PMC:2644708 / 31036-32152 JSONTXT

{"project":"NEUROSES","denotations":[{"id":"T553","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T554","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T555","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T556","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T557","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T558","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T559","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T560","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T561","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T562","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T563","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T564","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T565","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T566","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T567","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T568","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T569","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T570","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T571","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T572","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T573","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T574","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T575","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T576","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T577","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T578","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T579","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T580","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T581","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T582","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T583","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T584","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T585","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T586","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T587","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T588","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T589","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T590","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T591","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T592","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T593","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T594","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T595","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T596","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T597","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T598","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T599","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T600","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T601","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T602","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T603","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T604","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T605","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T606","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T607","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T608","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T609","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T610","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T611","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T612","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T613","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T614","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T615","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T616","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T617","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T618","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T619","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T620","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T621","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T622","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T623","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T624","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T625","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T626","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T627","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T628","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T629","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T630","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T631","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T632","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T633","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T634","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T635","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T636","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T637","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T638","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T639","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T640","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T641","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T642","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T643","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T644","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T645","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T646","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T647","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T522","span":{"begin":28,"end":34},"obj":"PATO_0001199"},{"id":"T523","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T524","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T525","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T526","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T527","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T528","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T529","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T530","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T531","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T532","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T533","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T534","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T535","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T536","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T537","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T538","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T539","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T540","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T541","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T542","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T543","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T544","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T545","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T546","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T547","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T548","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T549","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T550","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T551","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T552","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T648","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T649","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T650","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T651","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T652","span":{"begin":911,"end":914},"obj":"CHEBI_25427"},{"id":"T653","span":{"begin":436,"end":442},"obj":"PATO_0001199"},{"id":"T654","span":{"begin":150,"end":154},"obj":"PATO_0000502"},{"id":"T655","span":{"begin":150,"end":154},"obj":"PATO_0000693"},{"id":"T656","span":{"begin":213,"end":217},"obj":"PATO_0000384"},{"id":"T657","span":{"begin":213,"end":217},"obj":"CHEBI_30780"},{"id":"T658","span":{"begin":359,"end":364},"obj":"CHEBI_50406"},{"id":"T659","span":{"begin":567,"end":575},"obj":"PATO_0000173"},{"id":"T660","span":{"begin":584,"end":589},"obj":"PATO_0000002"},{"id":"T661","span":{"begin":609,"end":613},"obj":"CHEBI_22695"},{"id":"T662","span":{"begin":609,"end":613},"obj":"CHEBI_18282"},{"id":"T663","span":{"begin":670,"end":678},"obj":"PATO_0002118"},{"id":"T664","span":{"begin":712,"end":718},"obj":"PATO_0000461"},{"id":"T665","span":{"begin":911,"end":914},"obj":"CHEBI_25427"}],"text":"Figure 5 GRSN corrects non-linear artifacts in representative microarray datasets. A. GRSN applied to two different microarray datasets. First row – late stage sample L3 from the MKM dataset. Second row – mutant Male sample MutM2 from the SS dataset. Columns 1–3 demonstrate the effect of GRSN on the selected samples as described in figure 2 above. The RMA probe set summary method was used in each. B. GRSN can reduce systematic non-linear artifacts which can affect fold change analysis regardless of pre-processing method. M vs. A plots showing fold change as a function of mean value and plotted on log base 2 scale. Both fold change and mean are calculated using multiple replicates, 14 FA samples and 11 Normal samples from the GB dataset (not just comparing two samples). A lowess smoothed curve is displayed to show the trend of the scatter plots. Three different summary methods are shown: Top row – MAS 5.0, Middle row – RMA, and Bottom row – dChip®. The results in the left column are without GRSN applied and the effect of applying GRSN to each of the respective methods is shown in the right column. "}