, drug usage, and sexual risk.

Rotational Projection Statistics for 3D Local Surface Description and Object Recognition

Recognizing 3D objects in the presence of noise, varying mesh resolution, occlusion and clutter is a very challenging task. This paper presents a novel method named Rotational Projection Statistics (RoPS). It has three major modules: Local Reference Frame (LRF) definition, RoPS feature description and 3D object recognition. We propose a novel technique to define the LRF by calculating the scatter matrix of all points lying on the local surface. RoPS feature descriptors are obtained by rotationally projecting the neighboring points of a feature point onto 2D planes and calculating a set of statistics (including low-order central moments and entropy) of the distribution of these projected points. Using the proposed LRF and RoPS descriptor, we present a hierarchical 3D object recognition algorithm. The performance of the proposed LRF, RoPS descriptor and object recognition algorithm was rigorously tested on a number of popular and publicly available datasets. Our proposed techniques exhibited superior performance compared to existing techniques. We also showed that our method is robust with respect to noise and varying mesh resolution. Our RoPS based algorithm achieved recognition rates of 100%, 98.9%, 95.4% and 96.0% respectively when tested on the Bologna, UWA, Queen's and Ca' Foscari Venezia Datasets.