Author

Maya Lemmon-Kishi

University of California, BerkeleyORCID 0009-0000-1012-1082Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Ecology· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Assay:DNA methylation· 1 Approach:statistical model· 1 Approach:transformer / foundation model· 1 Research Focus:variant calling· 1

Frequent Co-Authors

Rasmus NielseniD· 2 shared Bianca De SanctisiD· 1 shared Fiona Margaret CallahaniD· 1 shared Jacky Kaiyuan LiiD· 1 shared Lenore PipesiD· 1 shared Levi Yoder RaskiniD· 1 shared Robin RheemiD· 1 shared Wonseop LimiD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

8 top collaborators · 18 mutual co-author links

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2 shared papersEcology

Rasmus NielsenORCID

Mutual co-authors in cluster

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2 papers

Recent·Most cited

STEM-LM: Spatio-Temporal Ecological Modeling via Masked Language Model for Multi-Species Distribution

Jacky Kaiyuan Li, Wonseop Lim, Robin Rheem, Fiona Margaret Callahan, Levi Yoder Raskin, Maya Lemmon-Kishi, Rasmus Nielsen

STEM-LM uses masked language modeling to predict multi-species distributions by treating species presence as tokens in a spatio-temporal 'sentence', achieving high discrimination on ecological datasets.

bioRxiv · Oct 6, 2026 · PreprintEcology

Molecular Clock Dating of Ancient Environmental DNA Reveals Damage Beyond Deamination

Maya Lemmon-Kishi, Lenore Pipes, Bianca De Sanctis, Rasmus Nielsen

The paper introduces ratePlacer, a method for dating ancient environmental DNA by accounting for DNA damage, showing it outperforms existing methods but highlights challenges in age estimation.

bioRxiv · Jul 7, 2026 · PreprintBioinformatics