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A workflow for omic data analysis

12322 tools classified by omic technologies, applications and analytical steps

Omic Technologies

Omic Data

Genomic software tools and databases

Genomics

Here, we surveyed web-based bioinformatics platforms, software tools and databases for the analysis of…

Epigenomic software tools and databases

Epigenomics

Here, we surveyed web-based bioinformatics platforms, software tools and databases for the analysis of…

Transcriptomic software tools and databases

Transcriptomics

Here, we surveyed web-based bioinformatics platforms, software tools and databases for the analysis of…

Metabolomic software tools and databases

Metabolomics

Here, we surveyed web-based bioinformatics platforms, software tools and databases for the analysis of…

Fluxomic software tools and databases

Fluxomics

Here, we surveyed web-based bioinformatics platforms, software tools and databases for the analysis of…

Biological pathway analysis software tools and databases

Pathway analysis

Here, we surveyed bioinformatics software tools and databases for analysing biological pathways.

Genotype-phenotype interaction software tools

Genotype-phenotype interactions

Here, we surveyed bioinformatics software tools to identify effective models that predict phenotypic traits…

Genome editing software tools and databases

Genome editing

Here, we surveyed web-based bioinformatics platforms, software tools and databases for genome editing…

RNA interference data and software tools

RNA interference

Here, we surveyed databases and bioinformatics software tools to design RNAi reagents and analyze RNAi screen…

Phenomic data and software tools

Phenomics

Here, we surveyed databases and bioinformatics software tools for phenomic analysis.

Drug discovery software tools and databases

Drug discovery

Drug discovery software tools and databases

Synthetic biology tools

Synthetic biology

Software tools and databases for synthetic biology.

Metabolic engineering software tools and databases

Metabolic engineering

Metabolic engineering software tools and databases

Biomolecular structure software tools and databases

Biomolecular structure

Biomolecular structure software tools and databases

Health and medical research software tools and databases

Health sciences

Health and medical research software tools and databases

Immunology software tools and databases

Immunology

Immunology software tools and databases

Biomedical text mining software tools and databases

Text-mining

Biomedical text mining software tools and databases

Tools

Most Recent Tools

new
OMIC_12659
Gene set analysis

DEsubs

A flexible, computationally fast and efficient tool for exploring disease-associated gene…

A flexible, computationally fast and efficient tool for exploring disease-associated gene perturbations contextualized by subpathways in a graph-theoretic framework. DEsubs contains an extensive and customized framework with a broad range of…

new
OMIC_12658
Mass spectrometry imaging

MSIdV

A visualization tool for biological indices calculated from mass spectrometry imaging…

A visualization tool for biological indices calculated from mass spectrometry imaging data, which can effectively scan a series of mass spectra and process, calculate and visualize user-defined index measures accurately with a number of signal…

new
OMIC_12657
Protein-protein interaction…

PathPPI

An integrated dataset of human pathways and protein-protein interactions. We developed a…

An integrated dataset of human pathways and protein-protein interactions. We developed a series of rules for transforming protein interactions from pathway to binary model, and the protein interactions from seven pathway databases, including PID,…

new
OMIC_12656
Differentially methylated…

GetisDMR

A statistical method to detect differentially methylated regions (DMRs) from whole-genome…

A statistical method to detect differentially methylated regions (DMRs) from whole-genome bisulfite sequencing (WGBS) datasets. GetisDMR utilizes the beta-binomial regression model to account for confounding effects, as well as biological and…

Most Popular Tools

popular
OMIC_05565
Venn diagrams

VENNY

An interactive tool for comparing lists with Venn Diagrams.

An interactive tool for comparing lists with Venn Diagrams.

popular
OMIC_00535
Transcription factor data

footprintDB

Predicts transcription factors which bind a specific DNA site or motif and DNA motifs or…

Predicts transcription factors which bind a specific DNA site or motif and DNA motifs or sites likely to be recognized by a specific DNA-binding protein.

popular
OMIC_02198
Variant effect prediction

SNPdryad

A computational method that can predict deleterious effect of amino acid substitutions…

A computational method that can predict deleterious effect of amino acid substitutions occurred in human proteins. SNPdryad outperforms other leading algorithms in accurately predicting deleterious nsSNPs.

popular
OMIC_03444
Genome visualization

ZENBU

Enables data exploration through "on-demand" data processing and interactive…

Enables data exploration through "on-demand" data processing and interactive linked-visualizationsthus enabling concurrent views from the same mere primary sequence alignment data which users can upload as BAM or tab-delimited(BED, GFF)…

Community

User reviews

Zhijiang Yao's avatar image

Zhijiang Yao

It's a useful web server.

View ChemDes page

isaac's avatar image

isaac

RNA-express is a great downloadable tool for handling RNA-sequencing data, annotating novel transcript…

View RNA-eXpress page

isaac's avatar image

isaac

The Interferome service has a great website with extensive databases that can be interrogated easily…

View Interferome page

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