Canada

Clinical prediction is an essential task in the healthcare industry. However, the recent success of transformers, on which large language models are built, has not been extended to this domain. In this research, we explore the use of transformers and language models in prognostic prediction for immunotherapy using real-world patients&#39; clinical data and molecular profiles. This paper investigates the potential of transformers to improve clinical prediction compared to conventional machine learning approaches and addresses the challenge of few-shot learning in predicting rare disease areas. The study benchmarks the efficacy of baselines and language models on prognostic prediction across multiple cancer types and investigates the impact of different pretrained language models under few-shot regimes. The results demonstrate significant improvements in accuracy and highlight the potential of NLP in clinical research to improve early detection and intervention for different diseases.

ACL 2023

Boosting Transformers and Language Models for Clinical Prediction in Immunotherapy

clinical prediction

large language models

transformer

### Welcome to the 17th Conference of the European Chapter of the Association for Computational Linguistics (EACL) <br><br>
Continuing its mission of expanding and involving the science community of all European countries, EACL had selected the Ukrainian community for the 16th EACL, which took place online due to the COVID pandemic. Unfortunately, the ongoing war made the organisation in Kyiv impossible. Considering the importance of physical interaction among researchers, especially after the restrictions imposed by the COVID pandemic, in addition to an online mode, the conference will be held in Dubrovnik, Croatia, from 2 to 6 of May, 2023. The original aim of strengthening the connection with the Ukrainian community will not change as our program will feature a dedicated session and a workshop to highlight work on Ukrainian language technologies. As the flagship European conference in the field of computational linguistics, EACL welcomes European and international researchers covering a broad spectrum of research areas that are concerned with computational approaches to natural language.<br><br><br><br>

You need to register for the conference in order to access this site. Please visit https://2023.eacl.org/registration for more information.

EACL 2023

As the flagship European conference in the field of computational linguistics, EACL welcomes European and international researchers covering a broad spectrum of research areas that are concerned with computational approaches to natural language.

Clinical prediction is an essential task in the healthcare industry. However, the recent success of transformers, on which large language models are built, has not been extended to this domain. In this research, we explore the use of transformers and language models in prognostic prediction for immunotherapy using real-world patients' clinical data and molecular profiles. This paper investigates the potential of transformers to improve clinical prediction compared to conventional machine learning approaches and addresses the challenge of few-shot learning in predicting rare disease areas. The study benchmarks the efficacy of baselines and language models on prognostic prediction across multiple cancer types and investigates the impact of different pretrained language models under few-shot regimes. The results demonstrate significant improvements in accuracy and highlight the potential of NLP in clinical research to improve early detection and intervention for different diseases.

poster

### Welcome to ACL 2023, the 61st Annual Meeting of the Association for Computational Linguistics! 
<br>The conference will be held in Toronto, Canada, July 9-14, 2023.<br><br>
Following the succession of the recent conferences in our field, ACL 2023 will adopt a hybrid format.
While the impact of Covid has considerably diminished in terms of traveling, obtaining visas to Canada
entails a very long process. Moreover, the global economic conditions pose challenges for many individuals to travel to conferences. Recognizing these circumstances, we know many participants may not be
able to attend the conference in person. Therefore, we are committed to providing a great virtual platform
so everyone has the opportunity to interact with other participants and enjoy the conference. Based on the
current registered participants, approxiately 30% have chosen to attend the conference virtually. Whether
you join us in person or virtually, we sincerely hope everyone has a remarkable conference experience.<br>
This General Chair’s message is where I express my gratitude to the many individuals who have made
enormous contributions to the conference over the past year.

Read [**ACL 2023 General Chair's message**](https://docs.google.com/document/d/1WobYM7norbG4dI48s75HfJoD89qgX5a_F-6U8AteLSA/edit?usp=sharing/) in full.

##### **[Conference Handbook](https://2023.aclweb.org/downloads/acl2023-handbook.pdf)**
<br><br><br><br>

The Association for Computational Linguistics (ACL) is the premier international scientific and professional society for people working on computational problems involving human language, a field often referred to as either computational linguistics or natural language processing.

