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Polyadenylation site detection software tools | RNA modification data analysis

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Omni-PolyA
Web
Desktop

Omni-PolyA

Predicts poly(A) signals (PAS) in human genomic DNA sequences. Omni-PolyA is a…

Predicts poly(A) signals (PAS) in human genomic DNA sequences. Omni-PolyA is a prediction method and tool that combines different classification models in a tree-like structure.

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cleanUpdTSeq
Desktop

cleanUpdTSeq

Identifies artefactual polyadenylation sites due to internal priming in…

Identifies artefactual polyadenylation sites due to internal priming in homopolymeric stretches of adenines. cleanUpdTSeq classifies flanking 3’ ends derived from oligo-dT-based sequencing as true…

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PASPA
Web

PASPA

A web server for poly(A) site prediction in plants and algae. Currently, PASPA…

A web server for poly(A) site prediction in plants and algae. Currently, PASPA can predict poly(A) sites for ten species, including Arabidopsis, rice, and Medicago truncatula,spikemoss Selaginella…

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ERPIN
Desktop

ERPIN Easy RNA Profile IdentificatioN

An RNA motif identification program that takes an RNA sequence alignment as an…

An RNA motif identification program that takes an RNA sequence alignment as an input and identifies related sequences using a profile-based dynamic programming algorithm. ERPIN differs from other RNA…

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DNAFSMiner
Web

DNAFSMiner DNA Functional Sites Miner

A web-based software toolbox to recognize functional sites in nucleic acid…

A web-based software toolbox to recognize functional sites in nucleic acid sequences. Currently in this toolbox, two software tools are provided: TIS Miner and Poly(A) Signal Miner. The TIS Miner can…

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PolyA_SVM
Desktop
Web

PolyA_SVM

A method using support vector machine for poly(A) site prediction. This program…

A method using support vector machine for poly(A) site prediction. This program takes a file containing DNA/RNA sequences in the FASTA format as input, and 1) makes prediction for putative mRNA…

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PolyAMotif
Desktop

PolyAMotif

A machine-learning method for poly(A) motif prediction by marrying generative…

A machine-learning method for poly(A) motif prediction by marrying generative learning (hidden Markov models) and discriminative learning (support vector machines). The program is able to predict the…

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POLYAR
Desktop

POLYAR

Predicts potential PAS-strong, PAS-weak and PAS-less cleavage/poly(A) sites in…

Predicts potential PAS-strong, PAS-weak and PAS-less cleavage/poly(A) sites in human sequences by linear discriminant function (LDF) combining characteristics describing functional motifs…

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polyadq
Web

polyadq

A program for detection of human polyadenylation signals. To avoid training on…

A program for detection of human polyadenylation signals. To avoid training on possibly flawed data, the development of polyadq began with a de novo characterization of human mRNA 3' processing…

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DPS
Web

DPS Dragon PolyA Spotter

A poly(A) motif prediction method based on properties of human genomic DNA…

A poly(A) motif prediction method based on properties of human genomic DNA sequence surrounding a poly(A) motif. These properties include thermodynamic, physico-chemical and statistical…

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