Daily Papers

Biomedical literature often uses complex language and inaccessible professional terminologies. That is why simplification plays an important role in improving public health literacy. Applying Natural Language Processing (NLP) models to automate such tasks allows for quick and direct accessibility for lay readers. In this work, we investigate the ability of state-of-the-art large language models (LLMs) on the task of biomedical abstract simplification, using the publicly available dataset for plain language adaptation of biomedical abstracts (PLABA). The methods applied include domain fine-tuning and prompt-based learning (PBL) on: 1) Encoder-decoder models (T5, SciFive, and BART), 2) Decoder-only GPT models (GPT-3.5 and GPT-4) from OpenAI and BioGPT, and 3) Control-token mechanisms on BART-based models. We used a range of automatic evaluation metrics, including BLEU, ROUGE, SARI, and BERTscore, and also conducted human evaluations. BART-Large with Control Token (BART-L-w-CT) mechanisms reported the highest SARI score of 46.54 and T5-base reported the highest BERTscore 72.62. In human evaluation, BART-L-w-CTs achieved a better simplicity score over T5-Base (2.9 vs. 2.2), while T5-Base achieved a better meaning preservation score over BART-L-w-CTs (3.1 vs. 2.6). We also categorised the system outputs with examples, hoping this will shed some light for future research on this task. Our code, fine-tuned models, and data splits are available at https://github.com/HECTA-UoM/PLABA-MU

In this paper, we evaluate the creative fiction writing abilities of a fine-tuned small language model (SLM), BART Large, and compare its performance to humans and two large language models (LLMs): GPT-3.5 and GPT-4o. Our evaluation consists of two experiments: (i) a human evaluation where readers assess the stories generated by the SLM compared to human-written stories, and (ii) a qualitative linguistic analysis comparing the textual characteristics of the stories generated by the different models. In the first experiment, we asked 68 participants to rate short stories generated by the models and humans along dimensions such as grammaticality, relevance, creativity, and attractiveness. BART Large outperformed human writers in most aspects, except creativity, with an overall score of 2.11 compared to 1.85 for human-written texts -- a 14% improvement. In the second experiment, the qualitative analysis revealed that, while GPT-4o exhibited near-perfect internal and external coherence, it tended to produce more predictable narratives, with only 3% of its stories seen as novel. In contrast, 15% of BART's stories were considered novel, indicating a higher degree of creativity despite its smaller model size. This study provides both quantitative and qualitative insights into how model size and fine-tuning influence the balance between creativity, fluency, and coherence in creative writing tasks.

Pre-trained text-to-text transformers such as BART have achieved impressive performance across a range of NLP tasks. Recent study further shows that they can learn to generalize to novel tasks, by including task descriptions as part of the source sequence and training the model with (source, target) examples. At test time, these fine-tuned models can make inferences on new tasks using the new task descriptions as part of the input. However, this approach has potential limitations, as the model learns to solve individual (source, target) examples (i.e., at the instance level), instead of learning to solve tasks by taking all examples within a task as a whole (i.e., at the task level). To this end, we introduce Hypter, a framework that improves text-to-text transformer's generalization ability to unseen tasks by training a hypernetwork to generate task-specific, light-weight adapters from task descriptions. Experiments on ZEST dataset and a synthetic SQuAD dataset demonstrate that Hypter improves upon fine-tuning baselines. Notably, when using BART-Large as the main network, Hypter brings 11.3% comparative improvement on ZEST dataset.

Parameter-efficient fine-tuning optimizes large, pre-trained foundation models by updating a subset of parameters; in this class, Low-Rank Adaptation (LoRA) is particularly effective. Inspired by an effort to investigate the different roles of LoRA matrices during fine-tuning, this paper characterizes and leverages unexpected asymmetry in the importance of low-rank adapter matrices. Specifically, when updating the parameter matrices of a neural network by adding a product BA, we observe that the B and A matrices have distinct functions: A extracts features from the input, while B uses these features to create the desired output. Based on this observation, we demonstrate that fine-tuning B is inherently more effective than fine-tuning A, and that a random untrained A should perform nearly as well as a fine-tuned one. Using an information-theoretic lens, we also bound the generalization of low-rank adapters, showing that the parameter savings of exclusively training B improves the bound. We support our conclusions with experiments on RoBERTa, BART-Large, LLaMA-2, and ViTs.

We present ProtoTEx, a novel white-box NLP classification architecture based on prototype networks. ProtoTEx faithfully explains model decisions based on prototype tensors that encode latent clusters of training examples. At inference time, classification decisions are based on the distances between the input text and the prototype tensors, explained via the training examples most similar to the most influential prototypes. We also describe a novel interleaved training algorithm that effectively handles classes characterized by the absence of indicative features. On a propaganda detection task, ProtoTEx accuracy matches BART-large and exceeds BERT-large with the added benefit of providing faithful explanations. A user study also shows that prototype-based explanations help non-experts to better recognize propaganda in online news.

