Artem Babaian

This study identifies self-cleaving ribozymes in RNA viruses, showing their role in translation initiation across fungi and plants.

This study identifies a mycovirus, CnTV1, that persists in RNAi-deficient Cryptococcus neoformans isolates due to a NUMT insertion disrupting Ago1, and shows RNAi is critical for viral control.

The paper identifies HSV-1 reactivation in healthy brain tissue using petabase-scale sequencing data and links it to neuronal loss in dementia.

The paper searches a petabase-scale dataset to discover new Papillomaviruses, identifying 383 novel types across 105 host species and highlighting biodiversity hotspots.

Assembling the Sequence Read Archive (27.3 million accessions) with over 100-fold compression enables minutes-scale k-mer search and mining of enzymes, plasmids, proteins and viral reactivation.

The paper uses petabase-scale homology searches from SRA data to improve protein structure prediction accuracy using ColabFold, achieving better results than default methods.

The paper introduces Palmscan, an algorithm for identifying polymerase palmprints in viral sequences, and PALMdb, a database of these palmprints, to classify riboviruses based on polymerase sequence identity.

The paper develops a cloud computing infrastructure for petabase-scale sequence alignment, identifying over 105 novel RNA viruses and expanding known species by an order of magnitude.

LIONS detects and quantifies TE-initiated transcripts from RNA-seq data by addressing computational limitations in TE transcription analysis.

bioSyntax provides syntax highlighting tools for computational biology data formats to improve readability and efficiency.

The paper identifies extensive genetic variation in human ribosomal DNA, revealing intra- and inter-individual diversity in rRNA sequences.