Please give some suggestion about online tools or software which could predict promotor regions of prokaryotes, like -10 region -35 region RBS(ribosome binding site), thank you very much!
You can try with
1)PPP - Prokaryotic Promoter Prediction. It helps you to find promoter regions and TFBS in prokaryotes. Also, finds sigma A binding sites in the upstream region.
2) Virtual foot print: Analyses individual promoters in bacterial genome and finds DNA patterns, TFBS and regulons.
3) PePPER - Prokaryote Promoter Prediction : Predicts promoters for prokaryotes based on curated PWM and HMM models. Also, analyses regulons, TFBS and also in addition includes new L. lactis regulon database
http://bioinformatics.biol.rug.nl/websoftware/ppp/ppp_start.php
http://www.prodoric.de/vfp/vfp_promoter.php
http://pepper.molgenrug.nl/index.php/pepper-tools/promoter-predictie-tool
Hi, you can use NCBI on line, using this book guideline "Bioinformatics for Dummies" it's a really very good guide, you can use the table of the content to go directly to your desired tasks, also it's a quite usefull book that you need always , Hard work
You can try with
1)PPP - Prokaryotic Promoter Prediction. It helps you to find promoter regions and TFBS in prokaryotes. Also, finds sigma A binding sites in the upstream region.
2) Virtual foot print: Analyses individual promoters in bacterial genome and finds DNA patterns, TFBS and regulons.
3) PePPER - Prokaryote Promoter Prediction : Predicts promoters for prokaryotes based on curated PWM and HMM models. Also, analyses regulons, TFBS and also in addition includes new L. lactis regulon database
http://bioinformatics.biol.rug.nl/websoftware/ppp/ppp_start.php
http://www.prodoric.de/vfp/vfp_promoter.php
http://pepper.molgenrug.nl/index.php/pepper-tools/promoter-predictie-tool
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