
machine learning engineer | @DataTecnica | @NIH @BiomedArena | @uvmvermont | views/tweets are my own
Washington, DC
Joined December 2022
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Mathew Koretsky retweeted
NEW Resource: CARDBiomedBench: a benchmark for evaluating the performance of #LLMs in biomedical research.
Read it here: buff.ly/FQm6OEu
Mathew Koretsky retweeted
🚀 We just launched DTAgent-AD, a scientific reasoning agent built to accelerate biomedical research and specialized Alzheimer’s & neurodegenerative disease research.
DTAgent-AD is a domain-tuned agent trained on trace data from real biomedical tasks, not a general chatbot.
Mathew Koretsky retweeted
🚨New LLM benchmark🚨 We're releasing BiomedSQL🔬 for tabular reasoning over large-scale biomedical databases. This includes questions based on implicit scientific conventions—like statistical thresholds, effect direction, and drug approval status.
📄 Preprint: arxiv.org/pdf/2505.20321
📊 Dataset: huggingface.co/datasets/NIH-…
Lead by Matt Koretsky at @DataTecnica
Mathew Koretsky retweeted
Long-form inputs (e.g., needle-in-haystack setups) are the crucial aspect of high-impact LLM applications. While previous studies have flagged issues like positional bias and distracting documents, they've missed a crucial element: the size of the gold/relevant context.
In our latest study, we look into how the size of these gold contexts impacts LLM performance in needle-in-a-haystack scenarios. The verdict? **Smaller gold contexts severely amplify positional bias.**
Why should you care? If you're developing LLMs to sift through large number of documents of varying sizes, beware: a smaller gold document among larger distractions can throw your pipeline off course. Basically, practitioners needs to keep an eye not only on the position of the likely gold document but also on its size relative to others.
📄Read the preprint: arxiv.org/abs/2505.18148
Work lead by Owen Bianchi and other collaborators at @DataTecnica
Mathew Koretsky retweeted
Great work from many of our teammates! Let's accelerate data harmonization!
A new AI-assisted data standard accelerates interoperability in biomedical research medrxiv.org/cgi/content/shor… #medRxiv
Mathew Koretsky retweeted
GenoTools: An Open-Source Python Package for Efficient Genotype Data Quality Control and Analysis biorxiv.org/cgi/content/shor… #biorxiv_genomic
Mathew Koretsky retweeted
Koretsky et al. use genome-wide data to cluster patients based on genetic status across risk variants for five neurodegenerative disorders. The results suggest that neurodegenerative diseases have more overlapping genetic aetiology than previously assumed. tinyurl.com/yt39brkt
Mathew Koretsky retweeted
Genetic risk factor clustering within and across neurodegenerative conditions (such as #Parkinsons, #Alzheimers, #ALS) - from @HamptonLLeonard & colleagues; "Neurodegenerative diseases have more overlapping genetic etiology than previously expected"
academic.oup.com/brain/advan…
Mathew Koretsky retweeted
Been a great day for publications from the team. @mkoretsky1 and the team great job on showing genetic overlap and in some instances a depletion of genetic risk across and within neurodegenerative diseases. – at Nashville, TN
Genetic risk factor clustering within and across neurodegenerative conditions (such as #Parkinsons, #Alzheimers, #ALS) - from @HamptonLLeonard & colleagues; "Neurodegenerative diseases have more overlapping genetic etiology than previously expected"
academic.oup.com/brain/advan…
