Existing auto-regressive pre-trained language models (PLMs) like T5 and BART, have been well applied to table question answering by UNIFIEDSKG and TAPEX, respectively, and demonstrated state-of-the-art results on multiple benchmarks. However, auto-regressive PLMs are challenged by recent emerging numerical reasoning datasets, such as TAT-QA, due to the error-prone implicit calculation. In this paper, we present TaCube, to pre-compute aggregation/arithmetic results for the table in advance, so that they are handy and readily available for PLMs to answer numerical reasoning questions. TaCube systematically and comprehensively covers a collection of computational operations over table segments. By simply concatenating TaCube to the input sequence of PLMs, it shows significant experimental effectiveness. TaCube promotes the F1 score from 49.6% to 66.2% on TAT-QA and achieves new state-of-the-art results on WikiTQ (59.6% denotation accuracy). TaCube's improvements on numerical reasoning cases are even more notable: on TAT-QA, TaCube promotes the exact match accuracy of BART-large by 39.6% on sum, 52.5% on average, 36.6% on substraction, and 22.2% on division. We believe that TaCube is a general and portable pre-computation solution that can be potentially integrated to various numerical reasoning frameworks

Scientific literature review generation aims to extract and organize important information from an abundant collection of reference papers and produces corresponding reviews while lacking a clear and logical hierarchy. We observe that a high-quality catalogue-guided generation process can effectively alleviate this problem. Therefore, we present an atomic and challenging task named Hierarchical Catalogue Generation for Literature Review as the first step for review generation, which aims to produce a hierarchical catalogue of a review paper given various references. We construct a novel English Hierarchical Catalogues of Literature Reviews Dataset with 7.6k literature review catalogues and 389k reference papers. To accurately assess the model performance, we design two evaluation metrics for informativeness and similarity to ground truth from semantics and structure.Our extensive analyses verify the high quality of our dataset and the effectiveness of our evaluation metrics. We further benchmark diverse experiments on state-of-the-art summarization models like BART and large language models like ChatGPT to evaluate their capabilities. We further discuss potential directions for this task to motivate future research.

Using supervised automatic summarisation methods requires sufficient corpora that include pairs of documents and their summaries. Similarly to many tasks in natural language processing, most of the datasets available for summarization are in English, posing challenges for developing summarization models in other languages. Thus, in this work, we introduce RoLargeSum, a novel large-scale summarization dataset for the Romanian language crawled from various publicly available news websites from Romania and the Republic of Moldova that were thoroughly cleaned to ensure a high-quality standard. RoLargeSum contains more than 615K news articles, together with their summaries, as well as their headlines, keywords, dialect, and other metadata that we found on the targeted websites. We further evaluated the performance of several BART variants and open-source large language models on RoLargeSum for benchmarking purposes. We manually evaluated the results of the best-performing system to gain insight into the potential pitfalls of this data set and future development.

Mental health is a significant and growing public health concern. As language usage can be leveraged to obtain crucial insights into mental health conditions, there is a need for large-scale, labeled, mental health-related datasets of users who have been diagnosed with one or more of such conditions. In this paper, we investigate the creation of high-precision patterns to identify self-reported diagnoses of nine different mental health conditions, and obtain high-quality labeled data without the need for manual labelling. We introduce the SMHD (Self-reported Mental Health Diagnoses) dataset and make it available. SMHD is a novel large dataset of social media posts from users with one or multiple mental health conditions along with matched control users. We examine distinctions in users' language, as measured by linguistic and psychological variables. We further explore text classification methods to identify individuals with mental conditions through their language.

The use of Large Language Models (LLMs) in hardware design has taken off in recent years, principally through its incorporation in tools that increase chip designer productivity. There has been considerable discussion about the use of LLMs in RTL specifications of chip designs, for which the two most popular languages are Verilog and VHDL. LLMs and their use in Verilog design has received significant attention due to the higher popularity of the language, but little attention so far has been given to VHDL despite its continued popularity in the industry. There has also been little discussion about the unique needs of organizations that engage in high-performance processor design, and techniques to deploy AI solutions in these settings. In this paper, we describe our journey in developing a Large Language Model (LLM) specifically for the purpose of explaining VHDL code, a task that has particular importance in an organization with decades of experience and assets in high-performance processor design. We show how we developed test sets specific to our needs and used them for evaluating models as we performed extended pretraining (EPT) of a base LLM. Expert evaluation of the code explanations produced by the EPT model increased to 69% compared to a base model rating of 43%. We further show how we developed an LLM-as-a-judge to gauge models similar to expert evaluators. This led us to deriving and evaluating a host of new models, including an instruction-tuned version of the EPT model with an expected expert evaluator rating of 71%. Our experiments also indicate that with the potential use of newer base models, this rating can be pushed to 85% and beyond. We conclude with a discussion on further improving the quality of hardware design LLMs using exciting new developments in the Generative AI world.

