Frequently Asked QuestionsWhat is the purpose of this database?A collection of shRNAs designed for all genes in one species is very important for forward genetic screening. It will also facilitate the researcher to quickly obtain a set of shRNAs to repress their interested genes' expression.How was this database constructed?The organization of the database is gene-centric. We first collect all genes in one species based on latest annotation. We then collect and design shRNAs for transcripts of each gene and the top candidates will be selected for making the mature products. We store the gene, hairpin and mature product information in a MySQL database.How to search the database?A user can search for hairpins in the database using the following methods:
1. Keyword search by entering Gene name, HGNC symbol, Accession / GI, Entrez / Ensembl / HGNC / MIM / HPRD / IMGT-GENEDB / RGD / MGI / RATMAP ID in the search box.
2. Bulk download by uploading a text file containing a list of above-mentioned keywords delimited by a new line.
3. Sequence search by pasting a single sequence in the Tools section.What is new in the current database (version 3 vs version 2)?We have added more shRNA constructs for genes in human, mouse and rat. On an average, six additional hairpins were added for each gene present in the previous version of this database. We have also designed and collected shRNAs for fruit fly. We plan to add shRNA collections for Arabidopsis thaliana.How to cite the database?A. Olson, N. Sheth, J. S. Lee, G. Hannon and R. Sachidanandam (2005) RNAi Codex: a portal/database for short-hairpin RNA (shRNA) gene-silencing constructs. Nucleic Acids Research, 34, D153-D157.What are the browser requirements?Codex has been tested on the latest versions of all major browsers (Mozilla Firefox, Internet Explorer, Opera & Safari). Please download the latest version of your favorite browser for better user experience.Why register?Users can access the latest shRNAs which are not commercially available yet. Please fill out the registration form and we will activate your account at the earliest.