306 related articles for article (PubMed ID: 22628521)
1. The UEA sRNA workbench: a suite of tools for analysing and visualizing next generation sequencing microRNA and small RNA datasets.
Stocks MB; Moxon S; Mapleson D; Woolfenden HC; Mohorianu I; Folkes L; Schwach F; Dalmay T; Moulton V
Bioinformatics; 2012 Aug; 28(15):2059-61. PubMed ID: 22628521
[TBL] [Abstract][Full Text] [Related]
2. The UEA sRNA Workbench (version 4.4): a comprehensive suite of tools for analyzing miRNAs and sRNAs.
Stocks MB; Mohorianu I; Beckers M; Paicu C; Moxon S; Thody J; Dalmay T; Moulton V
Bioinformatics; 2018 Oct; 34(19):3382-3384. PubMed ID: 29722807
[TBL] [Abstract][Full Text] [Related]
3. The UEA Small RNA Workbench: A Suite of Computational Tools for Small RNA Analysis.
Mohorianu I; Stocks MB; Applegate CS; Folkes L; Moulton V
Methods Mol Biol; 2017; 1580():193-224. PubMed ID: 28439835
[TBL] [Abstract][Full Text] [Related]
4. miRCat2: accurate prediction of plant and animal microRNAs from next-generation sequencing datasets.
Paicu C; Mohorianu I; Stocks M; Xu P; Coince A; Billmeier M; Dalmay T; Moulton V; Moxon S
Bioinformatics; 2017 Aug; 33(16):2446-2454. PubMed ID: 28407097
[TBL] [Abstract][Full Text] [Related]
5. Comprehensive processing of high-throughput small RNA sequencing data including quality checking, normalization, and differential expression analysis using the UEA sRNA Workbench.
Beckers M; Mohorianu I; Stocks M; Applegate C; Dalmay T; Moulton V
RNA; 2017 Jun; 23(6):823-835. PubMed ID: 28289155
[TBL] [Abstract][Full Text] [Related]
6. A toolkit for analysing large-scale plant small RNA datasets.
Moxon S; Schwach F; Dalmay T; Maclean D; Studholme DJ; Moulton V
Bioinformatics; 2008 Oct; 24(19):2252-3. PubMed ID: 18713789
[TBL] [Abstract][Full Text] [Related]
7. CoLIde: a bioinformatics tool for CO-expression-based small RNA Loci Identification using high-throughput sequencing data.
Mohorianu I; Stocks MB; Wood J; Dalmay T; Moulton V
RNA Biol; 2013 Jul; 10(7):1221-30. PubMed ID: 23851377
[TBL] [Abstract][Full Text] [Related]
8. An Online Database for Exploring Over 2,000 Arabidopsis Small RNA Libraries.
Feng L; Zhang F; Zhang H; Zhao Y; Meyers BC; Zhai J
Plant Physiol; 2020 Feb; 182(2):685-691. PubMed ID: 31843802
[TBL] [Abstract][Full Text] [Related]
9. sRNAminer: A multifunctional toolkit for next-generation sequencing small RNA data mining in plants.
Li G; Chen C; Chen P; Meyers BC; Xia R
Sci Bull (Beijing); 2024 Mar; 69(6):784-791. PubMed ID: 38246798
[TBL] [Abstract][Full Text] [Related]
10. A survey of software tools for microRNA discovery and characterization using RNA-seq.
Bortolomeazzi M; Gaffo E; Bortoluzzi S
Brief Bioinform; 2019 May; 20(3):918-930. PubMed ID: 29126230
[TBL] [Abstract][Full Text] [Related]
11. Computational tools for plant small RNA detection and categorization.
Morgado L; Johannes F
Brief Bioinform; 2019 Jul; 20(4):1181-1192. PubMed ID: 29059285
[TBL] [Abstract][Full Text] [Related]
12. Chimira: analysis of small RNA sequencing data and microRNA modifications.
Vitsios DM; Enright AJ
Bioinformatics; 2015 Oct; 31(20):3365-7. PubMed ID: 26093149
[TBL] [Abstract][Full Text] [Related]
13. Oasis: online analysis of small RNA deep sequencing data.
Capece V; Garcia Vizcaino JC; Vidal R; Rahman RU; Pena Centeno T; Shomroni O; Suberviola I; Fischer A; Bonn S
Bioinformatics; 2015 Jul; 31(13):2205-7. PubMed ID: 25701573
[TBL] [Abstract][Full Text] [Related]
14. mirExplorer: detecting microRNAs from genome and next generation sequencing data using the AdaBoost method with transition probability matrix and combined features.
Guan DG; Liao JY; Qu ZH; Zhang Y; Qu LH
RNA Biol; 2011; 8(5):922-34. PubMed ID: 21881406
[TBL] [Abstract][Full Text] [Related]
15. miRge - A Multiplexed Method of Processing Small RNA-Seq Data to Determine MicroRNA Entropy.
Baras AS; Mitchell CJ; Myers JR; Gupta S; Weng LC; Ashton JM; Cornish TC; Pandey A; Halushka MK
PLoS One; 2015; 10(11):e0143066. PubMed ID: 26571139
[TBL] [Abstract][Full Text] [Related]
16. Interactive Web-based Annotation of Plant MicroRNAs with iwa-miRNA.
Zhang T; Zhai J; Zhang X; Ling L; Li M; Xie S; Song M; Ma C
Genomics Proteomics Bioinformatics; 2022 Jun; 20(3):557-567. PubMed ID: 34332120
[TBL] [Abstract][Full Text] [Related]
17. CPSS: a computational platform for the analysis of small RNA deep sequencing data.
Zhang Y; Xu B; Yang Y; Ban R; Zhang H; Jiang X; Cooke HJ; Xue Y; Shi Q
Bioinformatics; 2012 Jul; 28(14):1925-7. PubMed ID: 22576177
[TBL] [Abstract][Full Text] [Related]
18. sRNATargetDigger: A bioinformatics software for bidirectional identification of sRNA-target pairs with co-regulatory sRNAs information.
Ye X; Yang Z; Jiang Y; Yu L; Guo R; Meng Y; Shao C
PLoS One; 2020; 15(12):e0244480. PubMed ID: 33370386
[TBL] [Abstract][Full Text] [Related]
19. sRIS: A Small RNA Illustration System for Plant Next-Generation Sequencing Data Analysis.
Tseng KC; Chiang-Hsieh YF; Pai H; Wu NY; Zheng HQ; Chow CN; Lee TY; Chang SB; Lin NS; Chang WC
Plant Cell Physiol; 2020 Jun; 61(6):1204-1212. PubMed ID: 32181856
[TBL] [Abstract][Full Text] [Related]
20. Improved Placement of Multi-mapping Small RNAs.
Johnson NR; Yeoh JM; Coruh C; Axtell MJ
G3 (Bethesda); 2016 Jul; 6(7):2103-11. PubMed ID: 27175019
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]