Area of research
Molecular Biology
Research interest
Research interests include Genomics and Phylogenetic Studies, RNA and protein synthesis mechanisms, Machine Learning in Bioinformatics, and RNA modifications and cancer.
Presence of group II introns in phage genomes
Mammalian cells repress random DNA that yeast transcribes
ORFeus: a computational method to detect programmed ribosomal frameshifts and other non-canonical translation events
Mixing genome annotation methods in a comparative analysis inflates the apparent number of lineage-specific genes
Codetta: predicting the genetic code from nucleotide sequence
Constructing benchmark test sets for biological sequence analysis using independent set algorithms
Rfam 14: expanded coverage of metagenomic, viral and microRNA families
A genetic, genomic, and computational resource for exploring neural circuit function
Many, but not all, lineage-specific genes can be explained by homology detection failure
Estimating the power of sequence covariation for detecting conserved RNA structure
Remote homology search with hidden Potts models
Representation learning of genomic sequence motifs with convolutional neural networks
Free circular introns with an unusual branchpoint in neuronal projections
The Pfam protein families database in 2019
HMMER web server: 2018 update
Group I introns are widespread in archaea
Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families
Identification and Characterization of a Class of MALAT1-like Genomic Loci
A statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs
Epigenomic landscapes of retinal rods and cones
The Pfam protein families database: towards a more sustainable future
The Dfam database of repetitive DNA families
Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain
Combinatorial DNA rearrangement facilitates the origin of new genes in ciliates
Computational Analysis of Conserved RNA Secondary Structure in Transcriptomes and Genomes
Pfam: the protein families database
The Oxytricha trifallax Macronuclear Genome: A Complex Eukaryotic Genome with 16,000 Tiny Chromosomes
Transcription Factors That Convert Adult Cell Identity Are Differentially Polycomb Repressed
Rfam 11.0: 10 years of RNA families
Cell type–specific genomics of Drosophila neurons