# SANE Schema-aware Natural-language Evaluation of Biological Data

arXiv: https://arxiv.org/abs/2606.04500 · HTML: https://mlsanity.com/paper/2606.04500/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 17 of its 21 references that are in the map.
- First posted on arXiv 3 Jun 2026.

## Builds on (most cited first, 17 of 17)

- [Language Models are Few-Shot Learners](https://mlsanity.com/paper/2005.14165/) (2020)
- [The Llama 3 Herd of Models](https://mlsanity.com/paper/2407.21783/) (2024)
- [Exploring the Limits of Transfer Learning with a Unified Text-to-Text Transformer](https://mlsanity.com/paper/1910.10683/) (2019)
- [Efficient Memory Management for Large Language Model Serving with PagedAttention](https://mlsanity.com/paper/2309.06180/) (2023)
- [Spider: A Large-Scale Human-Labeled Dataset for Complex and Cross-Domain Semantic Parsing and Text-to-SQL Task](https://mlsanity.com/paper/1809.08887/) (2018)
- [Can LLM Already Serve as A Database Interface? A BIg Bench for Large-Scale Database Grounded Text-to-SQLs](https://mlsanity.com/paper/2305.03111/) (2023)
- [Seq2SQL: Generating Structured Queries from Natural Language using Reinforcement Learning](https://mlsanity.com/paper/1709.00103/) (2017)
- [DIN-SQL: Decomposed In-Context Learning of Text-to-SQL with Self-Correction](https://mlsanity.com/paper/2304.11015/) (2023)
- [RAT-SQL: Relation-Aware Schema Encoding and Linking for Text-to-SQL Parsers](https://mlsanity.com/paper/1911.04942/) (2019)
- [PICARD: Parsing Incrementally for Constrained Auto-Regressive Decoding from Language Models](https://mlsanity.com/paper/2109.05093/) (2021)
- [Text-to-SQL Empowered by Large Language Models: A Benchmark Evaluation](https://mlsanity.com/paper/2308.15363/) (2023)
- [Why Language Models Hallucinate](https://mlsanity.com/paper/2509.04664/) (2025)
- [CoSQL: A Conversational Text-to-SQL Challenge Towards Cross-Domain Natural Language Interfaces to Databases](https://mlsanity.com/paper/1909.05378/) (2019)
- [SParC: Cross-Domain Semantic Parsing in Context](https://mlsanity.com/paper/1906.02285/) (2019)
- [SQLNet: Generating Structured Queries From Natural Language Without Reinforcement Learning](https://mlsanity.com/paper/1711.04436/) (2017)
- [LGESQL: Line Graph Enhanced Text-to-SQL Model with Mixed Local and Non-Local Relations](https://mlsanity.com/paper/2106.01093/) (2021)
- [Large Language Models Hallucination: A Comprehensive Survey](https://mlsanity.com/paper/2510.06265/) (2025)

## Abstract (arXiv)

High-throughput microscopy generates large, structured datasets capturing cellular responses to pharmacological perturbations, but accessing these datasets typically requires SQL expertise. Large language models offer a natural-language alternative, yet their tendency to hallucinate raises concerns about result reliability . We present SANE Schema-Aware Natural-language Evaluation, a novel paradigm for domain-specific text-to-SQL evaluation: schema-grounded, automatically generated benchmarks tied to real and specific experimental structure. SANE makes evaluation more scalable, systematic, and reproducible. Using SANE, we evaluate a few-shot large language model and show that, under constrained schemas with structured prompting and guardrails, accurate query generation is achievable without any model training or fine-tuning. Most failures stem from ambiguous or underspecified inputs and manifest as overly cautious clarification requests or answers to queries that should first be disambiguated, rather than incorrect SQL generation. These results indicate that few-shot large language models can provide reliable database access in well-defined domains when combined with schema-aware prompting.