Cite Us


It is critical for bioinformaticians to have their work cited so we can continue to develop exciting tools for you. Please be sure to not only cite searchsra.org, but to also cite the tools that we have used to build this amazing resource.

You can download the bibtex file with these citations and import that into your favorite reference manager.

  • Levi, Kyle Rynge, Mats Abeysinghe, Eroma, and Edwards, Robert A. Searching the Sequence Read Archive using Jetstream and WranglerPEARC 18.
  • Torres PJ, Edwards RA, McNair KA. 2017. PARTIE: a partition engine to separate metagenomic and amplicon projects in the Sequence Read Archive. Bioinformatics 33:2389–2391.
  • Towns J, Cockerill T, Dahan M, Foster I, Gaither K, Grimshaw A, Hazlewood V, Lathrop S, Lifka D, Peterson GD, Roskies R, Scott JR, Wilkins-Diehr N. 2014. XSEDE: Accelerating Scientific Discovery. Computing in Science Engineering 16:62–74.
  • Stewart CA, Cockerill TM, Foster I, Hancock D, Merchant N, Skidmore E, Stanzione D, Taylor J, Tuecke S, Turner G, Vaughn M, Gaffney NI. 2015. Jetstream: a self-provisioned, scalable science and engineering cloud environment, p. 29. In Proceedings of the 2015 XSEDE Conference: Scientific Advancements Enabled by Enhanced Cyberinfrastructure. ACM.
  • Buchfink B, Xie C, Huson DH. 2015. Fast and sensitive protein alignment using DIAMOND. Nat Methods 12:59–60.
  • Langmead B, Salzberg SL. 2012. Fast gapped-read alignment with Bowtie 2. Nat Methods 9:357–359.

Acknowledgements

This work used the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation grant number ACI-1548562. Development of the Apache Airavata used to develop the science gateway is supported by NSF award #1339774. XSEDE resources used include JetStream and Wrangler at Indiana University through allocation TG-MCB170036.