An important problem of the sequence-to-sequence neural models widely used in abstractive summarization is exposure bias. To alleviate this problem, re-ranking systems have been applied in recent years. Despite some performance improvements, this approach remains underexplored. Previous works have mostly specified the rank through the ROUGE score and aligned candidate summaries, but there can be quite a large gap between the lexical overlap metric and semantic similarity. In this paper, we propose a novel training method in which a re-ranker balances the lexical and semantic quality. We further newly define false positives in ranking and present a strategy to reduce their influence. Experiments on the CNN/DailyMail and XSum datasets show that our method can estimate the meaning of summaries without seriously degrading the lexical aspect. More specifically, it achieves an 89.67 BERTScore on the CNN/DailyMail dataset, reaching new state-of-the-art performance. Our code is publicly available at https://github.com/jeewoo1025/BalSum.

<iframe src="https://app.sli.do/event/oApzFnCrRo86e5qieE2QHQ/embed/polls/ff00fa6a-ec41-4ca1-8663-ee8f043ea1a8" width="300" height="400"></iframe>

Balancing Lexical and Semantic Quality in Abstractive Summarization

One of the main challenges open-domain end-to-end dialogue systems, or chatbots, face is the prevalence of unsafe behavior, such as toxic languages and harmful suggestions. However, existing dialogue datasets do not provide enough annotation to explain and correct such unsafe behavior. In this work, we construct a new dataset called SafeConv for the research of conversational safety: (1) Besides the utterance-level safety labels, SafeConv also provides unsafe spans in an utterance, information able to indicate which words contribute to the detected unsafe behavior; (2) SafeConv provides safe alternative responses to continue the conversation when unsafe behavior detected, guiding the conversation to a gentle trajectory. By virtue of the comprehensive annotation of SafeConv, we benchmark three powerful models for the mitigation of conversational unsafe behavior, including a checker to detect unsafe utterances, a tagger to extract unsafe spans, and a rewriter to convert an unsafe response to a safe version. Moreover, we explore the huge benefits brought by combining the models for explaining the emergence of unsafe behavior and detoxifying chatbots. Experiments show that the detected unsafe behavior could be well explained with unsafe spans and popular chatbots could be detoxified by a huge extent. The dataset is available at https://github.com/mianzhang/SafeConv.

<iframe src="https://app.sli.do/event/kgQkh7cPzt9VEM52HG3MJu/embed/polls/36a09bfc-f235-4815-bbc2-6f552f0c6e66" width="300" height="400"></iframe>

SafeConv: Explaining and Correcting Conversational Unsafe Behavior

We propose a method for unsupervised opinion summarization that encodes sentences from customer reviews into a hierarchical discrete latent space, then identifies common opinions based on the frequency of their encodings. We are able to generate both abstractive summaries by decoding these frequent encodings, and extractive summaries by selecting the sentences assigned to the same frequent encodings. Our method is attributable, because the model identifies sentences used to generate the summary as part of the summarization process. It scales easily to many hundreds of input reviews, because aggregation is performed in the latent space rather than over long sequences of tokens. We also demonstrate that our appraoch enables a degree of control, generating aspect-specific summaries by restricting the model to parts of the encoding space that correspond to desired aspects (e.g., location or food). Automatic and human evaluation on two datasets from different domains demonstrates that our method generates summaries that are more informative than prior work and better grounded in the input reviews.

<iframe src="https://app.sli.do/event/kgQkh7cPzt9VEM52HG3MJu/embed/polls/ad22788b-8739-4484-903a-cd93f8ab180f" width="300" height="400"></iframe>

Attributable and Scalable Opinion Summarization

Lexical matching remains the de facto evaluation method for open-domain question answering (QA). Unfortunately, lexical matching fails completely when a plausible candidate answer does not appear in the list of gold answers, which is increasingly the case as we shift from extractive to generative models. The recent success of large language models (LLMs) for QA aggravates lexical matching failures since candidate answers become longer, thereby making matching with the gold answers even more challenging. Without accurate evaluation, the true progress in open-domain QA remains unknown. In this paper, we conduct a thorough analysis of various open-domain QA models, including LLMs, by manually evaluating their answers on a subset of NQ-open, a popular benchmark. Our assessments reveal that while the true performance of all models is significantly underestimated, the performance of the InstructGPT (zero-shot) LLM increases by nearly +60%, making it on par with existing top models, and the InstructGPT (few-shot) model actually achieves a new state-of-the-art on NQ-open. We also find that more than 50% of lexical matching failures are attributed to semantically equivalent answers. We further demonstrate that regex matching ranks QA models consistent with human judgments, although still suffering from unnecessary strictness. Finally, we demonstrate that automated evaluation models are a reasonable surrogate for lexical matching in some circumstances, but not for long-form answers generated by LLMs. The automated models struggle in detecting hallucinations in LLM answers and are thus unable to evaluate LLMs. At this time, there appears to be no substitute for human evaluation.

