Objective To estimate the effect of two simple filters, two or more positive peptide filter and Unified Score filter on the true positive rate of protein and peptide. Methods Twenty-two LC-MS/MS datasets were from 18 ...Objective To estimate the effect of two simple filters, two or more positive peptide filter and Unified Score filter on the true positive rate of protein and peptide. Methods Twenty-two LC-MS/MS datasets were from 18 known protein mixture. Two or more positive peptide filter and Unified Score filter were applied to the 22 datasets. The filters effect was evaluated according to the true positive rate of protein and peptide for each filter. Results The positive rates of protein and peptide from two or more peptide filter raised from 56.49% to 92.86%-99.12% (for protein) and from 90.67% to 97.74%-99.62% (for peptide), but many positive proteins were filtered out. The positive rates of protein and peptide from Unified Score (ThermoFinnigan value 2400) were only about 35.51% and 82.99%, but after adjusted the value (3900) according to the number of false positive peptide, those positive rate raised to 63.61% (for protein) and 91.97% (for peptide). Conclusions Two or more peptides requirement could significantly decrease false positive rate, but it also may filter out many true positive proteins especially low molecular weight and less abundant proteins. Unified Score may be a better filter than Xcorr and DeltaCn combination and the value of 3900 is found to be more suitable for this particular datasets.展开更多
Natural zeolite and coal cinder were layered as main packing medium of the ecological filter instead of traditional filling to remedy the static lake water in Northern China.The ecological filter was running in a comb...Natural zeolite and coal cinder were layered as main packing medium of the ecological filter instead of traditional filling to remedy the static lake water in Northern China.The ecological filter was running in a combined upward and downward flow mode.Dynamic experiments were carried out to study the effects of retention time and ambient temperature on pollutants' removal efficiency of the hybrid ecological filter.The function of plant was also studied by contrast test.It is showed that the removal efficiencies of NH4+-N and TP are increased when the retention time is changed from 1 h to 2 h and 4 h,but the removal efficiency of TN is decreased,the removal efficiency of NH4+-N is increased from 91.5% to 98% and that of TP is increased from 31.8% to 52.5%.When the temperature declines,the temporal removal efficiency of NH4+-N is reduced,but the removal efficiency of 24 h and 48 h is remained.The removal efficiency of TP after 24 h and 48 h is decreased when the temperature declines evidently.The retention time plays an important role in NH4+-N and TP removal,and the ambient temperature is significant for TP removal.The plant favors for TP and organic matter removal but has little effect on TN removal.展开更多
基金Supported by grants from the National Basic Research Program (973)2004CB520804 ,National Natural Science Foundation of China (30270657,30230150 ,3037030 ).
文摘Objective To estimate the effect of two simple filters, two or more positive peptide filter and Unified Score filter on the true positive rate of protein and peptide. Methods Twenty-two LC-MS/MS datasets were from 18 known protein mixture. Two or more positive peptide filter and Unified Score filter were applied to the 22 datasets. The filters effect was evaluated according to the true positive rate of protein and peptide for each filter. Results The positive rates of protein and peptide from two or more peptide filter raised from 56.49% to 92.86%-99.12% (for protein) and from 90.67% to 97.74%-99.62% (for peptide), but many positive proteins were filtered out. The positive rates of protein and peptide from Unified Score (ThermoFinnigan value 2400) were only about 35.51% and 82.99%, but after adjusted the value (3900) according to the number of false positive peptide, those positive rate raised to 63.61% (for protein) and 91.97% (for peptide). Conclusions Two or more peptides requirement could significantly decrease false positive rate, but it also may filter out many true positive proteins especially low molecular weight and less abundant proteins. Unified Score may be a better filter than Xcorr and DeltaCn combination and the value of 3900 is found to be more suitable for this particular datasets.
基金Sponsored by the National Natural Science Foundation of China(Grant No.50809037)Innovation Fund of Shanghai University(Grant No.10-0111-07-010)+1 种基金the Specialized Research Fund for the Outstanding Young Teachers of Shanghai(Grant No.37-0111-07-701)Systems Biology Research Foundation of Shanghai University
文摘Natural zeolite and coal cinder were layered as main packing medium of the ecological filter instead of traditional filling to remedy the static lake water in Northern China.The ecological filter was running in a combined upward and downward flow mode.Dynamic experiments were carried out to study the effects of retention time and ambient temperature on pollutants' removal efficiency of the hybrid ecological filter.The function of plant was also studied by contrast test.It is showed that the removal efficiencies of NH4+-N and TP are increased when the retention time is changed from 1 h to 2 h and 4 h,but the removal efficiency of TN is decreased,the removal efficiency of NH4+-N is increased from 91.5% to 98% and that of TP is increased from 31.8% to 52.5%.When the temperature declines,the temporal removal efficiency of NH4+-N is reduced,but the removal efficiency of 24 h and 48 h is remained.The removal efficiency of TP after 24 h and 48 h is decreased when the temperature declines evidently.The retention time plays an important role in NH4+-N and TP removal,and the ambient temperature is significant for TP removal.The plant favors for TP and organic matter removal but has little effect on TN removal.
