Web14 giu 2024 · The in vitro DAP-seq technique 15,16,17, ... We investigated TF co-associations and TF-targets gene regulatory networks using TF-related ChIP-seq experiments in Arabidopsis. Web24 apr 2024 · It was reported that many DAP-seq binding sites (∼180 000) are occluded by DNA methylation, which is likely to affect the binding of TFs. However, our result shows that, compared to using regular DAP-seq binding sites, the merged set of DAP-seq binding sites does not provide better prediction result (Figure 2F).
ReMap 2024: a database of regulatory regions from an integrative ...
Web18 gen 2024 · Arabidopsis thaliana; Zea mays: Experiment type: Other Genome binding/occupancy profiling by high throughput sequencing: ... A Comprehensive Atlas of … Web24 lug 2024 · We also transferred the trained model to arabidopsis DAP-seq datasets with accuracy reaching over 0.8, which largely exceeds the performance of existing prediction methods. The new DL-based method provides a reliable and powerful approach to predict TF binding sites based on in vivo TFBSs datasets in maize and results can be … crystal tears mari maria
Cistrome and Epicistrome Features Shape the Regulatory
Web28 feb 2024 · Because DAP-seq profiles genomic sequences for which the PUCHI transcription factor displays affinity in vitro, and because the PUCHI–GR complementation assay was performed in the presence of cycloheximide, CRF1 is most probably a direct target of PUCHI that induces its expression during LRP formation (Supplementary Figs … Web14 set 2024 · DNA affinity purification sequencing (DAP-seq) has also demonstrated that TGTCGG is a probable hexanucleotide-target motif of ARF2 and ARF5 . The activity of this newly identified motif as functional … Web25 nov 2024 · DAP-seq is an effective method to study TF binding sites in a variety of model organisms 11,12,13 and the resulting large-scale datasets ... Extended Data Fig. 1 Biotin-DAP-seq in Arabidopsis ... crystal tea room wedding cost