Missingness Bias Calibration in Feature Attribution Explanations

Occlusion-based attribution methods provide an intuitive way to estimate feature importance by perturbing input features and measuring the resulting change in model output. However, their reliability is strongly affected by how feature removal is implemented: externally selected baselines can introduce bias, out-of-distribution samples, and unstable explanations, while in nonlinear models the occlusion of a set of features can also alter the contribution of non-occluded features. We refer to this effect as attribution shift, as the attribution scores of the non-occluded features drift from their initial values. To challenge these major issues that render explanations unstable, we introduce XtrAIn, a training-guided attribution method that transfers the occlusion operation from the input space to the parameter space. Instead of replacing input values with hand-crafted baselines, XtrAIn follows the model's training trajectory and measures how feature-associated parameter updates affect the output logits. We further introduce Xstep, a lightweight approximation for reducing computational cost, and XtrAIn+, a target-focused variant that emphasizes updates aligned with the target class. Experiments on controlled image datasets and PAM50 breast-cancer subtype classification show that the proposed methods produce cleaner and more interpretable attribution patterns than standard attribution baselines. Overall, XtrAIn provides a training-aware perspective on feature attribution and offers a useful diagnostic tool for studying how feature-level evidence is formed during training.

Explainable artificial intelligence (XAI) aims to provide human-interpretable insights into the behavior of deep neural networks (DNNs), typically by estimating a simplified causal structure of the model. In existing work, this causal structure often includes relationships where the presence of a concept is associated with a strong activation of a neuron. For example, attribution methods primarily identify input pixels that contribute most to a prediction, and feature visualization methods reveal inputs that cause high activation of a target neuron - the former implicitly assuming that the relevant information resides in the input, and the latter that neurons encode the presence of concepts. However, a largely overlooked type of causal relationship is that of encoded absences, where the absence of a concept increases neural activation. In this work, we show that such missing but relevant concepts are common and that mainstream XAI methods struggle to reveal them when applied in their standard form. To address this, we propose two simple extensions to attribution and feature visualization techniques that uncover encoded absences. Across experiments, we show how mainstream XAI methods can be used to reveal and explain encoded absences, how ImageNet models exploit them, and that debiasing can be improved when considering them.

Attribution methods in explainable AI rely on upsampling techniques that were designed for natural images, not saliency maps. Standard bilinear and bicubic interpolation systematically corrupts attribution signals through aliasing, ringing, and boundary bleeding, producing spurious high-importance regions that misrepresent model reasoning. We identify that the core issue is treating attribution upsampling as an interpolation problem that operates in isolation from the model's reasoning, rather than a mass redistribution problem where model-derived semantic boundaries must govern how importance flows. We present Universal Semantic-Aware Upsampling (USU), a principled method that reformulates upsampling through ratio-form mass redistribution operators, provably preserving attribution mass and relative importance ordering. Extending the axiomatic tradition of feature attribution to upsampling, we formalize four desiderata for faithful upsampling and prove that interpolation structurally violates three of them. These same three force any redistribution operator into a ratio form; the fourth selects the unique potential within this family, yielding USU. Controlled experiments on models with known attribution priors verify USU's formal guarantees; evaluation across ImageNet, CIFAR-10, and CUB-200 confirms consistent faithfulness improvements and qualitatively superior, semantically coherent explanations.