Ancient Script Image Recognition and Processing: A Review

Ancient scripts, e.g., Egyptian hieroglyphs, Oracle Bone Inscriptions, and Ancient Greek inscriptions, serve as vital carriers of human civilization, embedding invaluable historical and cultural information. Automating ancient script image recognition has gained importance, enabling large-scale interpretation and advancing research in archaeology and digital humanities. With the rise of deep learning, this field has progressed rapidly, with numerous script-specific datasets and models proposed. While these scripts vary widely, spanning phonographic systems with limited glyphs to logographic systems with thousands of complex symbols, they share common challenges and methodological overlaps. Moreover, ancient scripts face unique challenges, including imbalanced data distribution and image degradation, which have driven the development of various dedicated methods. This survey provides a comprehensive review of ancient script image recognition methods. We begin by categorizing existing studies based on script types and analyzing respective recognition methods, highlighting both their differences and shared strategies. We then focus on challenges unique to ancient scripts, systematically examining their impact and reviewing recent solutions, including few-shot learning and noise-robust techniques. Finally, we summarize current limitations and outline promising future directions. Our goal is to offer a structured, forward-looking perspective to support ongoing advancements in the recognition, interpretation, and decipherment of ancient scripts.

Fast and Low-Cost Genomic Foundation Models via Outlier Removal

We propose the first unified adversarial attack benchmark for Genomic Foundation Models (GFMs), named GERM. Unlike existing GFM benchmarks, GERM offers the first comprehensive evaluation framework to systematically assess the vulnerability of GFMs to adversarial attacks. Methodologically, we evaluate the adversarial robustness of five state-of-the-art GFMs using four widely adopted attack algorithms and three defense strategies. Importantly, our benchmark provides an accessible and comprehensive framework to analyze GFM vulnerabilities with respect to model architecture, quantization schemes, and training datasets. Empirically, transformer-based models exhibit greater robustness to adversarial perturbations compared to HyenaDNA, highlighting the impact of architectural design on vulnerability. Moreover, adversarial attacks frequently target biologically significant genomic regions, suggesting that these models effectively capture meaningful sequence features.

Learning to Instruct for Visual Instruction Tuning

We propose LIT, an advancement of visual instruction tuning (VIT). While VIT equips Multimodal LLMs (MLLMs) with promising multimodal capabilities, the current design choices for VIT often result in overfitting and shortcut learning, potentially degrading performance. This gap arises from an overemphasis on instruction-following abilities, while neglecting the proactive understanding of visual information. Inspired by this, LIT adopts a simple yet effective approach by incorporating the loss function into both the instruction and response sequences. It seamlessly expands the training data, and regularizes the MLLMs from overly relying on language priors. Based on this merit, LIT achieves a significant relative improvement of up to 9% on comprehensive multimodal benchmarks, requiring no additional training data and incurring negligible computational overhead. Surprisingly, LIT attains exceptional fundamental visual capabilities, yielding up to an 18% improvement in captioning performance, while simultaneously alleviating hallucination in MLLMs.

USE: Dynamic User Modeling with Stateful Sequence Models

User embeddings play a crucial role in user engagement forecasting and personalized services. Recent advances in sequence modeling have sparked interest in learning user embeddings from behavioral data. Yet behavior-based user embedding learning faces the unique challenge of dynamic user modeling. As users continuously interact with the apps, user embeddings should be periodically updated to account for users' recent and long-term behavior patterns. Existing methods highly rely on stateless sequence models that lack memory of historical behavior. They have to either discard historical data and use only the most recent data or reprocess the old and new data jointly. Both cases incur substantial computational overhead. To address this limitation, we introduce User Stateful Embedding (USE). USE generates user embeddings and reflects users' evolving behaviors without the need for exhaustive reprocessing by storing previous model states and revisiting them in the future. Furthermore, we introduce a novel training objective named future W-behavior prediction to transcend the limitations of next-token prediction by forecasting a broader horizon of upcoming user behaviors. By combining it with the Same User Prediction, a contrastive learning-based objective that predicts whether different segments of behavior sequences belong to the same user, we further improve the embeddings' distinctiveness and representativeness. We conducted experiments on 8 downstream tasks using Snapchat users' behavioral logs in both static (i.e., fixed user behavior sequences) and dynamic (i.e., periodically updated user behavior sequences) settings. We demonstrate USE's superior performance over established baselines. The results underscore USE's effectiveness and efficiency in integrating historical and recent user behavior sequences into user embeddings in dynamic user modeling.

