HIVsirDB: A Database of HIV Inhibiting siRNAs
Publication Date
October 11, 2011
Journal
PLOS ONE
Authors
Atul Tyagi, Firoz Ahmed, Nishant Thakur, Arun Sharma, et al
Volume
6
Issue
10
Pages
e25917
DOI
https://dx.plos.org/10.1371/journal.pone.0025917
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0025917
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/22022467
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3191155
Europe PMC
http://europepmc.org/abstract/MED/22022467
Web of Science
000295973200020
Scopus
80053993475
Mendeley
http://www.mendeley.com/research/hivsirdb-database-hiv-inhibiting-sirnas
Events
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Mendeley | Further Information

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Scopus | Further Information

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Figshare

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  • {"files"=>["https://ndownloader.figshare.com/files/371629"], "description"=>"<div><h3>Background</h3><p>Human immunodeficiency virus (HIV) is responsible for millions of deaths every year. The current treatment involves the use of multiple antiretroviral agents that may harm patients due to their toxic nature. RNA interference (RNAi) is a potent candidate for the future treatment of HIV, uses short interfering RNA (siRNA/shRNA) for silencing HIV genes. In this study, attempts have been made to create a database HIVsirDB of siRNAs responsible for silencing HIV genes.</p> <h3>Descriptions</h3><p>HIVsirDB is a manually curated database of HIV inhibiting siRNAs that provides comprehensive information about each siRNA or shRNA. Information was collected and compiled from literature and public resources. This database contains around 750 siRNAs that includes 75 partially complementary siRNAs differing by one or more bases with the target sites and over 100 escape mutant sequences. HIVsirDB structure contains sixteen fields including siRNA sequence, HIV strain, targeted genome region, efficacy and conservation of target sequences. In order to facilitate user, many tools have been integrated in this database that includes; i) siRNAmap for mapping siRNAs on target sequence, ii) HIVsirblast for BLAST search against database, iii) siRNAalign for aligning siRNAs.</p> <h3>Conclusion</h3><p>HIVsirDB is a freely accessible database of siRNAs which can silence or degrade HIV genes. It covers 26 types of HIV strains and 28 cell types. This database will be very useful for developing models for predicting efficacy of HIV inhibiting siRNAs. In summary this is a useful resource for researchers working in the field of siRNA based HIV therapy. HIVsirDB database is accessible at <a href=\"http://crdd.osdd.net/raghava/hivsir/\">http://crdd.osdd.net/raghava/hivsir/</a>.</p> </div>", "links"=>[], "tags"=>["hiv", "inhibiting", "sirnas"], "article_id"=>133411, "categories"=>["Biological Sciences", "Cancer"], "users"=>["Atul Tyagi", "Firoz Ahmed", "Nishant Thakur", "Arun Sharma", "Gajendra P. S. Raghava", "Manoj Kumar"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0025917", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/HIVsirDB_A_Database_of_HIV_Inhibiting_siRNAs/133411", "title"=>"HIVsirDB: A Database of HIV Inhibiting siRNAs", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-10-11 00:56:51"}
  • {"files"=>["https://ndownloader.figshare.com/files/725932"], "description"=>"<p>(A) siRNAmap to map siRNA on user provided HIV sequence. (B) HIVsirDBblast to provide similar siRNA sequences in the database. (C) siRNAalign to find the siRNA sequence variation among different HIV strains.</p>", "links"=>[], "tags"=>["sirna"], "article_id"=>396292, "categories"=>["Virology", "Biological Sciences"], "users"=>["Atul Tyagi", "Firoz Ahmed", "Nishant Thakur", "Arun Sharma", "Gajendra P. S. Raghava", "Manoj Kumar"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0025917.g003", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Output_of_siRNA_analysis_tools_/396292", "title"=>"Output of siRNA analysis tools.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-11 01:44:52"}
  • {"files"=>["https://ndownloader.figshare.com/files/725806"], "description"=>"<p>(A) HIV strains. (B) HIV genome regions targeted. (C) Efficacy of siRNA/shRNA. (D) Cell line used.</p>", "links"=>[], "tags"=>["fields", "included"], "article_id"=>396162, "categories"=>["Virology", "Biological Sciences"], "users"=>["Atul Tyagi", "Firoz Ahmed", "Nishant Thakur", "Arun Sharma", "Gajendra P. S. Raghava", "Manoj Kumar"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0025917.g002", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Statistics_of_important_fields_included_in_HIVsirDB_/396162", "title"=>"Statistics of important fields included in HIVsirDB.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-10-11 01:42:42"}

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  • {"unique-ip"=>"7", "full-text"=>"8", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"9"}
  • {"unique-ip"=>"6", "full-text"=>"6", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"11"}
  • {"unique-ip"=>"11", "full-text"=>"10", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"1", "year"=>"2019", "month"=>"2"}
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  • {"unique-ip"=>"2", "full-text"=>"1", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"4"}
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Relative Metric

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