Scientific reasoning, the process through which humans apply logic, evidence, and critical thinking to explore and interpret scientific phenomena, is essential in advancing knowledge reasoning across diverse fields. However, despite significant progress, current scientific reasoning models still struggle with generalization across domains and often fall short of multimodal perception. Multimodal Large Language Models (MLLMs), which integrate text, images, and other modalities, present an exciting opportunity to overcome these limitations and enhance scientific reasoning. Therefore, this position paper argues that MLLMs can significantly advance scientific reasoning across disciplines such as mathematics, physics, chemistry, and biology. First, we propose a four-stage research roadmap of scientific reasoning capabilities, and highlight the current state of MLLM applications in scientific reasoning, noting their ability to integrate and reason over diverse data types. Second, we summarize the key challenges that remain obstacles to achieving MLLM's full potential. To address these challenges, we propose actionable insights and suggestions for the future. Overall, our work offers a novel perspective on MLLM integration with scientific reasoning, providing the LLM community with a valuable vision for achieving Artificial General Intelligence (AGI).

The amount of content on online music streaming platforms is immense, and most users only access a tiny fraction of this content. Recommender systems are the application of choice to open up the collection to these users. Collaborative filtering has the disadvantage that it relies on explicit ratings, which are often unavailable, and generally disregards the temporal nature of music consumption. On the other hand, item co-occurrence algorithms, such as the recently introduced word2vec-based recommenders, are typically left without an effective user representation. In this paper, we present a new approach to model users through recurrent neural networks by sequentially processing consumed items, represented by any type of embeddings and other context features. This way we obtain semantically rich user representations, which capture a user's musical taste over time. Our experimental analysis on large-scale user data shows that our model can be used to predict future songs a user will likely listen to, both in the short and long term.

Large-scale molecular representation methods have revolutionized applications in material science, such as drug discovery, chemical modeling, and material design. With the rise of transformers, models now learn representations directly from molecular structures. In this study, we develop an encoder-decoder model based on BART that is capable of leaning molecular representations and generate new molecules. Trained on SELFIES, a robust molecular string representation, our model outperforms existing baselines in downstream tasks, demonstrating its potential in efficient and effective molecular data analysis and manipulation.

Factual consistency is an important quality in dialogue summarization. Large language model (LLM)-based automatic text summarization models generate more factually consistent summaries compared to those by smaller pretrained language models, but they face deployment challenges in real-world applications due to privacy or resource constraints. In this paper, we investigate the use of symbolic knowledge distillation to improve the factual consistency of smaller pretrained models for dialogue summarization. We employ zero-shot learning to extract symbolic knowledge from LLMs, generating both factually consistent (positive) and inconsistent (negative) summaries. We then apply two contrastive learning objectives on these summaries to enhance smaller summarization models. Experiments with BART, PEGASUS, and Flan-T5 indicate that our approach surpasses strong baselines that rely on complex data augmentation strategies. Our approach achieves better factual consistency while maintaining coherence, fluency, and relevance, as confirmed by various automatic evaluation metrics. We also provide access to the data and code to facilitate future research.

This paper presents ViSP, a high-quality Vietnamese dataset for sentence paraphrasing, consisting of 1.2M original-paraphrase pairs collected from various domains. The dataset was constructed using a hybrid approach that combines automatic paraphrase generation with manual evaluation to ensure high quality. We conducted experiments using methods such as back-translation, EDA, and baseline models like BART and T5, as well as large language models (LLMs), including GPT-4o, Gemini-1.5, Aya, Qwen-2.5, and Meta-Llama-3.1 variants. To the best of our knowledge, this is the first large-scale study on Vietnamese paraphrasing. We hope that our dataset and findings will serve as a valuable foundation for future research and applications in Vietnamese paraphrase tasks.

Learning musical structures and composition patterns is necessary for both music generation and understanding, but current methods do not make uniform use of learned features to generate and comprehend music simultaneously. In this paper, we propose PianoBART, a pre-trained model that uses BART for both symbolic piano music generation and understanding. We devise a multi-level object selection strategy for different pre-training tasks of PianoBART, which can prevent information leakage or loss and enhance learning ability. The musical semantics captured in pre-training are fine-tuned for music generation and understanding tasks. Experiments demonstrate that PianoBART efficiently learns musical patterns and achieves outstanding performance in generating high-quality coherent pieces and comprehending music. Our code and supplementary material are available at https://github.com/RS2002/PianoBart.