DNABERT-S: Learning Species-Aware DNA Embedding with Genome Foundation Models

Effective DNA embedding remains crucial in genomic analysis, particularly in scenarios lacking labeled data for model fine-tuning, despite the significant advancements in genome foundation models. A prime example is metagenomics binning, a critical process in microbiome research that aims to group DNA sequences by their species from a complex mixture of DNA sequences derived from potentially thousands of distinct, often uncharacterized species. To fill the lack of effective DNA embedding models, we introduce DNABERT-S, a genome foundation model that specializes in creating species-aware DNA embeddings. To encourage effective embeddings to error-prone long-read DNA sequences, we introduce Manifold Instance Mixup (MI-Mix), a contrastive objective that mixes the hidden representations of DNA sequences at randomly selected layers and trains the model to recognize and differentiate these mixed proportions at the output layer. We further enhance it with the proposed Curriculum Contrastive Learning (C$^2$LR) strategy. Empirical results on 18 diverse datasets showed DNABERT-S's remarkable performance. It outperforms the top baseline's performance in 10-shot species classification with just a 2-shot training while doubling the Adjusted Rand Index (ARI) in species clustering and substantially increasing the number of correctly identified species in metagenomics binning. The code, data, and pre-trained model are publicly available at https://github.com/Zhihan1996/DNABERT_S.

Designing and Evaluating General-Purpose User Representations Based on Behavioral Logs from a Measurement Process Perspective: A Case Study with Snapchat

In human-computer interaction, understanding user behaviors and tailoring systems accordingly is pivotal. To this end, general-purpose user representation learning based on behavior logs is emerging as a powerful tool in user modeling, offering adaptability to various downstream tasks such as item recommendations and ad conversion prediction, without the need to fine-tune the upstream user model. While this methodology has shown promise in contexts like search engines and e-commerce platforms, its fit for instant messaging apps, a cornerstone of modern digital communication, remains largely uncharted. These apps, with their distinct interaction patterns, data structures, and user expectations, necessitate specialized attention. We explore this user modeling approach with Snapchat data as a case study. Furthermore, we introduce a novel design and evaluation framework rooted in the principles of the Measurement Process Framework from social science research methodology. Using this new framework, we design a Transformer-based user model that can produce high-quality general-purpose user representations for instant messaging platforms like Snapchat.

Combating Representation Learning Disparity with Geometric Harmonization

Self-supervised learning (SSL) as an effective paradigm of representation learning has achieved tremendous success on various curated datasets in diverse scenarios. Nevertheless, when facing the long-tailed distribution in real-world applications, it is still hard for existing methods to capture transferable and robust representation. Conventional SSL methods, pursuing sample-level uniformity, easily leads to representation learning disparity where head classes dominate the feature regime but tail classes passively collapse. To address this problem, we propose a novel Geometric Harmonization (GH) method to encourage category-level uniformity in representation learning, which is more benign to the minority and almost does not hurt the majority under long-tailed distribution. Specially, GH measures the population statistics of the embedding space on top of self-supervised learning, and then infer an fine-grained instance-wise calibration to constrain the space expansion of head classes and avoid the passive collapse of tail classes. Our proposal does not alter the setting of SSL and can be easily integrated into existing methods in a low-cost manner. Extensive results on a range of benchmark datasets show the effectiveness of GH with high tolerance to the distribution skewness. Our code is available at https://github.com/MediaBrain-SJTU/Geometric-Harmonization.

