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| Home > Publications Database > Oasis 2: improved online analysis of small RNA-seq data. > print |
| 001 | 139797 | ||
| 005 | 20240410115725.0 | ||
| 024 | 7 | _ | |a 1471-2105 |2 ISSN |
| 024 | 7 | _ | |a 10.1186/s12859-018-2047-z |2 doi |
| 024 | 7 | _ | |a pmid:29444641 |2 pmid |
| 024 | 7 | _ | |a pmc:PMC5813365 |2 pmc |
| 024 | 7 | _ | |a altmetric:33221780 |2 altmetric |
| 037 | _ | _ | |a DZNE-2020-06119 |
| 041 | _ | _ | |a English |
| 082 | _ | _ | |a 610 |
| 100 | 1 | _ | |a Rahman, Raza-Ur |0 P:(DE-2719)2811127 |b 0 |e First author |u dzne |
| 245 | _ | _ | |a Oasis 2: improved online analysis of small RNA-seq data. |
| 260 | _ | _ | |a Heidelberg |c 2018 |b Springer |
| 264 | _ | 1 | |3 online |2 Crossref |b Springer Science and Business Media LLC |c 2018-02-14 |
| 264 | _ | 1 | |3 print |2 Crossref |b Springer Science and Business Media LLC |c 2018-12-01 |
| 336 | 7 | _ | |a article |2 DRIVER |
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| 336 | 7 | _ | |a ARTICLE |2 BibTeX |
| 336 | 7 | _ | |a JOURNAL_ARTICLE |2 ORCID |
| 336 | 7 | _ | |a Journal Article |0 0 |2 EndNote |
| 520 | _ | _ | |a Small RNA molecules play important roles in many biological processes and their dysregulation or dysfunction can cause disease. The current method of choice for genome-wide sRNA expression profiling is deep sequencing.Here we present Oasis 2, which is a new main release of the Oasis web application for the detection, differential expression, and classification of small RNAs in deep sequencing data. Compared to its predecessor Oasis, Oasis 2 features a novel and speed-optimized sRNA detection module that supports the identification of small RNAs in any organism with higher accuracy. Next to the improved detection of small RNAs in a target organism, the software now also recognizes potential cross-species miRNAs and viral and bacterial sRNAs in infected samples. In addition, novel miRNAs can now be queried and visualized interactively, providing essential information for over 700 high-quality miRNA predictions across 14 organisms. Robust biomarker signatures can now be obtained using the novel enhanced classification module.Oasis 2 enables biologists and medical researchers to rapidly analyze and query small RNA deep sequencing data with improved precision, recall, and speed, in an interactive and user-friendly environment.Oasis 2 is implemented in Java, J2EE, mysql, Python, R, PHP and JavaScript. It is freely available at https://oasis.dzne.de. |
| 536 | _ | _ | |a 342 - Disease Mechanisms and Model Systems (POF3-342) |0 G:(DE-HGF)POF3-342 |c POF3-342 |f POF III |x 0 |
| 588 | _ | _ | |a Dataset connected to CrossRef, PubMed, |
| 650 | _ | 7 | |a MicroRNAs |2 NLM Chemicals |
| 650 | _ | 7 | |a RNA, Small Untranslated |2 NLM Chemicals |
| 650 | _ | 2 | |a Base Sequence |2 MeSH |
| 650 | _ | 2 | |a Gene Expression Profiling |2 MeSH |
| 650 | _ | 2 | |a High-Throughput Nucleotide Sequencing |2 MeSH |
| 650 | _ | 2 | |a MicroRNAs: genetics |2 MeSH |
| 650 | _ | 2 | |a RNA, Small Untranslated: genetics |2 MeSH |
| 650 | _ | 2 | |a Sequence Analysis, RNA: methods |2 MeSH |
| 650 | _ | 2 | |a Software |2 MeSH |
| 650 | _ | 2 | |a Statistics as Topic: methods |2 MeSH |
| 700 | 1 | _ | |a Gautam, Abhivyakti |0 P:(DE-2719)2811361 |b 1 |u dzne |
| 700 | 1 | _ | |a Bethune, Jörn |0 P:(DE-2719)2811972 |b 2 |u dzne |
| 700 | 1 | _ | |a Sattar, Abdul |0 P:(DE-2719)2811813 |b 3 |u dzne |
| 700 | 1 | _ | |a Fiosins, Maksims |0 P:(DE-2719)2811935 |b 4 |u dzne |
| 700 | 1 | _ | |a Magruder, Daniel Sumner |0 P:(DE-2719)2812133 |b 5 |u dzne |
| 700 | 1 | _ | |a Capece, Vincenzo |0 P:(DE-2719)2810626 |b 6 |u dzne |
| 700 | 1 | _ | |a Shomroni, Orr |0 P:(DE-2719)2810755 |b 7 |u dzne |
| 700 | 1 | _ | |a Bonn, Stefan |0 P:(DE-2719)2810547 |b 8 |e Last author |u dzne |
| 773 | 1 | 8 | |a 10.1186/s12859-018-2047-z |b : Springer Science and Business Media LLC, 2018-02-14 |n 1 |p 54 |3 journal-article |2 Crossref |t BMC Bioinformatics |v 19 |y 2018 |x 1471-2105 |
| 773 | _ | _ | |a 10.1186/s12859-018-2047-z |g Vol. 19, no. 1, p. 54 |0 PERI:(DE-600)2041484-5 |n 1 |q 19:1<54 |p 54 |t BMC bioinformatics |v 19 |y 2018 |x 1471-2105 |
| 856 | 4 | _ | |y OpenAccess |u https://pub.dzne.de/record/139797/files/DZNE-2020-06119.pdf |
| 856 | 4 | _ | |y OpenAccess |x pdfa |u https://pub.dzne.de/record/139797/files/DZNE-2020-06119.pdf?subformat=pdfa |
| 856 | 7 | _ | |2 Pubmed Central |u http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5813365 |
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