Technical strategies to reduce the amount of "false significant" results in quantitative proteomics.

@article{citeulike:2803509, abstract = {When the p-value is set at <0.05 in statistical group comparisons, a 5\% rate of "false significant" results is expected. In order to test the reliability of our 2-DE method, we loaded each of 24 gels with equal-sized samples (200 mug protein from pooled rat brain, pH 4-7, stained with ruthenium fluorescent stain for visualization) and statistically compared the first 12 gels with the last 12. In numerous experiments the rate of significant differences found far exceeded 5\%. Several factors were identified as causing the following rates of false significant differences in spot intensities: (i) running samples in two different 2-DE runs (42\%), (ii) running second dimension gels produced in two different gel casters (16\%), (iii) normalizing the entire gel instead of separately normalizing several different gel zones (11\%), (iv) using IPG strips from different packages (19\%), (v) dividing the whole sample into subgroups during software analysis (9\%). After controlling for all these factors, the rates of "false positive" results in our experiments were regularly reduced to approximately 5\%. This is an indispensable prerequisite for avoiding too high a rate of false positive results in experiments in which different subgroups are compared statistically.}, address = {Department of Radiology and Nuclear Medicine (Radiochemistry), Charit\'{e} Universit\"{a}tsmedizin, Campus Benjamin Franklin, Berlin, Germany.}, author = {Fuxius, S. and Eravci, M. and Broedel, O. and Weist, S. and Mansmann, U. and Eravci, S. and Baumgartner, A. }, citeulike-article-id = {2803509}, doi = {10.1002/pmic.200701074}, issn = {1615-9861}, journal = {Proteomics}, month = {May}, number = {9}, pages = {1780--1784}, posted-at = {2008-05-16 02:58:46}, priority = {2}, title = {Technical strategies to reduce the amount of "false significant" results in quantitative proteomics.}, url = {http://dx.doi.org/10.1002/pmic.200701074}, volume = {8}, year = {2008} }

TY - JOUR ID - citeulike:2803509 L3 - citeulike-article-id:2803509 TI - Technical strategies to reduce the amount of "false significant" results in quantitative proteomics. JF - Proteomics VL - 8 IS - 9 SP - 1780 EP - 1784 AD - Department of Radiology and Nuclear Medicine (Radiochemistry), Charité Universitätsmedizin, Campus Benjamin Franklin, Berlin, Germany. SN - 1615-9861 N2 - When the p-value is set at <0.05 in statistical group comparisons, a 5% rate of "false significant" results is expected. In order to test the reliability of our 2-DE method, we loaded each of 24 gels with equal-sized samples (200 mug protein from pooled rat brain, pH 4-7, stained with ruthenium fluorescent stain for visualization) and statistically compared the first 12 gels with the last 12. In numerous experiments the rate of significant differences found far exceeded 5%. Several factors were identified as causing the following rates of false significant differences in spot intensities: (i) running samples in two different 2-DE runs (42%), (ii) running second dimension gels produced in two different gel casters (16%), (iii) normalizing the entire gel instead of separately normalizing several different gel zones (11%), (iv) using IPG strips from different packages (19%), (v) dividing the whole sample into subgroups during software analysis (9%). After controlling for all these factors, the rates of "false positive" results in our experiments were regularly reduced to approximately 5%. This is an indispensable prerequisite for avoiding too high a rate of false positive results in experiments in which different subgroups are compared statistically. AU - Fuxius, S AU - Eravci, M AU - Broedel, O AU - Weist, S AU - Mansmann, U AU - Eravci, S AU - Baumgartner, A PY - 2008/05// UR - http://dx.doi.org/10.1002/pmic.200701074 ER -