The UTexas Aptamer Database includes aptamer sequences, binding affinities, and characteristics of over 1,400 aptamers, as well as a description of the original nucleic acid library, binding buffer conditions, and the DOIs of the original aptamer publications (Askari, A., et al., 2024). The UTexas Aptamer Database dataset may be downloaded from Zenodo (https://doi.org/10.5281/zenodo.8264921, updated September 2023).
Important Information
- The database is only compatible with Microsoft Edge and Google Chrome.
- We highly recommend using the Advanced Search fields, as the Keyword Search field can include unrelated results.
What makes our database unique?
In contrast to previous aptamer databases, our approach is distinct as we have adopted a ‘metagenomic’ methodology to curate and consolidate aptamer sequence data spanning several decades. This approach enables us to establish a comprehensive collection of valuable data that researchers can effectively extract information from and serves as a foundation for future advancements in the field.
In addition, we distinguish ourselves by incorporating essential details that are often overlooked. These details encompass the original nucleic acid library sequence, binding buffer conditions, and Digital Object Identifiers (DOIs) of the aptamer publications. By including these critical pieces of information, we aim to enhance the comprehensiveness and usability of our database, providing researchers with a more thorough understanding of the aptamer sequences and their associated experimental conditions.
We provide a comprehensive report on the methodology employed for data collection as well as the internal review process. This ensures transparency and enables researchers to understand the process by which the data has been curated and validated. By sharing this methodology, we aim to instill confidence in the reliability and integrity of the data within our database, fostering a greater level of trust and facilitating further research and analysis in the aptamer field. For additional information, please refer to the “Tips and Resources” page.
This database not only meets a need but also provides a means of improving the field as a whole. A previous effort from our student-led database project showed that there is a high error rate for accurately reporting aptamer sequences (Miller et al., 2022). This issue can only be addressed as a community by the establishment of standards, both database and publication. One initial quality control parameter will be to feature aptamer sequence results on the only other currently active aptamer database – Apta-Index, allowing researchers in and out of the aptamer field some ability to compare and validate representations. Our longer-term plan following the establishment of this database will be to work towards establishing estimates of the qualities of the sequences collected (potentially up to the creation of a “quality score”) in hopes of guiding research in a manner similar to how antibody and other reagent collections have approached establishing community standards.
Disclaimer
Please note that the UTexas Aptamer Database is intended solely for the use of aptamer researchers and scientists as a tool to facilitate their search for aptamers on the internet. The purpose of this database is to compile and provide access to aptamer-related data in a centralized location. However, it is important to understand that we cannot be held liable for any misapplication or misinterpretation of the data available in this database. Every aptamer included in our database includes a citation, and we believe that it is critical to carefully study that cited reference before attempting to generate such an aptamer in any way.
The information contained in our database has been collected from the primary literature, and we have made reasonable efforts to verify its accuracy to the best of our knowledge. It is essential to refer to the provided tips and resources regarding the verification process. However, we do not provide any guarantees regarding the authenticity or reliability of the data. We welcome any suggested corrections or updates with appropriate references through the designated feedback section on each detailed page.
Before using our database, It is important to understand that the database is intended solely for educational and research purposes and should not be construed as endorsing or guaranteeing the effectiveness or functionality of any aptamer. It is important to clarify that no testing has been conducted on the aptamers listed in our database. Therefore, we cannot provide any guarantees or assurances regarding the functionality or efficacy of the aptamers mentioned in the publications. The presence of an aptamer in our database does not imply that it has been validated or proven to work as described in the publication.
By accessing and utilizing the UTexas Aptamer Database, you acknowledge and agree that you assume all responsibility for the use and interpretation of the data provided. We recommend consulting with qualified professionals and conducting independent research before making any decisions based on the information obtained from this database.
Please read and understand these disclaimers before using the UTexas Aptamer Database. Your use of the database constitutes your acceptance and agreement to abide by these terms and conditions.
UTexas Aptamer Database Citation
Ali Askari, Sumedha Kota, Hailey Ferrell, Shriya Swamy, Kayla S Goodman, Christine C Okoro, Isaiah C Spruell Crenshaw, Daniela K Hernandez, Taylor E Oliphant, Akshata A Badrayani, Andrew D Ellington, Gwendolyn M Stovall, UTexas Aptamer Database: the collection and long-term preservation of aptamer sequence information, Nucleic Acids Research, 2023; gkad959, https://doi.org/10.1093/nar/gkad959