We present the Yahoo Flickr Creative Commons 100 Million Dataset (YFCC100M), the largest public multimedia collection that has ever been released. The dataset contains a total of 100 million media objects, of which approximately 99.2 million are photos and 0.8 million are videos, all of which carry a Creative Commons license. Each media object in the dataset is represented by several pieces of metadata, e.g. Flickr identifier, owner name, camera, title, tags, geo, media source. The collection provides a comprehensive snapshot of how photos and videos were taken, described, and shared over the years, from the inception of Flickr in 2004 until early 2014. In this article we explain the rationale behind its creation, as well as the implications the dataset has for science, research, engineering, and development. We further present several new challenges in multimedia research that can now be expanded upon with our dataset.

Sparse autoencoders (SAEs) have emerged as a powerful tool for interpreting neural networks by extracting the concepts represented in their activations. However, choosing the size of the SAE dictionary (i.e. number of learned concepts) creates a tension: as dictionary size increases to capture more relevant concepts, sparsity incentivizes features to be split or absorbed into more specific features, leaving high-level features missing or warped. We introduce Matryoshka SAEs, a novel variant that addresses these issues by simultaneously training multiple nested dictionaries of increasing size, forcing the smaller dictionaries to independently reconstruct the inputs without using the larger dictionaries. This organizes features hierarchically - the smaller dictionaries learn general concepts, while the larger dictionaries learn more specific concepts, without incentive to absorb the high-level features. We train Matryoshka SAEs on Gemma-2-2B and TinyStories and find superior performance on sparse probing and targeted concept erasure tasks, more disentangled concept representations, and reduced feature absorption. While there is a minor tradeoff with reconstruction performance, we believe Matryoshka SAEs are a superior alternative for practical tasks, as they enable training arbitrarily large SAEs while retaining interpretable features at different levels of abstraction.

Perch is a performant pre-trained model for bioacoustics. It was trained in supervised fashion, providing both off-the-shelf classification scores for thousands of vocalizing species as well as strong embeddings for transfer learning. In this new release, Perch 2.0, we expand from training exclusively on avian species to a large multi-taxa dataset. The model is trained with self-distillation using a prototype-learning classifier as well as a new source-prediction training criterion. Perch 2.0 obtains state-of-the-art performance on the BirdSet and BEANS benchmarks. It also outperforms specialized marine models on marine transfer learning tasks, despite having almost no marine training data. We present hypotheses as to why fine-grained species classification is a particularly robust pre-training task for bioacoustics.

Can large language models (LLMs) accurately simulate the next web action of a specific user? While LLMs have shown promising capabilities in generating ``believable'' human behaviors, evaluating their ability to mimic real user behaviors remains an open challenge, largely due to the lack of high-quality, publicly available datasets that capture both the observable actions and the internal reasoning of an actual human user. To address this gap, we introduce OPERA, a novel dataset of Observation, Persona, Rationale, and Action collected from real human participants during online shopping sessions. OPERA is the first public dataset that comprehensively captures: user personas, browser observations, fine-grained web actions, and self-reported just-in-time rationales. We developed both an online questionnaire and a custom browser plugin to gather this dataset with high fidelity. Using OPERA, we establish the first benchmark to evaluate how well current LLMs can predict a specific user's next action and rationale with a given persona and <observation, action, rationale> history. This dataset lays the groundwork for future research into LLM agents that aim to act as personalized digital twins for human.

Large Language Models (LLMs) demonstrate remarkable generalizability across diverse tasks, yet genomic foundation models (GFMs) still require separate finetuning for each downstream application, creating significant overhead as model sizes grow. Moreover, existing GFMs are constrained by rigid output formats, limiting their applicability to various genomic tasks. In this work, we revisit the transformer-based auto-regressive models and introduce Omni-DNA, a family of cross-modal multi-task models ranging from 20 million to 1 billion parameters. Our approach consists of two stages: (i) pretraining on DNA sequences with next token prediction objective, and (ii) expanding the multi-modal task-specific tokens and finetuning for multiple downstream tasks simultaneously. When evaluated on the Nucleotide Transformer and GB benchmarks, Omni-DNA achieves state-of-the-art performance on 18 out of 26 tasks. Through multi-task finetuning, Omni-DNA addresses 10 acetylation and methylation tasks at once, surpassing models trained on each task individually. Finally, we design two complex genomic tasks, DNA2Function and Needle-in-DNA, which map DNA sequences to textual functional descriptions and images, respectively, indicating Omni-DNA's cross-modal capabilities to broaden the scope of genomic applications. All the models are available through https://huggingface.co/collections/zehui127

