Keren Isaev

This study demonstrates the production of PHA bioplastic from simulated 100% Martian resources using engineered microbes.

This paper introduces DMM, a defined Mars media simulating Martian regolith nutrients and stressors, and demonstrates microbial growth using it.

BioBloom enables whole-genome barcoded saturation mutagenesis in E. coli, identifying beneficial mutations under salt and antibiotic selection with high coverage and efficiency.

Orthrus is a Mamba-based RNA foundation model pre-trained with biological augmentations and contrastive learning, achieving better mRNA property prediction than existing models with less fine-tuning data.

The paper identifies aging-associated alternative splicing programs in human and mouse tissues using scRNA-seq and introduces LeafletFA for discovering coordinated splicing programs.

SpliceVI integrates sparse single-cell alternative splicing and gene expression data to better capture biological correlates and uncover splicing-based differences in mouse cells.

The paper develops a CRISPR/Cas13d-based method to specifically knockdown RNA isoforms and provides computational tools for experimental design and analysis.

The paper introduces Leaflet, a binomial mixture model for analyzing alternative splicing in single-cell data, and applies it to the Tabula Muris brain dataset to identify cell-state specific splicing patterns.

The paper introduces the Cancer LncRNA Census (CLC), a curated resource of lncRNAs with causative roles in cancer, and shows their genomic and evolutionary features.

ActivePathways integrates multivariate omics data to identify enriched pathways, revealing cancer driver genes and prognostic pathways in breast cancer.

The paper identifies and characterizes coding and non-coding driver mutations across 2,500 cancer genomes, revealing new candidates and questioning previous findings.