Matthew S. Adams

Benchmarking six long-read RNA-seq protocol-platform combinations and 14 tools across human, mouse, and manatee shows read length and accuracy drive isoform detection, depth drives quantification.

The paper generates a mouse multi-tissue genome annotation atlas using long-read sequencing and the Mandalorion tool, providing tissue-specific transcript isoform information.

Mandalorion v4 improves isoform identification and quantification from full-length transcriptome sequencing data, showing high precision and recall even without genome annotation.

The paper demonstrates that Illumina short-read libraries can be sequenced on the ONT MinION with high accuracy using the R2C2 method, achieving error rates comparable to Illumina MiSeq.

The paper demonstrates a chromosome-scale genome assembly of a single outbred Drosophila melanogaster using a hybrid method with low input DNA.

The paper uses full-length cDNA sequencing to accurately characterize the human immune cell transcriptome, enabling HLA allele typing and adaptive immune receptor repertoire analysis.