Learning generalist embodied agents, able to solve multitudes of tasks in different domains is a long-standing problem. Reinforcement learning (RL) is hard to scale up as it requires a complex reward design for each task. In contrast, language can specify tasks in a more natural way. Current foundation vision-language models (VLMs) generally require fine-tuning or other adaptations to be functional, due to the significant domain gap. However, the lack of multimodal data in such domains represents an obstacle toward developing foundation models for embodied applications. In this work, we overcome these problems by presenting multimodal foundation world models, able to connect and align the representation of foundation VLMs with the latent space of generative world models for RL, without any language annotations. The resulting agent learning framework, GenRL, allows one to specify tasks through vision and/or language prompts, ground them in the embodied domain's dynamics, and learns the corresponding behaviors in imagination. As assessed through large-scale multi-task benchmarking, GenRL exhibits strong multi-task generalization performance in several locomotion and manipulation domains. Furthermore, by introducing a data-free RL strategy, it lays the groundwork for foundation model-based RL for generalist embodied agents.

A central problem in biology is to understand how organisms evolve and adapt to their environment by acquiring variations in the observable characteristics or traits of species across the tree of life. With the growing availability of large-scale image repositories in biology and recent advances in generative modeling, there is an opportunity to accelerate the discovery of evolutionary traits automatically from images. Toward this goal, we introduce Phylo-Diffusion, a novel framework for conditioning diffusion models with phylogenetic knowledge represented in the form of HIERarchical Embeddings (HIER-Embeds). We also propose two new experiments for perturbing the embedding space of Phylo-Diffusion: trait masking and trait swapping, inspired by counterpart experiments of gene knockout and gene editing/swapping. Our work represents a novel methodological advance in generative modeling to structure the embedding space of diffusion models using tree-based knowledge. Our work also opens a new chapter of research in evolutionary biology by using generative models to visualize evolutionary changes directly from images. We empirically demonstrate the usefulness of Phylo-Diffusion in capturing meaningful trait variations for fishes and birds, revealing novel insights about the biological mechanisms of their evolution.

Controlling artificial agents from visual sensory data is an arduous task. Reinforcement learning (RL) algorithms can succeed but require large amounts of interactions between the agent and the environment. To alleviate the issue, unsupervised RL proposes to employ self-supervised interaction and learning, for adapting faster to future tasks. Yet, as shown in the Unsupervised RL Benchmark (URLB; Laskin et al. 2021), whether current unsupervised strategies can improve generalization capabilities is still unclear, especially in visual control settings. In this work, we study the URLB and propose a new method to solve it, using unsupervised model-based RL, for pre-training the agent, and a task-aware fine-tuning strategy combined with a new proposed hybrid planner, Dyna-MPC, to adapt the agent for downstream tasks. On URLB, our method obtains 93.59% overall normalized performance, surpassing previous baselines by a staggering margin. The approach is empirically evaluated through a large-scale empirical study, which we use to validate our design choices and analyze our models. We also show robust performance on the Real-Word RL benchmark, hinting at resiliency to environment perturbations during adaptation. Project website: https://masteringurlb.github.io/

We introduce VascX models, a comprehensive set of model ensembles for analyzing retinal vasculature from color fundus images (CFIs). Annotated CFIs were aggregated from public datasets for vessel, artery-vein, and disc segmentation; and fovea localization. Additional CFIs from the population-based Rotterdam Study were, with arteries and veins annotated by graders at pixel level. Our models achieved robust performance across devices from different vendors, varying levels of image quality levels, and diverse pathologies. Our models demonstrated superior segmentation performance compared to existing systems under a variety of conditions. Significant enhancements were observed in artery-vein and disc segmentation performance, particularly in segmentations of these structures on CFIs of intermediate quality, a common characteristic of large cohorts and clinical datasets. Our model outperformed human graders in segmenting vessels with greater precision. With VascX models we provide a robust, ready-to-use set of model ensembles and inference code aimed at simplifying the implementation and enhancing the quality of automated retinal vasculature analyses. The precise vessel parameters generated by the model can serve as starting points for the identification of disease patterns in and outside of the eye.

Historically, artificial intelligence has drawn much inspiration from neuroscience to fuel advances in the field. However, current progress in reinforcement learning is largely focused on benchmark problems that fail to capture many of the aspects that are of interest in neuroscience today. We illustrate this point by extending a T-maze task from neuroscience for use with reinforcement learning algorithms, and show that state-of-the-art algorithms are not capable of solving this problem. Finally, we point out where insights from neuroscience could help explain some of the issues encountered.

The ability for a machine learning model to cope with differences in training and deployment conditions--e.g. in the presence of distribution shift or the generalization to new classes altogether--is crucial for real-world use cases. However, most empirical work in this area has focused on the image domain with artificial benchmarks constructed to measure individual aspects of generalization. We present BIRB, a complex benchmark centered on the retrieval of bird vocalizations from passively-recorded datasets given focal recordings from a large citizen science corpus available for training. We propose a baseline system for this collection of tasks using representation learning and a nearest-centroid search. Our thorough empirical evaluation and analysis surfaces open research directions, suggesting that BIRB fills the need for a more realistic and complex benchmark to drive progress on robustness to distribution shifts and generalization of ML models.

