This database includes genes and interventions that have been studied with respect to their effects on life-span or age-related neurological diseases. Due to the rapid pace of research in this field, the database will constantly change. Be sure to check back often!
This "help" section consists of three parts:
As always, you can send general suggestions, corrections, or comments with the "Feedback" link in the gray tool bar on the left or at the bottom of the page.
- Using the Genes/Interventions Database
- Policy for inclusion in the Genes/Interventions Database
- How to submit a new entry
I. Using the Genes/Interventions Database
On the home page of the database, you can browse the genes and interventions that we've collected: The genes are listed first and the interventions are listed second (alphabetical order within a category, in both cases). Click on the name of the gene or intervention to see the complete record.
The way to get the most mileage from the database is to use the special search page for this section. Click on the "Search Genes/Interventions (database)" link in the gray tool bar on the left. Some notes:
- "Word(s) Anywhere in the Database" will return all records that mention the specified terms anywhere in the entry (including homologs, references, etc.).
- The search algorithm "AND"s terms in different fields.
- "Other References" is not a complete list of references about the gene or intervention, but a list of references that directly relate to information mentioned in the record.
- We have attempted to use the conventions for the relevant organism. For example, worm sir-2.1 (lowercase with hyphen), yeast SIR2 (uppercase without hyphen), fly SOD2, mouse Sod2. Tip: The search algorithm doesn't distinguish between upper- and lowercase, but it does register the presence or absence of a hyphen; therefore, sir2 will not pull up sir-2, and vice versa. (Super tip: That rule goes for all SAGE KE searches.) To search for sir-2, enter "sir-2" or "sir 2."
- As always on SAGE KE, you can use the Quick Search box in the upper left-hand corner of every page to find a word or words in the database. Make sure to click the "Only Genes/Interventions (database)" radio button if you want to limit your search to this section of the site. In addition, you can use the Advanced Search page (also in the upper left hand corner) to perform a more sophisticated search. Again, select only the "Genes/Interventions (database)" box in the "Highlights" list to limit your search.
II. Policy for inclusion in the Genes/Interventions Database
We endeavor to make this database both accurate and up-to-date. As aging-related genes are discovered, the database czar, Matt Kaeberlein, and the SAGE KE editors will generate new records.
- Unpublished data: If this information is added to the database prior to publication, it will be labeled as unpublished personal communication, followed by the name of the scientist. We will post unpublished data only if the person who conducted the experiments requests its addition to the database.
- Negative results: Although negative results are of great interest to the research community, they often remain unpublished. We invite researchers to notify us if they have obtained negative results, and we will add it to the database. (See "Unpublished data," above.) In some cases, this policy might result in contradictory findings in the record; users can interpret this information as they see fit.
- References: SAGE KE will not include submitted papers in the reference sections of the database. When the paper is published, we will consider adding it and the information therein to the relevant entry. Please keep us posted so we can accomplish this in a timely manner.
III. How to submit a new entry
If you know of published data (or your own unpublished data that you'd like to share) not currently in the database, please use the Submit a Gene/Intervention link in the white box on the left-hand side of the page.
- Entry Type. If the database entry you are submitting is a gene or genetic locus (e.g., SIR2, WRN, Unknown locus on Chromosome 4), choose "Gene." If the entry is an environmental parameter, chemical treatment, dietary modification, or other nongenetic alteration (e.g., calorie restriction, acetyl-L-carnitine, heat shock), choose "Intervention."
- Gene/Intervention Name. In cases where multiple names are used to describe the same gene or intervention, choose the most commonly used name or the name recognized by an official body within the field (e.g., the Saccharomyces Genome Database).
- Alternative Name. If the entry is commonly referred to by more than one name, use this field to list the name(s) not given in the "Gene/Intervention Name" field.
- Organism. From the menu, choose the organism in which the life-span effect was observed. If the organism is not shown, choose "other" and include the organism name (genus and species) in the "Comments" box.
- Aging Phenotype. From the pull-down menu, choose the option that most accurately describes the results. If the effect on life-span was not directly measured, choose "N/A"; if an epidemiological or gene-mapping study links a particular allele/environmental parameter to aging/life-span, choose "correlation"
- Allele Type. From the pull-down menu, choose the allele type. For interventions, choose "N/A."
- Strain. List the strain(s)/genetic background(s) in which the study was performed (e.g., Balb/c), if known.
- Description of Aging Phenotype. Describe in a few sentences the most relevant features with respect to aging. Please include the effect on life-span and percentage changes. Cite references in the format (Kaeberlein et al., 2002).
- Gene Function. Give the biochemical function of the protein if known (e.g., F1-F0 ATPase, histone deacetylase). Otherwise, genetic functions (e.g., required for respiration) are acceptable. "Unknown" or "N/A" is also acceptable.
- Other Phenotypes. Describe in a few sentences any non-life-span phenotypes associated with alleles of the gene or effects of the intervention. Of particular interest are aging-related or age-associated phenotypes (e.g., cognitive decline, reproduction, oxidative stress).
- Homologs. List closely related homologs of the protein encoded by the gene. Of particular interest are homologs from important model organisms or humans, such as S. cerevisiae, S. pombe, C. elegans, D. melanogaster, R. norvegicus, M. musculus, and H. sapiens. If the submission is an intervention, use "N/A" for this field. Please use the following format:
S.c. HST1, HST2, HST3, HST4
S.p. Spbc16D10.07c, Spcc132.02, hst4
H.s. SIRT1, SIRT3, SIR2L, SIRT5, SIRT4, SIRT6
- References. Include all cited references. It is not necessary to include references that contain related information but that are not cited in the record. For articles listed on PubMed, a PubMed ID number (PMID) is sufficient. For other articles or book chapters not listed on PubMed, please give as much information about the reference as possible, including at least all authors, article title, book title (if relevant), volume, pages, and year of publication.
The goal of the SAGE KE Genes/Interventions Database is to catalog experiments where life-span is measured and provide references to the primary literature describing these experiments. Secondary references may be included if they provide additional longevity data or key supporting data. It is not possible for us to provide a comprehensive list of all literature related to a particular gene or intervention.
- Relevant links. Include URLs for any Web sites that are directly relevant to the gene or intervention.
- Key words. Include any relevant words that might help people who are searching the database find your entry. You do not need to include words that are already listed in any of the fields above.
- Comments. Use this field to provide additional information that doesn’t fit into any of the fields above. If you are submitting an entry for an organism that is not currently listed in the database, please specify the organism here.
We want to hear from you! If you have questions or comments on any part of SAGE KE, send us feedback here or click on the Feedback link in the tool bar on the left or at the bottom of any SAGE KE page.
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