The success of graph neural networks (GNNs) provokes the question about explainability: ``Which fraction of the input graph is the most determinant of the prediction?'' Particularly, parametric explainers prevail in existing approaches because of their more robust capability to decipher the black-box (i.e., target GNNs). In this paper, based on the observation that graphs typically share some common motif patterns, we propose a novel non-parametric subgraph matching framework, dubbed MatchExplainer, to explore explanatory subgraphs. It couples the target graph with other counterpart instances and identifies the most crucial joint substructure by minimizing the node corresponding-based distance. Moreover, we note that present graph sampling or node-dropping methods usually suffer from the false positive sampling problem. To alleviate this issue, we designed a new augmentation paradigm named MatchDrop. It takes advantage of MatchExplainer to fix the most informative portion of the graph and merely operates graph augmentations on the rest less informative part. Extensive experiments on synthetic and real-world datasets show the effectiveness of our MatchExplainer by outperforming all state-of-the-art parametric baselines with significant margins. Results also demonstrate that MatchDrop is a general scheme to be equipped with GNNs for enhanced performance. The code is available at: https://github.com/smiles724/MatchExplainer.

Geometric deep learning has recently achieved great success in non-Euclidean domains, and learning on 3D structures of large biomolecules is emerging as a distinct research area. However, its efficacy is largely constrained due to the limited quantity of structural data. Meanwhile, protein language models trained on substantial 1D sequences have shown burgeoning capabilities with scale in a broad range of applications. Several previous studies consider combining these different protein modalities to promote the representation power of geometric neural networks, but fail to present a comprehensive understanding of their benefits. In this work, we integrate the knowledge learned by well-trained protein language models into several state-of-the-art geometric networks and evaluate a variety of protein representation learning benchmarks, including protein-protein interface prediction, model quality assessment, protein-protein rigid-body docking, and binding affinity prediction. Our findings show an overall improvement of 20% over baselines. Strong evidence indicates that the incorporation of protein language models' knowledge enhances geometric networks' capacity by a significant margin and can be generalized to complex tasks.

Despite the recent progress in language generation models, their outputs may not always meet user expectations. In this work, we study whether informational feedback in natural language can be leveraged to improve generation quality and user preference alignment. To this end, we consider factual consistency in summarization, the quality that the summary should only contain information supported by the input documents, as the user-expected preference. We collect a high-quality dataset, DeFacto, containing human demonstrations and informational natural language feedback consisting of corrective instructions, edited summaries, and explanations with respect to the factual consistency of the summary. Using our dataset, we study three natural language generation tasks: (1) editing a summary by following the human feedback, (2) generating human feedback for editing the original summary, and (3) revising the initial summary to correct factual errors by generating both the human feedback and edited summary. We show that DeFacto can provide factually consistent human-edited summaries and further insights into summarization factual consistency thanks to its informational natural language feedback. We further demonstrate that fine-tuned language models can leverage our dataset to improve the summary factual consistency, while large language models lack the zero-shot learning ability in our proposed tasks that require controllable text generation.

Recently, large language models (LLMs), especially those that are pretrained on code, have demonstrated strong capabilities in generating programs from natural language inputs in a few-shot or even zero-shot manner. Despite promising results, there is a notable lack of a comprehensive evaluation of these models language-to-code generation capabilities. Existing studies often focus on specific tasks, model architectures, or learning paradigms, leading to a fragmented understanding of the overall landscape. In this work, we present L2CEval, a systematic evaluation of the language-to-code generation capabilities of LLMs on 7 tasks across the domain spectrum of semantic parsing, math reasoning and Python programming, analyzing the factors that potentially affect their performance, such as model size, pretraining data, instruction tuning, and different prompting methods. In addition to assessing model performance, we measure confidence calibration for the models and conduct human evaluations of the output programs. This enables us to identify and analyze the typical failure modes across various tasks and models. L2CEval offers a comprehensive understanding of the capabilities and limitations of LLMs in language-to-code generation. We also release the evaluation framework and all model outputs, hoping to lay the groundwork for further future research in this domain.

The advent of large language models trained on code (code LLMs) has led to significant progress in language-to-code generation. State-of-the-art approaches in this area combine LLM decoding with sample pruning and reranking using test cases or heuristics based on the execution results. However, it is challenging to obtain test cases for many real-world language-to-code applications, and heuristics cannot well capture the semantic features of the execution results, such as data type and value range, which often indicates the correctness of the program. In this work, we propose LEVER, a simple approach to improve language-to-code generation by learning to verify the generated programs with their execution results. Specifically, we train verifiers to determine whether a program sampled from the LLMs is correct or not based on the natural language input, the program itself and its execution results. The sampled programs are reranked by combining the verification score with the LLM generation probability, and marginalizing over programs with the same execution results. On four datasets across the domains of table QA, math QA and basic Python programming, LEVER consistently improves over the base code LLMs(4.6% to 10.9% with code-davinci-002) and achieves new state-of-the-art results on all of them.