Representing a scene and its constituent objects from raw sensory data is a core ability for enabling robots to interact with their environment. In this paper, we propose a novel approach for scene understanding, leveraging a hierarchical object-centric generative model that enables an agent to infer object category and pose in an allocentric reference frame using active inference, a neuro-inspired framework for action and perception. For evaluating the behavior of an active vision agent, we also propose a new benchmark where, given a target viewpoint of a particular object, the agent needs to find the best matching viewpoint given a workspace with randomly positioned objects in 3D. We demonstrate that our active inference agent is able to balance epistemic foraging and goal-driven behavior, and outperforms both supervised and reinforcement learning baselines by a large margin.

Images are increasingly becoming the currency for documenting biodiversity on the planet, providing novel opportunities for accelerating scientific discoveries in the field of organismal biology, especially with the advent of large vision-language models (VLMs). We ask if pre-trained VLMs can aid scientists in answering a range of biologically relevant questions without any additional fine-tuning. In this paper, we evaluate the effectiveness of 12 state-of-the-art (SOTA) VLMs in the field of organismal biology using a novel dataset, VLM4Bio, consisting of 469K question-answer pairs involving 30K images from three groups of organisms: fishes, birds, and butterflies, covering five biologically relevant tasks. We also explore the effects of applying prompting techniques and tests for reasoning hallucination on the performance of VLMs, shedding new light on the capabilities of current SOTA VLMs in answering biologically relevant questions using images. The code and datasets for running all the analyses reported in this paper can be found at https://github.com/sammarfy/VLM4Bio.

Fishes are integral to both ecological systems and economic sectors, and studying fish traits is crucial for understanding biodiversity patterns and macro-evolution trends. To enable the analysis of visual traits from fish images, we introduce the Fish-Visual Trait Analysis (Fish-Vista) dataset - a large, annotated collection of about 60K fish images spanning 1900 different species, supporting several challenging and biologically relevant tasks including species classification, trait identification, and trait segmentation. These images have been curated through a sophisticated data processing pipeline applied to a cumulative set of images obtained from various museum collections. Fish-Vista provides fine-grained labels of various visual traits present in each image. It also offers pixel-level annotations of 9 different traits for 2427 fish images, facilitating additional trait segmentation and localization tasks. The ultimate goal of Fish-Vista is to provide a clean, carefully curated, high-resolution dataset that can serve as a foundation for accelerating biological discoveries using advances in AI. Finally, we provide a comprehensive analysis of state-of-the-art deep learning techniques on Fish-Vista.

While large-scale neural language models, such as GPT2 and BART, have achieved impressive results on various text generation tasks, they tend to get stuck in undesirable sentence-level loops with maximization-based decoding algorithms (e.g., greedy search). This phenomenon is counter-intuitive since there are few consecutive sentence-level repetitions in human corpora (e.g., 0.02\% in Wikitext-103). To investigate the underlying reasons for generating consecutive sentence-level repetitions, we study the relationship between the probabilities of the repetitive tokens and their previous repetitions in the context. Through our quantitative experiments, we find that 1) Language models have a preference to repeat the previous sentence; 2) The sentence-level repetitions have a self-reinforcement effect: the more times a sentence is repeated in the context, the higher the probability of continuing to generate that sentence; 3) The sentences with higher initial probabilities usually have a stronger self-reinforcement effect. Motivated by our findings, we propose a simple and effective training method DITTO (PseuDo-RepetITion PenalizaTiOn), where the model learns to penalize probabilities of sentence-level repetitions from pseudo repetitive data. Although our method is motivated by mitigating repetitions, experiments show that DITTO not only mitigates the repetition issue without sacrificing perplexity, but also achieves better generation quality. Extensive experiments on open-ended text generation (Wikitext-103) and text summarization (CNN/DailyMail) demonstrate the generality and effectiveness of our method.

We present BARTpho with two versions, BARTpho-syllable and BARTpho-word, which are the first public large-scale monolingual sequence-to-sequence models pre-trained for Vietnamese. BARTpho uses the "large" architecture and the pre-training scheme of the sequence-to-sequence denoising autoencoder BART, thus it is especially suitable for generative NLP tasks. We conduct experiments to compare our BARTpho with its competitor mBART on a downstream task of Vietnamese text summarization and show that: in both automatic and human evaluations, BARTpho outperforms the strong baseline mBART and improves the state-of-the-art. We further evaluate and compare BARTpho and mBART on the Vietnamese capitalization and punctuation restoration tasks and also find that BARTpho is more effective than mBART on these two tasks. We publicly release BARTpho to facilitate future research and applications of generative Vietnamese NLP tasks. Our BARTpho models are available at https://github.com/VinAIResearch/BARTpho

