Ivan Yevshin

This study identifies DNA binding motifs for 98 human transcription factors using meSMiLE-seq, revealing methylation-sensitive binding preferences for some TFs.

The paper uses GHT-SELEX to show many human TFs have high intrinsic sequence specificity and complex DNA binding, often matching in vivo ChIP-seq results.

The paper evaluates cross-platform DNA motif discovery tools using 4,237 experiments to identify reliable transcription factor binding motifs and highlights challenges in motif detection.

The paper predicts and annotates alternative transcription starts and promoter shifts in the chicken genome using CAGE data, revealing that housekeeping genes may use single sharp promoters and undergo significant promoter shifts.

The paper systematically determines the sequence specificity of 332 poorly characterized human transcription factors, identifying over 4,000 experiments and revealing tens of thousands of new TF binding sites.

The paper identifies allele-specific transcription factor binding events across the human genome using ChIP-Seq data, revealing regulatory variants linked to disease and molecular mechanisms.