Loss of macroevolutionary species fitness explains the rise and fall of clades
Raup, D. M. Biological extinction in Earth history. Science 231, 1528–1533 (1986). Article CAS PubMed Google Scholar Benton,…
Nucleotide dependency analysis of genomic language models detects functional elements
SpeciesLM training For SpeciesLM metazoa, we obtained metazoan genomes comprising 494 different species from the Ensembl 110 database36.…
CellNavi predicts genes directing cellular transitions by learning a gene graph-enhanced cell state manifold
Input embeddings In CellNavi, we use single-cell raw count matrices as the only input. Specifically, the single-cell sequencing…
Spatial architecture of development and disease
Bressan, D., Battistoni, G. & Hannon, G. J. The dawn of spatial omics. Science 381, eabq4964 (2023). Article …
The Biodiversity Cell Atlas: mapping the tree of life at cellular resolution
Goffeau, A. et al. Life with 6000 genes. Science 274, 546–567 (1996). Article ADS CAS PubMed Google Scholar …
CRISPR-GPT for agentic automation of gene-editing experiments
Building AI co-pilot harnessing LLM’s reasoning ability CRISPR-GPT supports four major gene-editing modalities and 22 gene-editing experiment tasks…
Predicting resistance to chemotherapy using chromosomal instability signatures
CIN signatures as biomarkers of chemotherapy resistance The presence of CIN in a tumor has long been recognized…