ArticleBioinformatics (Oxford, England)2014
Cloud4Psi: cloud computing for 3D protein structure similarity searching.
Article in Bioinformatics (Oxford, England), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
7 citing papers in PubMed.
- Review of open-source software for developing heterogeneous data management systems for bioinformatics applications.Bioinformatics advances · 2025Review
- Sigma70Pred: A highly accurate method for predicting sigma70 promoter inFrontiers in microbiology · 2022Article
- pmTM-align: scalable pairwise and multiple structure alignment with Apache Spark and OpenMP.BMC bioinformatics · 2020Article
- MULTiPly: a novel multi-layer predictor for discovering general and specific types of promoters.Bioinformatics (Oxford, England) · 2019Article
- Scalable Extraction of Big Macromolecular Data in Azure Data Lake Environment.Molecules (Basel, Switzerland) · 2019Article
- 70ProPred: a predictor for discovering sigma70 promoters based on combining multiple features.BMC systems biology · 2018Article
- M6AMRFS: Robust Prediction of N6-Methyladenosine Sites With Sequence-Based Features in Multiple Species.Frontiers in genetics · 2018Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
summaryPopular methods for 3D protein structure similarity searching, especially those that generate high-quality alignments such as Combinatorial Extension (CE) and Flexible structure Alignment by Chaining Aligned fragment pairs allowing Twists (FATCAT) are still time consuming. As a consequence, performing similarity searching against large repositories of structural data requires increased computational resources that are not always available. Cloud computing provides huge amounts of computational power that can be provisioned on a pay-as-you-go basis. We have developed the cloud-based system that allows scaling of the similarity searching process vertically and horizontally. Cloud4Psi (Cloud for Protein Similarity) was tested in the Microsoft Azure cloud environment and provided good, almost linearly proportional acceleration when scaled out onto many computational units. AVAILABILITY AND IMPLEMENTATION: Cloud4Psi is available as Software as a Service for testing purposes at: http://cloud4psi.cloudapp.net/. For source code and software availability, please visit the Cloud4Psi project home page at http://zti.polsl.pl/dmrozek/science/cloud4psi.htm.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.