Table 3.
Software for integrative analysis of Multidimensional omics data.
| Program | Application | Website | Reference |
|---|---|---|---|
| Agilent Genomic Workbench 5.0 | Genomics | http://www.chem.agilent.com/en-us/products/instruments/dnamicroarrays/dnaanalyticssoftware/pages/default.aspx | |
| Epigenomics | n/a | ||
| Transcriptomics | |||
| SIGMA2 | Genomics | http://www.flintbox.com/technology.asp?page=3716 | |
| Epigenomics | [85, 86] | ||
| Transcriptomics | |||
| Integrative Genomics Viewer | Genomics Transcriptomics |
http://www.broadinstitute.org/igv/ | n/a |
| Nexus Copy Number | Genomics Transcriptomics |
http://www.biodiscovery.com/index/nexus | n/a |
| CGH Fusion | Genomics Transcriptomics |
http://www.infoquant.com/index/cghfusion | n/a |
| ISA-CGH | Genomics Transcriptomics |
http://www.isacgh.bioinfo.cipf.es | [87] |
| VAMP | Genomics | http://www.bioinfo-out.curie.fr/projects/vamp/ | |
| Epigenomics | [88] | ||
| Transcriptomics | |||
| Partek Genomics Suite | Genomics | http://www.partek.com/partekgs | |
| Epigenomics | n/a | ||
| Transcriptomics | |||
| Genomics | http://www.GenomicsPortals.org/ | ||
| Genomics Portals | Epigenomics | [89] | |
| Transcriptomics | |||
| CHESS | Genomics Transcriptomics |
http://www.biostone.khu.ac.kr/CHESS | [90] |
| integrOmics | Genomics | http://www.CRAN.R-project.org/ | |
| Epigenomics | [91] | ||
| Transcriptomics | |||
| SEURAT | Genomics | http://www.seurat.r-forge.r-project.org/ | |
| Epigenomics | [92] | ||
| Transcriptomics | |||
| Genome Studio | Genomics | http://www.illumina.com/software/genomestudio_software.ilmn | |
| Epigenomics | n/a | ||
| Transcriptomics |