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Large-scale expressed sequence tag (EST) – based bioinformatics analysis deal with the heterogenous …

Biology Articles » Bioinformatics » In silico identification and comparative analysis of differentially expressed genes in human and mouse tissues » Tables

Tables
- In silico identification and comparative analysis of differentially expressed genes in human and mouse tissues

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Table 1: Percentage of genes identified as differentially expressed, as defined by different p values.
A. Human differentially expressed genes
No. of tissues expressing the gene
 5.00E-02
 5.00E-03
 5.00E-04
 5.00E-05
 1.00E-06
1
 35.76%
 41.77%
 53.27%
 63.02%
 62.22%
2
 15.19%
 20.21%
 22.66%
 18.73%
 20.77%
3
 9.65%
 12.11%
 9.82%
 7.66%
 6.98%
4
 8.69%
 10.33%
 7.05%
 5.56%
 5.23%
5
 4.97%
 5.32%
 3.17%
 2.21%
 2.04%
>5
 25.75%
 10.27%
 4.04%
 2.82%
 2.75%
B. Mouse differentially expressed genes
No. of tissues expressing the gene
 5.00E-02
 5.00E-03
 5.00E-04
 5.00E-05
 1.00E-06
1
 27.49%
 29.72%
 39.33%
 47.28%
 54.58%
2
 8.57%
 16.48%
 20.04%
 21.17%
 19.94%
3
 10.84%
 10.73%
 12.97%
 12.12%
 11.34%
4
 7.23%
 9.03%
 9.52%
 7.69%
 5.98%
5
 4.57%
 7.73%
 6.21%
 4.43%
 3.36%
>5
 41.29%
 26.32%
 11.93%
 7.32%
 4.79%

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Table 2: Correlation analysis of human and mouse orthologous genes. r indicates the Pearson correlation coefficient of the A-C test p values for orthologs expressed in at least 3 normal tissues in common in human and mouse and expressed in at least one human tissue and one mouse tissue with p  
p value threshold
 No. of ortholog pairs
 ave r
 ave r (r ≥ 0)
 ave r (r No. of pairs with r ≥ 0
 No. of pairs with r
No
 6585
 0.20
 0.39
 -0.25
 4571 (69.42%)
 2014 (30.58%)
5.00E-02
 5199
 0.23
 0.43
 -0.26
 3591 (69.07%)
 1608 (30.93%)
5.00E-03
 2736
 0.38
 0.50
 -0.20
 2262 (82.68%)
 474 (17.32%)
5.00E-04
 1889
 0.47
 0.56
 -0.21
 1687 (89.31%)
 202 (10.69%)
5.00E-05
 1114
 0.55
 0.61
 -0.22
 1012 (90.84%)
 102 (9.16%)
1.00E-06
 892
 0.60
 0.65
 -0.19
 836 (93.72%)
 56 (6.28%)
ave = average

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Table 3: Number of significant tissue-specific (p  
Strength of association
 Number of pairs
 Number of pairs with a positive correlation (r>0)
 Number of pairs with a negative correlation (r
0r| 138 (15.47%)
 99 (11.10%)
 39 (4.37%)
0.2≤|r| 98 (10.99%)
 91 (10.20%)
 7 (0.79%)
0.4≤|r| 136 (15.24%)
 130 (14.57%)
 6 (0.67%)
0.6≤|r| 160 (17.94%)
 159 (17.83%)
 1 (0.11%)
0.8≤|r|≤1
 360 (40.36%)
 357 (40.02%)
 3 (0.34%)
Sum
 892
 836 (93.72%)
 56 (6.28%)

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