<iframe src="https://app.sli.do/event/t38CPUax2NoHBQcXN6okdA/embed/polls/c3484ee7-6990-471c-ba50-c4070fa805a0" width="300" height="400"></iframe>

Evaluating Open-Domain Question Answering in the Era of Large Language Models

How can we extend a pre-trained model to many language understanding tasks, without labeled or additional unlabeled data? Pre-trained language models (PLMs) have been effective for a wide range of NLP tasks. However, existing approaches either require fine-tuning on downstream labeled datasets or manually constructing proper prompts. In this paper, we propose nonparametric prompting PLM (NPPrompt) for fully zero-shot language understanding. Unlike previous methods, NPPrompt uses only pre-trained language models and does not require any labeled data or additional raw corpus for further fine-tuning, nor does it rely on humans to construct a comprehensive set of prompt label words. We evaluate NPPrompt against previous major few-shot and zero-shot learning methods on diverse NLP tasks: including text classification, text entailment, similar text retrieval, paraphrasing, and multiple-choice question answering. Experimental results demonstrate that our NPPrompt outperforms the previous best fully zero-shot method by big margins, with absolute gains of 12.8% in accuracy on text classification and 15.6% on the GLUE benchmark. Our source code is available at https://anonymous.4open. science/r/NPPrompt.

<iframe src="https://app.sli.do/event/t38CPUax2NoHBQcXN6okdA/embed/polls/8724c517-519a-4303-a3c2-a10f4a4c85a7" width="300" height="400"></iframe>

Pre-trained Language Models Can be Fully Zero-Shot Learners

Retrieval augmentation can aid language models (LMs) in knowledge-intensive tasks by supplying them with external information. Prior works on retrieval augmentation usually jointly fine-tune the retriever and the LM, making them closely coupled. In this paper, we explore the scheme of generic retrieval plug-in: the retriever is to assist target LMs that may not be known beforehand or are unable to be fine-tuned together. To retrieve useful documents for unseen target LMs, we propose augmentation-adapted retriever (AAR), which learns LM's preferences obtained from a known source LM. Experiments on the MMLU and PopQA datasets demonstrate that our AAR trained with a small source LM is able to significantly improve the zero-shot generalization of larger target LMs ranging from 250M Flan-T5 to 175B InstructGPT. Further analysis indicates that the preferences of different LMs overlap, enabling AAR trained with a single source LM to serve as a generic plug-in for various target LMs. Our code is open-sourced at https://github.com/OpenMatch/Augmentation-Adapted-Retriever.

<iframe src="https://app.sli.do/event/jQes3hFZo3TYjGXEHm6w95/embed/polls/e6e934c9-541c-4756-aaff-09616a04613e" width="300" height="400"></iframe>

Augmentation-Adapted Retriever Improves Generalization of Language Models as Generic Plug-In

In this paper, we propose NUWA-XL, a novel Diffusion over Diffusion architecture for eXtremely Long video generation. Most current work generates long videos segment by segment sequentially, which normally leads to the gap between training on short videos and inferring long videos, and the sequential generation is inefficient. Instead, our approach adopts a ``coarse-to-fine'' process, in which the video can be generated in parallel at the same granularity. A global diffusion model is applied to generate the keyframes across the entire time range, and then local diffusion models recursively fill in the content between nearby frames. This simple yet effective strategy allows us to directly train on long videos (3376 frames) to reduce the training-inference gap and makes it possible to generate all segments in parallel. To evaluate our model, we build FlintstonesHD dataset, a new benchmark for long video generation. Experiments show that our model not only generates high-quality long videos with both global and local coherence, but also decreases the average inference time from 7.55min to 26s (by 94.26\%) at the same hardware setting when generating 1024 frames. The homepage link is [NUWA-XL](https://msra-nuwa.azurewebsites.net)

