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Search found 69 results for « base composition analysis »

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HOLLYWOOD
Dataset

HOLLYWOOD

This database was built upon genomic annotation of splicing patterns of known…

This database was built upon genomic annotation of splicing patterns of known genes derived from spliced alignment of complementary DNAs (cDNAs) and expressed sequence tags. Hollywood was implemented…

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Spliceosome…
Dataset

Spliceosome Database

A database of spliceosome-associated proteins and snRNAs. SpliceosomeDB…

A database of spliceosome-associated proteins and snRNAs. SpliceosomeDB provides tools to search for spliceosome genes/proteins based on several characteristics including name(s), complex…

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M6ATH
Web

M6ATH

Allows to identify m6A sites in A. thaliana. M6ATH is based on a support vector…

Allows to identify m6A sites in A. thaliana. M6ATH is based on a support vector machine (SVM) method that permits to build models in computational genomics and proteomics. It encodes RNA sequences by…

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RNAMDB
Dataset

RNAMDB RNA Modification Database

Provides a comprehensive listing of post-transcriptionally modified nucleosides…

Provides a comprehensive listing of post-transcriptionally modified nucleosides from RNA. RNAMDB employs an easy-to-use, searchable interface for obtaining detailed data on the 109 currently known…

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CAn
Desktop

CAn CoverageAnalyzer

Allows the visualization and assisted inspection of deep sequencing data in the…

Allows the visualization and assisted inspection of deep sequencing data in the search for RNA modifications. CAn allows the definition of a highly detailed query, based on combinations of arrest…

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RAMPred
Web

RAMPred Rna N1-Adenosine Methylation PREDictor

Identifies N1-methyladenosine (m1A) m1A sites in H. sapiens, M. musculus and S.…

Identifies N1-methyladenosine (m1A) m1A sites in H. sapiens, M. musculus and S. cerevisiae genomes. RAMPred is a support vector machine-based model which encodes RNA sequences using nucleotide…

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MACE
Desktop

MACE Model based Analysis of ChIP-exo

A bioinformatics tool dedicated to analyze ChIP-exo data: 1) Sequencing depth…

A bioinformatics tool dedicated to analyze ChIP-exo data: 1) Sequencing depth normalization and nucleotide composition bias correction. 2) Signal consolidation and noise reduction. 3) Single base…

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GANPA
Desktop

GANPA Gene Association Network-based Pathway Analysis

Implements a network-based gene weighting algorithm for pathways, as well as a…

Implements a network-based gene weighting algorithm for pathways, as well as a gene-weighted gene set analysis approach for microarray data pathway analysis. As a network-based gene-weighting method,…

iPanda
Desktop

iPanda in silico Pathway Activation Network Decomposition Analysis

Identifies biomarker using gene expression data. The iPANDA method combines…

Identifies biomarker using gene expression data. The iPANDA method combines precalculated gene coexpression data with gene importance factors based on the degree of differential gene expression and…

COPid
Web

COPid COmposition based Protein Identification

Assists the researchers in annotating the function of a protein from its…

Assists the researchers in annotating the function of a protein from its composition using whole or part of the protein. COPid has three modules called search, composition and analysis. The search…

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OMiSA
Desktop

OMiSA Optimal Microbiome-based Survival Analysis

Provides an R package dealing with microbiome association. OMiSA is composed of…

Provides an R package dealing with microbiome association. OMiSA is composed of three main components: (i) OMiSA for examines microbial composition/survival association influence on health and…

ReFACTor
Desktop

ReFACTor Reference-Free Adjustment for Cell-Type composition

A method based on principal component analysis (PCA) and designed for the…

A method based on principal component analysis (PCA) and designed for the correction of cell type heterogeneity in epigenome-wide association studies (EWAS). ReFACTor tool is based on a variant of…

RAICAR
Desktop

RAICAR Ranking and Averaging Independent Component Analysis by Reproducibility

Improves the decomposition and interpretation of functional magnetic resonance…

Improves the decomposition and interpretation of functional magnetic resonance imaging (fMRI) data with independent component analysis (ICA). RAICAR is an ICA method based on reproducibility. The…

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NIA Array…
Web

NIA Array Analysis

A program for microarray data analysis, which features the false discovery rate…

A program for microarray data analysis, which features the false discovery rate for testing statistical significance and the principal component analysis using the singular value decomposition method…

dEMBF
Dataset

dEMBF Database of Enzymes of Microalgal Biofuel Feedstock

The first curated and integrated web-based relational database on the entire…

The first curated and integrated web-based relational database on the entire repertoire of enzymes responsible for lipid synthesis in microalgae. dEMBF catalogues the complete list of identified…

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NPACT
Desktop
Web

NPACT N-Profile Analysis Computational Tool

A computational and graphical representation tool for gene identification and…

A computational and graphical representation tool for gene identification and sequence annotation. NPACT identifies sequence segments of any length with statistically-significant 3-base compositional…

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MetaCV
Desktop

MetaCV Metagenome Composition Vector

A composition and phylogeny-based algorithm to classify very short metagenomic…

A composition and phylogeny-based algorithm to classify very short metagenomic reads (75-100 bp) into specific taxonomic and functional groups. MetaCV performs (for both sensitivity and specificity)…

OGDD
Dataset

OGDD Olive Genetic Diversity Database

It is a genetic, morphologic and chemical database of worldwide olive tree and…

It is a genetic, morphologic and chemical database of worldwide olive tree and oil having a double function. In fact, besides being a reference system generated for the identification of unkown olive…

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IUTA
Desktop

IUTA Isoform Usage Two-step Analysis

An analysis tool of Illumina paired-end mRNA-seq data for detecting…

An analysis tool of Illumina paired-end mRNA-seq data for detecting differential usage of gene transcript isoforms. It first uses the EM algorithm to identify the usage of transcript isoforms for…

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TAEC
Desktop

TAEC Taxonomic Analysis by Elimination and Correction

A homology-based approach that utilizes the similarity in the genomic sequence…

A homology-based approach that utilizes the similarity in the genomic sequence in addition to the result of an alignment tool. By taking account of the similarity in the genomic sequence TAEC…

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