Inductive transfer learning has taken the entire NLP field by storm, with models such as BERT and BART setting new state of the art on countless NLU tasks. However, most of the available models and research have been conducted for English. In this work, we introduce BARThez, the first large-scale pretrained seq2seq model for French. Being based on BART, BARThez is particularly well-suited for generative tasks. We evaluate BARThez on five discriminative tasks from the FLUE benchmark and two generative tasks from a novel summarization dataset, OrangeSum, that we created for this research. We show BARThez to be very competitive with state-of-the-art BERT-based French language models such as CamemBERT and FlauBERT. We also continue the pretraining of a multilingual BART on BARThez' corpus, and show our resulting model, mBARThez, to significantly boost BARThez' generative performance. Code, data and models are publicly available.

As the model size of pre-trained language models (PLMs) grows rapidly, full fine-tuning becomes prohibitively expensive for model training and storage. In vision-and-language (VL), parameter-efficient tuning (PET) techniques are proposed to integrate modular modifications (e.g., Adapter and LoRA) into encoder-decoder PLMs. By tuning a small set of trainable parameters, these techniques perform on par with full fine-tuning. However, excessive modular modifications and neglecting the functionality gap between the encoders and decoders can lead to performance degradation, while existing PET techniques (e.g., VL-Adapter) overlook these critical issues. In this paper, we propose a Vision-and-Language Parameter-Efficient Tuning (VL-PET) framework to impose effective control over modular modifications via a novel granularity-controlled mechanism. Considering different granularity-controlled matrices generated by this mechanism, a variety of model-agnostic VL-PET modules can be instantiated from our framework for better efficiency and effectiveness trade-offs. We further propose lightweight PET module designs to enhance VL alignment and modeling for the encoders and maintain text generation for the decoders. Extensive experiments conducted on four image-text tasks and four video-text tasks demonstrate the efficiency, effectiveness and transferability of our VL-PET framework. In particular, our VL-PET-large with lightweight PET module designs significantly outperforms VL-Adapter by 2.92% (3.41%) and LoRA by 3.37% (7.03%) with BART-base (T5-base) on image-text tasks. Furthermore, we validate the enhanced effect of employing our VL-PET designs on existing PET techniques, enabling them to achieve significant performance improvements. Our code is available at https://github.com/HenryHZY/VL-PET.

We present VBART, the first Turkish sequence-to-sequence Large Language Models (LLMs) pre-trained on a large corpus from scratch. VBART are compact LLMs based on good ideas leveraged from BART and mBART models and come in two sizes, Large and XLarge. Fine-tuned VBART models surpass the prior state-of-the-art results in abstractive text summarization, title generation, text paraphrasing, question answering and question generation tasks. They allow fine-tuning for future text generation tasks and datasets, carving a new path for Turkish Natural Language Processing (NLP) research. Our work shows that having a pre-trained LLM for Turkish outperforms up to 3x multilingual models, improving existing results and providing efficient models for training and inference. Moreover, we show that our monolingual tokenizer is 7x more efficient than OpenAI's multilingual tokenizer. Last but not least, we introduce a method to enlarge an existing pre-trained LLM and question the relevancy of Chinchilla Scaling Law to sequence-to-sequence masked language models. Our fine-tuned models, tokenizer and cleaned web corpus of 135 GB are publicly available at huggingface.co/vngrs-ai.

This paper demonstrates that multilingual denoising pre-training produces significant performance gains across a wide variety of machine translation (MT) tasks. We present mBART -- a sequence-to-sequence denoising auto-encoder pre-trained on large-scale monolingual corpora in many languages using the BART objective. mBART is one of the first methods for pre-training a complete sequence-to-sequence model by denoising full texts in multiple languages, while previous approaches have focused only on the encoder, decoder, or reconstructing parts of the text. Pre-training a complete model allows it to be directly fine tuned for supervised (both sentence-level and document-level) and unsupervised machine translation, with no task-specific modifications. We demonstrate that adding mBART initialization produces performance gains in all but the highest-resource settings, including up to 12 BLEU points for low resource MT and over 5 BLEU points for many document-level and unsupervised models. We also show it also enables new types of transfer to language pairs with no bi-text or that were not in the pre-training corpus, and present extensive analysis of which factors contribute the most to effective pre-training.

