PAM analysis of miRNAs differentially expressed between tumors and normals
| CV confusion matrix (threshold = 3.23866) . | . | . | . | |||
|---|---|---|---|---|---|---|
| True/predicted . | Cancer . | Normal . | Class error rate . | |||
| Cancer | 63 | 8 | 0.112676056 | |||
| Normal | 1 | 14 | 0.066666667 | |||
| Misclassification error = 0.11 | ||||||
| miRNAs | Cancer score | Normal score | ||||
| hsa-mir-200c* | 0.1152 | −0.5454 | ||||
| hsa-mir-200a* | 0.1059 | −0.5012 | ||||
| hsa-mir-199a† | −0.098 | 0.4637 | ||||
| hsa-mir-143‡ | −0.0946 | 0.4479 | ||||
| hsa-mir-199b‡ | −0.0887 | 0.4197 | ||||
| hsa-mir-141* | 0.0874 | −0.4138 | ||||
| hsa-mir-145‡ | −0.0734 | 0.3473 | ||||
| hsa-mir-147* | −0.0679 | 0.3212 | ||||
| hsa-mir-133a‡ | −0.0671 | 0.3176 | ||||
| hsa-mir-101* | −0.0616 | 0.2917 | ||||
| hsa-mir-214† | −0.0607 | 0.2873 | ||||
| hsa-mir-100† | −0.0535 | 0.2533 | ||||
| hsa-mir-140* | −0.0523 | 0.2474 | ||||
| hsa-mir-126‡ | −0.0501 | 0.2371 | ||||
| hsa-mir-224‡ | −0.0485 | 0.2294 | ||||
| hsa-mir-9* | −0.0481 | 0.2277 | ||||
| hsa-mir-105 | −0.0461 | 0.2184 | ||||
| hsa-mir-99a‡ | −0.037 | 0.1753 | ||||
| hsa-mir-125a‡ | −0.0315 | 0.1489 | ||||
| hsa-mir-211* | −0.0248 | 0.1174 | ||||
| hsa-mir-127* | −0.0232 | 0.11 | ||||
| hsa-mir-200b* | 0.0179 | −0.0847 | ||||
| hsa-mir-125b-1† | −0.0177 | 0.0837 | ||||
| hsa-let-7c‡ | −0.0152 | 0.0719 | ||||
| hsa-let-7d* | −0.0138 | 0.0654 | ||||
| hsa-mir-124a* | −0.0121 | 0.0574 | ||||
| hsa-mir-374 | −0.0119 | 0.0563 | ||||
| hsa-let-7a* | −0.0113 | 0.0533 | ||||
| hsa-mir-134* | −0.0014 | 0.0068 | ||||
| CV confusion matrix (threshold = 3.23866) . | . | . | . | |||
|---|---|---|---|---|---|---|
| True/predicted . | Cancer . | Normal . | Class error rate . | |||
| Cancer | 63 | 8 | 0.112676056 | |||
| Normal | 1 | 14 | 0.066666667 | |||
| Misclassification error = 0.11 | ||||||
| miRNAs | Cancer score | Normal score | ||||
| hsa-mir-200c* | 0.1152 | −0.5454 | ||||
| hsa-mir-200a* | 0.1059 | −0.5012 | ||||
| hsa-mir-199a† | −0.098 | 0.4637 | ||||
| hsa-mir-143‡ | −0.0946 | 0.4479 | ||||
| hsa-mir-199b‡ | −0.0887 | 0.4197 | ||||
| hsa-mir-141* | 0.0874 | −0.4138 | ||||
| hsa-mir-145‡ | −0.0734 | 0.3473 | ||||
| hsa-mir-147* | −0.0679 | 0.3212 | ||||
| hsa-mir-133a‡ | −0.0671 | 0.3176 | ||||
| hsa-mir-101* | −0.0616 | 0.2917 | ||||
| hsa-mir-214† | −0.0607 | 0.2873 | ||||
| hsa-mir-100† | −0.0535 | 0.2533 | ||||
| hsa-mir-140* | −0.0523 | 0.2474 | ||||
| hsa-mir-126‡ | −0.0501 | 0.2371 | ||||
| hsa-mir-224‡ | −0.0485 | 0.2294 | ||||
| hsa-mir-9* | −0.0481 | 0.2277 | ||||
| hsa-mir-105 | −0.0461 | 0.2184 | ||||
| hsa-mir-99a‡ | −0.037 | 0.1753 | ||||
| hsa-mir-125a‡ | −0.0315 | 0.1489 | ||||
| hsa-mir-211* | −0.0248 | 0.1174 | ||||
| hsa-mir-127* | −0.0232 | 0.11 | ||||
| hsa-mir-200b* | 0.0179 | −0.0847 | ||||
| hsa-mir-125b-1† | −0.0177 | 0.0837 | ||||
| hsa-let-7c‡ | −0.0152 | 0.0719 | ||||
| hsa-let-7d* | −0.0138 | 0.0654 | ||||
| hsa-mir-124a* | −0.0121 | 0.0574 | ||||
| hsa-mir-374 | −0.0119 | 0.0563 | ||||
| hsa-let-7a* | −0.0113 | 0.0533 | ||||
| hsa-mir-134* | −0.0014 | 0.0068 | ||||
NOTE: Of the 39 miRNAs found by SAM analysis, 29 miRNAs, 4 up-modulated and 25 down-modulated, were able to classify normal and tumor samples with a classification rate of 89%. The four miRNAs up-modulated were found amplified in the genomic study done by Zhang et al., 2005; among the miRNAs down-modulated, 10 of 25 were found deleted, 4 are discordant and 11 do not show any copy loss or gain in Zhang study.
Concordant.
Discordant.
Unchanged in Zhang study.