The expression of integron integrases is controlled via the SOS response; there is a LexA-binding site located in the PintI12. In the absence of stress, the transcriptional repressor LexA binds to PintLand prevents the transcription ofintI. The SOS response is activated upon the accumulation of ...
DNAshape: a method for the high-throughput prediction of DNA structural features on a genomic scale. Nucleic Acids Res. 41, W56–W62 (2013). PubMed PubMed Central Google Scholar Gordân, R. et al. Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH ...
Machine-learning-based general bacterial promoter prediction tool. genomepromoterbacterial-genomespromoter-sequences UpdatedJun 19, 2023 C PARE: a computational method to Predict Active Regulatory Elements chip-seqhistonenuclesosomendrenhancerpromoter
The principal objective of this work was to develop an efficient tool that can discriminate between promoter and non-promoter in an unknown sequence with high accuracy. The high accuracy of promoter prediction in plant, human, Drosophila, mouse and rat (Table 2) using our approach has validated...
Several programs have been developed for the prediction of promoter regions. Most are based on the well known fact that binding sites of transcription factors are usually concentrated in the promoter region of eukaryotic genes, although they can also be found in other gene regions. A PROMOTER SCAN...
While three different TFBS predictor tools were used in this study, only five motif changes were supported by more than one prediction tool: Table 3 Selected transcription factor binding motifs in the ANK1 promoter predicted by TESS, TRANSFAC and MatInspector prediction tools Full size table rSNP...
Transcriptional factors binding sites (TFBS) were identified using online tool. Promoter prediction was determined by doing manually matching of TFBS with TATA box from outward. These manual findings were compared with online promoter prediction results. A total of 11 ORFs were identified, with a ...
In silico analysis of transcription factor repertoire and prediction of stress responsive transcription factors in soybean. DNA Res. 2009;16(6):353–69. Article CAS PubMed PubMed Central Google Scholar Freitas EO, Melo BP, Loureno-Tessutti IT, Arraes F, Amorim RM, Lisei-De-Sá M, et ...
The upper graph shows the number of promoter regions containing a potential binding site for a second transcription factor. Bars on the bottom graph show the average prediction error for each set of genes containing a secondary transcription factor; the larger the ratio, the greater the error. ...
to either all the ChIP-G4s peaks and genes with/without promoter ChIP-G4s, pG4s, and oG4s. Since promoter ChIP-G4s were strongly clustered within −1000 and +750 bp form the corresponding gene TSS, we set this region for the prediction of TFBSs. To confirm G4 association with ...