The Electronic Health Record (EHR) is an essential part of the modern medical system and impacts healthcare delivery, operations, and research. Unstructured text is attracting much attention despite structured information in the EHRs and has become an exciting research field. The success of the recent neural Natural Language Processing (NLP) method has led to a new direction for processing unstructured clinical notes. In this work, we create a python library for clinical texts, EHRKit. This library contains two main parts: MIMIC-III-specific functions and tasks specific functions. The first part introduces a list of interfaces for accessing MIMIC-III NOTEEVENTS data, including basic search, information retrieval, and information extraction. The second part integrates many third-party libraries for up to 12 off-shelf NLP tasks such as named entity recognition, summarization, machine translation, etc.

Large language models (LLMs) have been shown to be able to perform new tasks based on a few demonstrations or natural language instructions. While these capabilities have led to widespread adoption, most LLMs are developed by resource-rich organizations and are frequently kept from the public. As a step towards democratizing this powerful technology, we present BLOOM, a 176B-parameter open-access language model designed and built thanks to a collaboration of hundreds of researchers. BLOOM is a decoder-only Transformer language model that was trained on the ROOTS corpus, a dataset comprising hundreds of sources in 46 natural and 13 programming languages (59 in total). We find that BLOOM achieves competitive performance on a wide variety of benchmarks, with stronger results after undergoing multitask prompted finetuning. To facilitate future research and applications using LLMs, we publicly release our models and code under the Responsible AI License.

Despite significant progress having been made in question answering on tabular data (Table QA), it's unclear whether, and to what extent existing Table QA models are robust to task-specific perturbations, e.g., replacing key question entities or shuffling table columns. To systematically study the robustness of Table QA models, we propose a benchmark called RobuT, which builds upon existing Table QA datasets (WTQ, WikiSQL-Weak, and SQA) and includes human-annotated adversarial perturbations in terms of table header, table content, and question. Our results indicate that both state-of-the-art Table QA models and large language models (e.g., GPT-3) with few-shot learning falter in these adversarial sets. We propose to address this problem by using large language models to generate adversarial examples to enhance training, which significantly improves the robustness of Table QA models. Our data and code is publicly available at https://github.com/yilunzhao/RobuT.

Large language models (LLMs) can acquire strong code-generation capabilities through few-shot learning. In contrast, supervised fine-tuning is still needed for smaller models to achieve good performance. Such fine-tuning demands a large number of task-specific NL-code pairs, which are expensive to obtain. In this paper, we attempt to transfer the code generation ability of an LLM to a smaller model with the aid of weakly-supervised data. More specifically, we propose explicit knowledge transfer (EKT), which uses the few-shot capabilities of a teacher LLM to create NL-code pairs that we then filter for correctness and fine-tune the student on. We evaluate EKT on the task of generating code solutions to math word problems from the GSM8k dataset. We find that EKT not only yields better performance than training with expert iteration, but also outperforms knowledge distillation, another form of knowledge transfer. A GPT-Neo 1.3B model trained using EKT with a GPT-J teacher achieves a 12.4% pass@100 on GSM8k, while the same student and teacher trained with knowledge distillation yield only a 3.7% pass@100. We also show that it is possible for a student model to outperform the teacher using EKT.

Controllable summarization allows users to generate customized summaries with specified attributes. However, due to the lack of designated annotations of controlled summaries, existing works have to craft pseudo datasets by adapting generic summarization benchmarks. Furthermore, most research focuses on controlling single attributes individually (e.g., a short summary or a highly abstractive summary) rather than controlling a mix of attributes together (e.g., a short and highly abstractive summary). In this paper, we propose MACSum, the first human-annotated summarization dataset for controlling mixed attributes. It contains source texts from two domains, news articles and dialogues, with human-annotated summaries controlled by five designed attributes (Length, Extractiveness, Specificity, Topic, and Speaker). We propose two simple and effective parameter-efficient approaches for the new task of mixed controllable summarization based on hard prompt tuning and soft prefix tuning. Results and analysis demonstrate that hard prompt models yield the best performance on all metrics and human evaluations. However, mixed-attribute control is still challenging for summarization tasks. Our dataset and code are available at https://github.com/psunlpgroup/MACSum.