Proteins are essential for almost all biological processes and derive their diverse functions from complex $3 \rm D$ structures, which are in turn determined by their amino acid sequences. In this paper, we exploit the rich biological inductive bias of amino acid sequences and introduce FoldFlow++, a novel sequence-conditioned $\text{SE}(3)$-equivariant flow matching model for protein structure generation. FoldFlow++ presents substantial new architectural features over the previous FoldFlow family of models including a protein large language model to encode sequence, a new multi-modal fusion trunk that combines structure and sequence representations, and a geometric transformer based decoder. To increase diversity and novelty of generated samples -- crucial for de-novo drug design -- wetrain FoldFlow++ at scale on a new dataset that is an order of magnitude larger than PDB datasets of prior works, containing both known proteins in PDB and high-quality synthetic structures achieved through filtering. We further demonstrate the ability to align FoldFlow++ to arbitrary rewards, e.g.

Recent advancements in Large Language Models (LLMs) have significantly improved text generation capabilities, but these systems are still known to hallucinate, and granular uncertainty estimation for long-form LLM generations remains challenging. In this work, we propose Graph Uncertainty -- which represents the relationship between LLM generations and claims within them as a bipartite graph and estimates the claim-level uncertainty with a family of graph centrality metrics. Under this view, existing uncertainty estimation methods based on the concept of self-consistency can be viewed as using degree centrality as an uncertainty measure, and we show that more sophisticated alternatives such as closeness centrality provide consistent gains at claim-level uncertainty estimation.Moreover, we present uncertainty-aware decoding techniques that leverage both the graph structure and uncertainty estimates to improve the factuality of LLM generations by preserving only the most reliable claims. Compared to existing methods, our graph-based uncertainty metrics lead to an average of 6.8% relative gains on AUPRC across various long-form generation settings, and our end-to-end system provides consistent 2-4% gains in factuality over existing decoding techniques while significantly improving the informativeness of generated responses.

Nevertheless, is it possible to use few-shot demonstrations to efficiently jailbreak LLMs within limited context sizes? While the vanilla few-shot jailbreaking may be inefficient, we propose improved techniques such as injecting special system tokens like [/INST] and employing demo-level random search from a collected demo pool. These simple techniques result in surprisingly effective jailbreaking against aligned LLMs (even with advanced defenses). For example, our method achieves >80% (mostly >95%) ASRs on Llama-2-7B and Llama-3-8B without multiple restarts, even if the models are enhanced by strong defenses such as perplexity detection and/or SmoothLLM, which is challenging for suffix-based jailbreaking. In addition, we conduct comprehensive and elaborate (e.g., making sure to use correct system prompts) evaluations against other aligned LLMs and advanced defenses, where our method consistently achieves nearly 100% ASRs. Our code is available at https://github.com/sail-sg/I-FSJ.

Chain-of-thought prompting (CoT) and tool augmentation have been validated in recent work as effective practices for improving large language models (LLMs) to perform step-by-step reasoning on complex math-related tasks.However, most existing math reasoning datasets may not be able to fully evaluate and analyze the ability of LLMs in manipulating tools and performing reasoning, as they often only require very few invocations of tools or miss annotations for evaluating intermediate reasoning steps, thus supporting only outcome evaluation.To address the issue, we construct CARP

Self-supervised large language models have demonstrated the ability to perform various tasks via in-context learning, but little is known about where the model locates the task with respect to prompt instructions and demonstration examples. In this work, we attempt to characterize the region where large language models transition from recognizing the task to performing the task.

The safe and effective deployment of Large Language Models (LLMs) involves a critical step called alignment, which ensures that the model's responses are in accordance with human preferences. Prevalent alignment techniques, such as DPO, PPO and their variants, align LLMs by changing the pre-trained model weights during a phase called post-training. While predominant, these post-training methods add substantial complexity before LLMs can be deployed. Inference-time alignment methods avoid the complex post-training step and instead bias the generation towards responses that are aligned with human preferences. The best-known inference-time alignment method, called Best-of-N, is as effective as the state-of-the-art post-training procedures. Unfortunately, Best-of-N requires vastly more resources at inference time than standard decoding strategies, which makes it computationally not viable. In this work, we introduce Speculative Rejection, a computationally-viable inference-time alignment algorithm. It generates high-scoring responses according to a given reward model, like Best-of-N does, while being between 16 to 32 times more computationally efficient.

In this work, we observe that model trained on vast general images via masking strategy, has been naturally embedded with their distribution knowledge, thus spontaneously attains the underlying potential for strong image denoising.Based on this observation, we propose a novel zero-shot denoising paradigm, i.e., $\textbf{M}$asked $\textbf{P}$re-train then $\textbf{I}$terative fill ($\textbf{MPI}$).MPI first trains model via masking and then employs pre-trained weight for high-quality zero-shot image denoising on a single noisy image.Concretely, MPI comprises two key procedures:$\textbf{1) Masked Pre-training}$ involves training model to reconstruct massive natural images with random masking for generalizable representations, gathering the potential for valid zero-shot denoising on images with varying noise degradation and even in distinct image types.$\textbf{2)

Making language models bigger does not inherently make them better at following a user's intent. For example, large language models can generate outputs that are untruthful, toxic, or simply not helpful to the user. In other words, these models are not aligned with their users. In this paper, we show an avenue for aligning language models with user intent on a wide range of tasks by fine-tuning with human feedback. Starting with a set of labeler-written prompts and prompts submitted through a language model API, we collect a dataset of labeler demonstrations of the desired model behavior, which we use to fine-tune GPT-3 using supervised learning.

Large Language Models (LLMs) have the potential to transform humanities and social science research, yet their history knowledge and comprehension at a graduate level remains untested. Benchmarking LLMs in history is particularly challenging, given that human knowledge of history is inherently unbalanced, with more information available on Western history and recent periods. We introduce the History Seshat Test for LLMs (HiST-LLM), based on a subset of the Seshat Global History Databank, which provides a structured representation of human historical knowledge, containing 36,000 data points across 600 historical societies and over 2,700 scholarly references. This dataset covers every major world region from the Neolithic period to the Industrial Revolution and includes information reviewed and assembled by history experts and graduate research assistants.

Recent advances in Video Large Language Models (Video-LLMs) have demonstrated their great potential in general-purpose video understanding. To verify the significance of these models, a number of benchmarks have been proposed to diagnose their capabilities in different scenarios. However, existing benchmarks merely evaluate models through video-level question-answering, lacking fine-grained event-level assessment and task diversity. To fill this gap, we introduce E.T. Bench (Event-Level & Time-Sensitive Video Understanding Benchmark), a large-scale and high-quality benchmark for open-ended event-level video understanding. Categorized within a 3-level task taxonomy, E.T. Bench encompasses 7.3K samples under 12 tasks with 7K videos (251.4h