Q: What is KARG?
Q: Which genes are compiled and annotated by KARG?
Q: What information I can get in KARG?
Q: How to search for a gene by keyword?
Q: How to search for a gene by sequence?
Q: How to browse the records in KARG?
Q: How to download the data deposited in KARG?
Q: How to contact KARG?
Q: How to contribute to KARG?
Q: How to cite KARG in my research?
Q: What is KARG? (top)
A: KARG (Knowledgebase for Addiction-Related Genes) is an online resource for human genes to be related to drug addiction. We assembled information from published literatures. Our list of publications included recent review papers on addiction selected from results of PUBMED query '(addiction OR "drug abuse") AND review' as well as research papers selected from PubMed query '(addiction OR "drug abuse") AND (gene OR microarray OR proteomics OR QTL OR "population association" OR "genetic linkage")'.We probably cannot claim that our collection represents "all" of the publications with addiction genes, but we are confident that our collection is by far the most comprehensive to date.
Q: Which genes are compiled and annotated by KARG? (top)
A: The data spanned multiple technology platforms including classical hypothesis-testing of single genes, identification of significantly differentially expressed genes in microarray experiments, identification of significantly differentially expressed proteins in proteomics assays, identification of addiction-vulnerable chromosome regions in animal QTL studies, genetic linkage studies, population association studies, and OMIM annotations. From each publication we collected the genes, proteins, or chromosome regions linked to addiction, as well as metadata such as species, nature of the addictive substance, studied brain regions, technology platforms, and experimental parameters.
Q: What information I can get in KARG (top)A: To enhance KARG's utility as an information resource and a data-mining tool, cross-references to external databases and online resources were integrated. This data allows interpretation of features of each addiction-related genes at several levels, including gene basic information and expression patterns.
Q: How do I search for a gene by keyword? (top)A: The search page performs a free text search of the Protein Name, ID, AC, addictive drug type for all genes in KARG. Quick access to the search function is also available at the top of the query page.
Q: How do I search for a gene by sequence? (top)
A: We provided BLAST interface to facilitate sequence search against KARG. The interface accepts sequences with FASTA format and returns results in the from of classical BLAST result. If the sequence of interest is found, the user can jump directly to that entry.
Q: How do I browse the records in KARG? (top)
A: We implemented several user-friendly interactive browsing options in KARG to facilitate users to query. The interfaces support browsing of the KARG genes by chromosome positions, pathway involvement, genetics, KARG scores, advanced text search by gene ID or other information and sequence search by BLAST similarity. Each interactive browsing interface returns KARG genes that meet query requirements. Users can then obtain further detailed annotations by clicking on gene names.
Q: How do I download the data? (top)
A: All data, database schema and MySQL commands are available at http://karg.cbi.pku.edu.cn/download.php
Q: How to contact KARG? (top)
A: Please send e-mails to KARG Group.
Q: How to contribute to KARG? (top)
A: Welcome! Please send E-mail to KARG Group
Q: How to cite KARG in my research? (top)
A: Please cite "Li CY, Mao X, Wei L (2008) Genes and (common) pathways underlying drug addiction. PLoS Comput Biol 4(1): e2. doi:10.1371/journal.pcbi.0040002".