Jeffrey Huang

Leonid Boytsov, David Akinpelu, Nipun Katyal et al. · amazon-science

We tested over 20 Transformer models for ranking long documents (including recent LongP models trained with FlashAttention and RankGPT models "powered" by OpenAI and Anthropic cloud APIs). We compared them with the simple FirstP baseline, which applied the same model to truncated input (up to 512 tokens). On MS MARCO, TREC DL, and Robust04 no long-document model outperformed FirstP by more than 5% (on average). We hypothesized that this lack of improvement is not due to inherent model limitations, but due to benchmark positional bias (most relevant passages tend to occur early in documents), which is known to exist in MS MARCO. To confirm this, we analyzed positional relevance distributions across four long-document corpora (with six query sets) and observed the same early-position bias. Surprisingly, we also found bias in six BEIR collections, which are typically categorized as short-document datasets. We then introduced a new diagnostic dataset, MS MARCO FarRelevant, where relevant spans were deliberately placed beyond the first 512 tokens. On this dataset, many long-context models (including RankGPT) performed at random-baseline level, suggesting overfitting to positional bias. We also experimented with debiasing training data, but with limited success. Our findings (1) highlight the need for careful benchmark design in evaluating long-context models for document ranking, (2) identify model types that are more robust to positional bias, and (3) motivate further work on approaches to debias training data. We release our code and data to support further research.

Aakash Kaku, Chaitra V. Hegde, Jeffrey Huang et al.

Quantitative, volumetric analysis of Magnetic Resonance Imaging (MRI) is a fundamental way researchers study the brain in a host of neurological conditions including normal maturation and aging. Despite the availability of open-source brain segmentation software, widespread clinical adoption of volumetric analysis has been hindered due to processing times and reliance on manual corrections. Here, we extend the use of deep learning models from proof-of-concept, as previously reported, to present a comprehensive segmentation of cortical and deep gray matter brain structures matching the standard regions of aseg+aparc included in the commonly used open-source tool, Freesurfer. The work presented here provides a real-life, rapid deep learning-based brain segmentation tool to enable clinical translation as well as research application of quantitative brain segmentation. The advantages of the presented tool include short (~1 minute) processing time and improved segmentation quality. This is the first study to perform quick and accurate segmentation of 102 brain regions based on the surface-based protocol (DMK protocol), widely used by experts in the field. This is also the first work to include an expert reader study to assess the quality of the segmentation obtained using a deep-learning-based model. We show the superior performance of our deep-learning-based models over the traditional segmentation tool, Freesurfer. We refer to the proposed deep learning-based tool as DARTS (DenseUnet-based Automatic Rapid Tool for brain Segmentation). Our tool and trained models are available at https://github.com/NYUMedML/DARTS