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Ido Amit

Publications and source records attributed to Ido Amit.

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Evaluating LLM Uncertainty in Long-Form Generation Using Deterministic Ground Truth

As LLMs generate increasingly long outputs, effective uncertainty estimation must identify errors at fine-grained levels rather than discard entire responses. While such methods exist, evaluating uncertainty at any resolution (token to an entire generation) is challenging and highly sensitive to label imperfections, making zero-noise benchmarks essential; yet, long-form generation benchmarks tend to rely on fallible labels rather than deterministic ground truth. We introduce Single-answer Atomic Long-form Target (SALT), a benchmark of six procedurally generated tasks with single deterministic long textual ground truths, enabling unit-level evaluation of correctness, calibration, and ranking without external judges. Equipped with SALT, our analysis of 50+ LLMs reveals key insights: We identify which confidence functions dominate each uncertainty aspect and show that confidence ranking largely breaks at atomic resolution, even when clearer separability emerges at coarser line-level units. SALT further enables controlled atom-level interventions throughout generation, revealing two separable drivers of future errors: propagation from corrupted prefixes, dominated by global context correctness, and bounded degradation from increasing answer-context length. Finally, we demonstrate that reasoning, via Chain-of-Thought prompting or internalized through training, introduces a trade-off, improving accuracy while degrading confidence ranking. These findings directly impact risk-critical applications requiring reliable error identification and mitigation.

cs.AI

The Human Cell Atlas White Paper

The Human Cell Atlas (HCA) will be made up of comprehensive reference maps of all human cells - the fundamental units of life - as a basis for understanding fundamental human biological processes and diagnosing, monitoring, and treating disease. It will help scientists understand how genetic variants impact disease risk, define drug toxicities, discover better therapies, and advance regenerative medicine. A resource of such ambition and scale should be built in stages, increasing in size, breadth, and resolution as technologies develop and understanding deepens. We will therefore pursue Phase 1 as a suite of flagship projects in key tissues, systems, and organs. We will bring together experts in biology, medicine, genomics, technology development and computation (including data analysis, software engineering, and visualization). We will also need standardized experimental and computational methods that will allow us to compare diverse cell and tissue types - and samples across human communities - in consistent ways, ensuring that the resulting resource is truly global. This document, the first version of the HCA White Paper, was written by experts in the field with feedback and suggestions from the HCA community, gathered during recent international meetings. The White Paper, released at the close of this yearlong planning process, will be a living document that evolves as the HCA community provides additional feedback, as technological and computational advances are made, and as lessons are learned during the construction of the atlas.

q-bio.TO