<iframe src="https://app.sli.do/event/jQes3hFZo3TYjGXEHm6w95/embed/polls/04ce1b4e-ad62-479e-80a5-9dac3ecdeb90" width="300" height="400"></iframe>

NUWA-XL: Diffusion over Diffusion for eXtremely Long Video Generation

The task of spoken video grounding aims to localize moments in videos that are relevant to descriptive spoken queries. However, effectively modeling the semantic correlation between continuous frequency speech and video signals poses a critical challenge. Recent studies represent spoken queries based on the semantic correlation between speech and the exactly matched video clips, which require tremendous labor effort for annotations. In this work, we investigate weakly-supervised spoken video grounding, i.e., learning to localize moments without expensive temporal annotations. To effectively represent the cross-modal semantics, we propose Semantic Interaction Learning (SIL), a novel framework consisting of the acoustic-semantic pre-training (ASP) and acoustic-visual contrastive learning (AVCL). (1) In ASP, we pre-train an effective encoder for the grounding task by devising three comprehensive tasks, where the conciseness task explicitly models the invariance of time-domain and frequency-domain features, the refinement task compresses long sequence features into segment-level and the semantic task further models the precise semantics. (2) In AVCL, we mine pseudo labels with discriminative sampling strategies and maximize the cross-modal mutual information. Extensive experiments demonstrate the effectiveness of our method in terms of both accuracy and efficiency.

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Weakly-Supervised Spoken Video Grounding via Semantic Interaction Learning

"In conventional radiology practice, the radiologist dictates the diagnosis to the transcriptionist, who then prepares a preliminary formatted report referring to the notes, after which the radiologist reviews the report, corrects the errors, and signs off. This workflow is prone to delay and error. In this paper, we report our work on automatic radiology report generation from radiologists' dictation, which is in collaboration with a startup about to become Unicorn. A major contribution of our work is the set of knowledge graphs (KGs) of ten abdominal organs- Liver, Kidney, Gallbladder, Uterus, Urinary bladder, Ovary, Pancreas, Prostate, Biliary Tree, and Bowel. Our method for constructing these KGs relies on extracting entity1-relation-entity2 triplets from a large collection (about 10,000) of free-text radiology reports. The quality and coverage of the KGs are verified by two experienced radiologists (practicing for the last 30 years and 8 years, respectively). The dictation of the radiologist is automatically converted to what is called a pathological description which is the clinical description of the findings of the radiologist during ultrasonography (USG). 
Our knowledge-enhanced deep learning model improves the reported BLEU-3, ROUGE-L, METEOR, and CIDEr scores of the pathological description generation by 2%, 4%, 2% and 2% respectively. To the best of our knowledge, this is the first attempt at representing the abdominal organs in the form of knowledge graphs and utilising these graphs for the automatic generation of USG reports. A Minimum Viable Product (MVP) has been made available to the beta users, i.e., radiologists of reputed hospitals, for testing and evaluation. Our solution guarantees report generation within 30 seconds of running a scan."

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"Knowledge is Power": Constructing Knowledge Graph of Abdominal Organs and Using Them for Automatic Radiology Report Generation

Automated digitization of prescription images is a critical prerequisite to scale digital healthcare services such as online pharmacies. This is challenging in emerging markets since prescriptions are not digitized at source and patients lack the medical expertise to interpret prescriptions to place orders. In this paper, we present prescription digitization system for online medicine ordering built with minimal supervision. Our system uses a modular pipeline comprising a mix of ML and rule-based components for (a) image to text extraction, (b) segmentation into blocks and medication items, (c) medication attribute extraction, (d) matching against medicine catalog, and (e) shopping cart building. Our approach efficiently utilizes multiple signals like layout, medical ontologies, and semantic embeddings via LayoutLMv2 model to yield substantial improvement relative to strong baselines on medication attribute extraction. Our pipeline achieves +5.9% gain in precision@3 and +5.6% in recall@3 over catalog-based fuzzy matching baseline for shopping cart building for printed prescriptions.

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Balancing Lexical and Semantic Quality in Abstractive Summarization

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Balancing Lexical and Semantic Quality in Abstractive Summarization

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Development of pre-trained language models for clinical NLP in Spanish

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