Efficient Action Robust Reinforcement Learning with Probabilistic Policy Execution Uncertainty

Robust reinforcement learning (RL) aims to find a policy that optimizes the worst-case performance in the face of uncertainties. In this paper, we focus on action robust RL with the probabilistic policy execution uncertainty, in which, instead of always carrying out the action specified by the policy, the agent will take the action specified by the policy with probability $1-\rho$ and an alternative adversarial action with probability $\rho$. We establish the existence of an optimal policy on the action robust MDPs with probabilistic policy execution uncertainty and provide the action robust Bellman optimality equation for its solution. Furthermore, we develop Action Robust Reinforcement Learning with Certificates (ARRLC) algorithm that achieves minimax optimal regret and sample complexity. Furthermore, we conduct numerical experiments to validate our approach's robustness, demonstrating that ARRLC outperforms non-robust RL algorithms and converges faster than the robust TD algorithm in the presence of action perturbations.

DNABERT-2: Efficient Foundation Model and Benchmark For Multi-Species Genome

Decoding the linguistic intricacies of the genome is a crucial problem in biology, and pre-trained foundational models such as DNABERT and Nucleotide Transformer have made significant strides in this area. Existing works have largely hinged on k-mer, fixed-length permutations of A, T, C, and G, as the token of the genome language due to its simplicity. However, we argue that the computation and sample inefficiencies introduced by k-mer tokenization are primary obstacles in developing large genome foundational models. We provide conceptual and empirical insights into genome tokenization, building on which we propose to replace k-mer tokenization with Byte Pair Encoding (BPE), a statistics-based data compression algorithm that constructs tokens by iteratively merging the most frequent co-occurring genome segment in the corpus. We demonstrate that BPE not only overcomes the limitations of k-mer tokenization but also benefits from the computational efficiency of non-overlapping tokenization. Based on these insights, we introduce DNABERT-2, a refined genome foundation model that adapts an efficient tokenizer and employs multiple strategies to overcome input length constraints, reduce time and memory expenditure, and enhance model capability. Furthermore, we identify the absence of a comprehensive and standardized benchmark for genome understanding as another significant impediment to fair comparative analysis. In response, we propose the Genome Understanding Evaluation (GUE), a comprehensive multi-species genome classification dataset that amalgamates $28$ distinct datasets across $7$ tasks, with input lengths ranging from $70$ to $1000$. Through comprehensive experiments on the GUE benchmark, we demonstrate that DNABERT-2 achieves comparable performance to the state-of-the-art model with $21 \times$ fewer parameters and approximately $56 \times$ less GPU time in pre-training.

Latent Class-Conditional Noise Model

Learning with noisy labels has become imperative in the Big Data era, which saves expensive human labors on accurate annotations. Previous noise-transition-based methods have achieved theoretically-grounded performance under the Class-Conditional Noise model (CCN). However, these approaches builds upon an ideal but impractical anchor set available to pre-estimate the noise transition. Even though subsequent works adapt the estimation as a neural layer, the ill-posed stochastic learning of its parameters in back-propagation easily falls into undesired local minimums. We solve this problem by introducing a Latent Class-Conditional Noise model (LCCN) to parameterize the noise transition under a Bayesian framework. By projecting the noise transition into the Dirichlet space, the learning is constrained on a simplex characterized by the complete dataset, instead of some ad-hoc parametric space wrapped by the neural layer. We then deduce a dynamic label regression method for LCCN, whose Gibbs sampler allows us efficiently infer the latent true labels to train the classifier and to model the noise. Our approach safeguards the stable update of the noise transition, which avoids previous arbitrarily tuning from a mini-batch of samples. We further generalize LCCN to different counterparts compatible with open-set noisy labels, semi-supervised learning as well as cross-model training. A range of experiments demonstrate the advantages of LCCN and its variants over the current state-of-the-art methods.