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Matches in Nanopublications for { ?s ?p "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" ?g. }

• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.
• _3 value "Supporting Table 5/6. Genes having expression that was specifically up/down regulated during senescence in human fibroblasts. By using cDNA microarrays to concurrently compare the expression of 31,000 genes in senescent, quiescent, and early passage proliferating cells, we identified distinct transcriptional perturbations that characterize telomere-dependent irreversible proliferative arrest in human fibroblasts and HMECs. ##Statistics: Pearson correlation coefficients were calculated between pairs of microarrays using all spots that satisfied filter parameters. A modified t-score (32) was used to determine the significance of transcriptional alterations. We permuted data from all spots randomly 5,000 times to determine the rate at which random data exceeded modified t-score thresholds and defined this value as the false positive rate (FPR). To estimate the false negative rate (FNR), we randomly selected 30 genes whose expression exceeded the modified t-score thresholds and added log2(R/G) ratios randomly selected from spots that passed data filters (i.e., ?noise?); FNR was defined by how frequently the average expression level of these proband genes became negative after noise was added. Calculated FPR and FNR values assume that none of the changes in randomly selected data have biological significance. Additionally, as the selection of t-score thresholds that produced nonoverlapping gene groupings constrained the independence of FPRs and FNRs, the calculated FPR and FNR values for some gene groupings are overestimates. ##" provenance.