WebSCENIC’s main approach is to search the putative regulatory regions of target genes for TF motif enrichment. This approach can be supplemented by the use of ChIP-seq track databases, which are based on direct experimental evidence of TF binding. Both direct and indirect binding are taken into account when generating pruned regulons. Web14 giu 2024 · Several databases 15,24,25,26,27,28 were recently established for ... Extensive TF co-associations and regulatory loops in Arabidopsis. We investigated TF co-associations and TF-targets gene ...
PlantTFDB: a comprehensive plant transcription factor database
Websis of Arabidopsis.TheArabidopsis TF database (RARTF) hosted by the RIKEN BioResource Center in Japan applies PSI-BLAST and InterProScan to the identification of all putative TFs in Ara-bidopsis (7). Web16 ago 2024 · Genome-wide analyses of TF families in Arabidopsis thaliana have also been studied, presenting 122 AP2/ERF genes 42, 105 NAC genes 28, 162 bHLH genes 34, 75 bZIP genes 23, 32 GRAS genes 20, 29 ... glasses india
PlantTFDB - Plant Transcription Factor Database @ CBI, PKU
Web11 apr 2024 · Adenosine methylation in Arabidopsis mRNA is associated with the 3′ end and reduced levels cause developmental defects. Front. Plant Sci. 3:48. Boccaletto, P., and BagiÅ„ski, B. (2024). MODOMICS: An operational guide to the use of the RNA modification pathways database. Methods Mol. Biol. 2284:481–505. WebOverall, we found that TF ChIP–seq data confirmed 39% of predicted interactions in the iGRN, demonstrating that a large fraction of iGRN interactions are supported by in vivo … WebUsing the example of the TF proteins, database searching based upon conserved secondary structure was used to identify potential homologs in different species. In this study we applied a similar in silico strategy in order to identify a candidate for the Arabidopsis TF protein. This led to the identification of two ... glasses in cave creek