Research Article
ArraySearch: A Web-Based Genomic Search Engine
Table 1
A comparison of genomic search engine features.
| | ArrayExpress | Oncomine | plexDB | Genevestigator | ArraySearch |
| 1 Website | http://www.ebi.ac.uk/gxa/ | http://oncomine.org/ | http://www.plexdb.org/ | https://www.genevestigator.com/ | http://ArraySearch.org/ | 2 Microarray data source | ArrayExpress | ArrayExpress, GEO, SMD | AtGenExpress, NASCArrays, TAIR, datasets uploaded by plexDB curators | AtGenExpress, NCBI GEO, TAIR, ArrayExpress, NASCArrays, other sources … | NCBI GEO | 3 Species | Arabidopsis+others | Human | Arabidopsis+others | Arabidopsis+others | Arabidopsis | 4 statistical analysis | | | | | | 4.1 Query gene correlation with contrasts | No | No | No | No | Yes | 4.2 Query gene correlation by gene ontology | No | No | No | No | Yes | 4.4 User-defined expression profile query | No | No | No | No | Yes | 4.5 Correlation between query gene/samples | No | No | No | No | Yes | 5 Graphical output of gene coexpression | Heatmap | Scatter plot | Line graph/hierarchical Clustering | Line Graph | Heatmap/bargraph | 6 Output: coexpression scores between query genes | No | No | Yes | Yes | No | 7 References | Parkinson et al. [10] | Rhodes et al. [5] | Wise et al. [4] | Hruz et al. [2] | |
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