The era of transfer learning has revolutionized the fields of Computer Vision and Natural Language Processing, bringing powerful pretrained models with exceptional performance across a variety of tasks. Specifically, Natural Language Processing tasks have been dominated by transformer-based language models. In Natural Language Inference and Natural Language Generation tasks, the BERT model and its variants, as well as the GPT model and its successors, demonstrated exemplary performance. However, the majority of these models are pretrained and assessed primarily for the English language or on a multilingual corpus. In this paper, we introduce GreekBART, the first Seq2Seq model based on BART-base architecture and pretrained on a large-scale Greek corpus. We evaluate and compare GreekBART against BART-random, Greek-BERT, and XLM-R on a variety of discriminative tasks. In addition, we examine its performance on two NLG tasks from GreekSUM, a newly introduced summarization dataset for the Greek language. The model, the code, and the new summarization dataset will be publicly available.

Understanding procedural natural language (e.g., step-by-step instructions) is a crucial step to execution and planning. However, while there are ample corpora and downstream tasks available in English, the field lacks such resources for most languages. To address this gap, we conduct a case study on Turkish procedural texts. We first expand the number of tutorials in Turkish wikiHow from 2,000 to 52,000 using automated translation tools, where the translation quality and loyalty to the original meaning are validated by a team of experts on a random set. Then, we generate several downstream tasks on the corpus, such as linking actions, goal inference, and summarization. To tackle these tasks, we implement strong baseline models via fine-tuning large language-specific models such as TR-BART and BERTurk, as well as multilingual models such as mBART, mT5, and XLM. We find that language-specific models consistently outperform their multilingual models by a significant margin across most procedural language understanding (PLU) tasks. We release our corpus, downstream tasks and the baseline models with https://github.com/ GGLAB-KU/turkish-plu.

Artificial intelligence systems significantly impact the environment, particularly in natural language processing (NLP) tasks. These tasks often require extensive computational resources to train deep neural networks, including large-scale language models containing billions of parameters. This study analyzes the trade-offs between energy consumption and performance across three neural language models: two pre-trained models (T5-base and BART-base), and one large language model (LLaMA 3-8B). These models were fine-tuned for the text summarization task, focusing on generating research paper highlights that encapsulate the core themes of each paper. A wide range of evaluation metrics, including ROUGE, METEOR, MoverScore, BERTScore, and SciBERTScore, were employed to assess their performance. Furthermore, the carbon footprint associated with fine-tuning each model was measured, offering a comprehensive assessment of their environmental impact. This research underscores the importance of incorporating environmental considerations into the design and implementation of neural language models and calls for the advancement of energy-efficient AI methodologies.

Traditional keyphrase prediction methods predict a single set of keyphrases per document, failing to cater to the diverse needs of users and downstream applications. To bridge the gap, we introduce on-demand keyphrase generation, a novel paradigm that requires keyphrases that conform to specific high-level goals or intents. For this task, we present MetaKP, a large-scale benchmark comprising four datasets, 7500 documents, and 3760 goals across news and biomedical domains with human-annotated keyphrases. Leveraging MetaKP, we design both supervised and unsupervised methods, including a multi-task fine-tuning approach and a self-consistency prompting method with large language models. The results highlight the challenges of supervised fine-tuning, whose performance is not robust to distribution shifts. By contrast, the proposed self-consistency prompting approach greatly improves the performance of large language models, enabling GPT-4o to achieve 0.548 SemF1, surpassing the performance of a fully fine-tuned BART-base model. Finally, we demonstrate the potential of our method to serve as a general NLP infrastructure, exemplified by its application in epidemic event detection from social media.

Theano is a Python library that allows to define, optimize, and evaluate mathematical expressions involving multi-dimensional arrays efficiently. Since its introduction, it has been one of the most used CPU and GPU mathematical compilers - especially in the machine learning community - and has shown steady performance improvements. Theano is being actively and continuously developed since 2008, multiple frameworks have been built on top of it and it has been used to produce many state-of-the-art machine learning models. The present article is structured as follows. Section I provides an overview of the Theano software and its community. Section II presents the principal features of Theano and how to use them, and compares them with other similar projects. Section III focuses on recently-introduced functionalities and improvements. Section IV compares the performance of Theano against Torch7 and TensorFlow on several machine learning models. Section V discusses current limitations of Theano and potential ways of improving it.

The recently launched James Webb Space Telescope (JWST) is opening new observing windows on the distant universe. Among JWST's instruments, the Mid Infrared Instrument (MIRI) offers the unique capability of imaging observations at wavelengths lambda > 5mum. This enables unique access to the rest frame near infra-red (NIR, lambda ge 1\mum) emission from galaxies at redshifts z>4 and the visual (lambda gtrsim 5000\AA) rest frame for z>9. We here report on the guaranteed time observations (GTO) from the MIRI European Consortium, of the Hubble Ultra Deep Field (HUDF), forming the MIRI Deep Imaging Survey (MIDIS), consisting of an on source integration time of sim41 hours in the MIRI/F560W (5.6 mum) filter. To our knowledge, this constitutes the longest single filter exposure obtained with JWST of an extragalactic field as yet.