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Implement Technique

Methods

Taxonomy Category

Terms	Count
Target Prediction	208
Target Gene	150
miRNA Prediction	144
Expression Profiles	135
Interactions	127
Regulatory Network	118
Association	98
Cancer/Tumor	87
Disease	82
Next Generation Sequencing (NGS)	75
Identification	71
miRNA Binding Site	67
siRNA	66
pre-miRNA	53
Integrated Analysis	51
The Cancer Genome Atlas (TCGA)	51
Functional Annotation	46
Transcription Factors (TFs)	44
Pathway	43
miRNA-Seq	43
miRNA Annotations	40
sncRNA	39
Sequence Annotation	38
lncRNA	37
Enrichment Analysis	37
Differential Expression	35
3'/5' UTR	30
IsomiR	30
Single Nucleotide Polymorphism (SNP)	29
Secondary Structure	29
RNAi	28
RNA-Seq	26
ncRNAs	26
Alignment	24
miRNA Regulation	24
Tissue-specific miRNA	22
Microarray Analysis	21
Classification	21
Integrated Knowledge	19
Off-targets	19
CLIP-Seq	18
Visualization	18
Integration of Tools	18
Gene Ontology	17
Evolution	17
ceRNA	15
Experimentally Validated	15
RNA-binding Protein (RBP)	15
piRNA	15
miRNA Family	14

Start 1 to 50 of 121 entries

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Implementation Technology	Count
PHP	236
MySQL	210
Perl	172
R	158
Java	129
Python	116
JavaScript	105
C/C++	68
JSP	48
JQuery	39
MATLAB	29
Bioconductor	20
Cytoscape.js	16
Bootstrap	15
PostgreSQL	15
Django	13
CRAN	12
RESTful	11
Ruby	11
D3.js	11
C#	10
HTML5	10
Bioperl	9
Bash	8
SQLite	7
Cytoscape	7
Shiny	5
AngularJS	5
NoSQL	5
MongoDB	4
ASP .NET	4
Node.js	4
Rails	4
BioJava	4
Oracle	4
SQL Server	3
Laravel	2
SOAP	2
Ext JS	2
Mako	2
Flask	2
Play Framework	2
Pascal	2
Yii	1
ZOPE	1
Spark	1
SPARQL	1
Hadoop	1
HSQLDB	1
Arfooo	1

Start 1 to 50 of 63 entries

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Methods	Count
Support Vector Machines (SVM)	92
Manually Curated	56
Random Forest	28
Text Mining	26
Hypergeometric Test	13
Linear Regression Analysis	12
k-Nearest Neighbour (kNN)	10
Survival Analysis	10
Meta-analysis	9
Artificial Neural Network (ANN)	9
Hidden Markov Model (HMM)	9
k-Means	9
LASSO	8
Mutual Information	8
Random Walk	7
Boosting	7
Naive Bayes	6
Dynamic Programming Algorithms	6
Hierarchical Clustering	6
Logistic Regression	6
Principal Component Analysis (PCA)	6
Analysis of Variance (ANOVA)	5
Self-Organizing Map (SOM)	5
Smith-Waterman Algorithm	5
Entropy	5
Expectation Maximisation (EM)	5
Bayesian Network (BN)	4
Decision Tree	4
Information Gain	4
C4.5	4
Convolutional Neural Network (CNN)	3
Semantic	3
Biclustering	3
AdaBoost	3
Minimal Redundancy Maximal Relevance (MRMR)	2
Bayesian Inference	2
Genetic Algorithms (GA)	2
Bayesian Statistics	2
Non-negative Matrix Factorization (NMF)	2
Support Vector Regression (SVR)	2
Markov Cluster (MCL)	2
Burrows-Wheeler Transform (BWT)	2
SVM-RFE	2
Fisher's Exact Test	1
Complete-linkage Clustering	1
FP-growth Algorithm	1
Kemeny Optimal Aggregation (KOA)	1
Wang-Landau Monte Carlo Methods	1
Conditional Random Fields (CRFs)	1
Gaussian Naive Bayes	1

Start 1 to 50 of 67 entries

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Species	Count
Arabidopsis	226
Bacteria	99
C. elegans	199
Chicken	167
Fruitfly	218
Human	812
Maize	150
Mouse	359
Other Species	299
Rat	232

Start 1 to 10 of 17 entries

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Platforms	Count
Linux/Unix	330
MAC OS	308
Web Based	725
Windows	250

Status	Count
Active	918
Dead	117

Search miRNA Tools

Brief Introduction

Our database aim to make it easy for researchers to find the right tools or data source for their own specific study in miRNA field. Now we have collect >1000 tools. This database will update when every new 100 tools add in. Last update time 22nd April, 2018 (v1.2).

Updates History:

v1.1: 15th September, 2017 (970 tools)
v1.0: 1st October, 2016 (883 tools)

Latest Tools

	Tiresias
	Director
	dbDEMC
	MNDR
	DMTHNDM

Popular Tools

	miRBase
	Rfam
	MiRscan
	miRanda (microRNA.org)
	TargetScan
	miRNA - Target Gene Prediction at EMBL
	PicTar
	RNAhybrid
	RNAz
	ViennaRNA
	DIANA-TarBase
	miRDeep
	smiRNAdb
	DIANA-microT
	PITA