Neural networks are known to develop latent representations that are $aligned$, namely structurally similar across networks trained with different architectures, training protocols, or training datasets. We study this phenomenon in a controlled setting, where we train an ensemble of networks on regression and classification tasks using training sets perturbed by independent realizations of a noise process. We show that the signal-to-noise ratio (SNR) and the training sample size influence the alignment in qualitatively similar ways in networks trained on real-world datasets and in an extremely simple $linear$ network with a single hidden layer, for which the alignment can be estimated analytically. Across linear and nonlinear networks, regression and classification tasks, and both synthetic and real-world data, we consistently observe that alignment varies monotonically with SNR but non-monotonically with training sample size. In particular, the alignment is minimized near the interpolation threshold, and a stronger alignment does not necessarily correspond to better generalization error. These findings reveal a non-trivial dependence of alignment on data quality and quantity, decoupled from generalization performance.

We present a theoretically grounded Gaussian process framework that leverages neural feature maps to construct expressive kernels. We show that the learned feature map can be interpreted as an optimal low-rank approximation to a Gram matrix derived from an implied RKHS, from which we establish consistency of the GP posterior. We further analyse the spectral properties of the induced kernels and introduce product feature-map kernels to address oversmoothing. This simple yet powerful approach enables fast, scalable, and accurate exact GP inference with minimal upfront work. The flexibility of kernel design supports seamless application to both regression and classification tasks across diverse data modalities, including tabular inputs and structured domains such as images.

Positive-unlabeled (PU) learning addresses binary classification when only a set of labeled positives is available alongside a pool of unlabeled samples drawn from a mixture of positives and negatives. Existing PU methods typically require dataset-specific training or iterative optimization, which limits their applicability when many tasks must be solved quickly or with little tuning. We introduce PUICL, a pretrained transformer that solves PU classification entirely through in-context learning. PUICL is pretrained on synthetic PU datasets generated from randomly instantiated structural causal models, exposing it to a wide range of feature-label relationships and class-prior configurations. At inference time, PUICL receives the labeled positives and the unlabeled samples as a single input and returns class probabilities for the unlabeled rows in one forward pass, with no gradient updates or per-task fitting. On 20 semi-synthetic PU benchmarks derived from the UCI Machine Learning Repository, OpenML, and scikit-learn, PUICL outperforms four standard PU learning baselines in average AUC and accuracy, and is competitive on F1-score. These results show that the in-context learning paradigm extends naturally beyond fully supervised tabular prediction to the semi-supervised PU setting.

Large language models (LLMs) exhibit in-context learning abilities which enable the same model to perform several tasks without any task-specific training. In contrast, traditional adaptation approaches, such as fine-tuning, modify the underlying models for each specific task. In-context learning, however, consistently underperforms task-specific tuning approaches even when presented with the same examples. While most existing approaches (e.g., prompt engineering) focus on the LLM's learned representations to patch this performance gap, our experiments actually reveal that LLM representations contain sufficient information to make good predictions. As such, we focus on the LLM's reasoning abilities and demonstrate that this performance gap exists due to their inability to perform simple probabilistic reasoning tasks. This raises an intriguing question: Are LLMs actually capable of learning how to reason in a task-agnostic manner? We answer this in the affirmative and, as a proof of concept, propose TART which generically improves an LLM's reasoning abilities using a synthetically trained reasoning module.

B.1 Complexity Analysis Denote the number of nodes and edges in the graph as N and E, the number of latent factors as K, the number of operation choices as |O|, the dimensionality of hidden representations as d. The time complexity of the disentangled super-network is O(K|E|d+K|V|d2), where the computation for each factor is fully parallelizable and amenable to GPU acceleration, and K is usually a small constant. The time complexity of the self-supervised training and contrastive search modules is both O(K2d2). As architectures under different factors share the parameters, the number of learnable parameters is the same as classical graph super-network, i.e., O(|O|d2). Therefore, the complexity of our method is comparable to classical GNAS methods.

Hyponatremia: Predict whether a hyponatremia lab comes back as normal (>=135 mmol/L), mild (>=130 and <135 mmol/L), moderate (>=125 and <130 mmol/L), or severe (<125 mmol/L). We consider all lab results coded as LOINC/LG11363-5, LOINC/2951-2, or LOINC/2947-0. Anemia: Predict whether an anemia lab comes back as normal (>=120 g/L), mild (>=110 and <120 g/L), moderate (>=70 and <110 g/L), or severe (<70 g/L). We consider all lab results coded as LOINC/LP392452-1. Please note that for the results of our baseline experiments in Section 5, we reframe these lab value tasks as binary classification tasks, where a label is "negative" if the result is normal and "positive" otherwise.

Similar to natural language models, researchers have proposed foundation models in genomics to learn generalizable features from unlabeled genome data that can then be fine-tuned for downstream tasks such as identifying regulatory elements. Due to the quadratic scaling of attention, previous Transformer-based genomic models have used 512 to 4k tokens as context (<0.001% of the human genome), significantly limiting the modeling of long-range interactions in DNA. In addition, these methods rely on tokenizers or fixed k-mers to aggregate meaningful DNA units, losing single nucleotide resolution (i.e. DNA "characters") where subtle genetic variations can completely alter protein function via single nucleotide polymorphisms (SNPs). Recently, Hyena, a large language model based on implicit convolutions was shown to match attention in quality while allowing longer context lengths and lower time complexity.