C. Joel McManus

A back-splicing circRNA reporter yields linear trans-spliced artifacts; in orthogonal assays three reported cellular IRESes are inactive, and Iso-Seq 5' ends agree with nAnT-iCAGE start sites.

The paper identifies two distinct classes of Ume6 target genes in Candida albicans biofilm regulation, showing that Ume6 binding to half of its targets requires known partners while the other half may bind independently or with unknown partners.

The paper introduces IRES-TrAPPr, a method to quantify CDI and IRES activity, revealing that viral IRESes from warm-blooded hosts are more structurally stable and many DNA-based IRES candidates have negligible activity.

The paper shows that Ded1 in yeast primarily stimulates translation by unwinding 5' UTR structures, not by suppressing upstream ORF translation.

The paper introduces WhAMPRA, an in vivo MPRA platform in mice, to assess tissue-specific regulatory functions of genetic variants and enhancers.

This study investigates the roles of P-body factors Dhh1 and Edc3 in Candida albicans filamentation and stress response, finding that Dhh1 is critical for growth, heat tolerance, and transcriptome regulation, while Edc3 is not required for these processes.

The paper quantifies the impact of cis-regulatory features in yeast transcript leaders on gene expression using MPRAs and identifies key sequence elements influencing translation and mRNA stability.

The paper quantifies yeast uORF activity using reporter assays and machine learning, showing sequence and position both strongly influence uORF function.

The paper challenges the functional significance of IRESes in Hox gene hTLs by showing they are not conserved and instead function as transcriptional promoters.