differentially expressed microRNAs - PLOS

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#Censored obs in dataset. P-values Differential Expression Hypothesis. UCNR. MNV+1. LOD. KNN. -0.1. 0.1. 0.2. 0.3. 0.4. 0.5. Box plot of δ^i. 0. 200. 400. 600.
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UCNR MNV+1 LOD KNN

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Estimates Differential Expression δ^i

miRNA 31 (final # UV : 5 (MNA) / 7 (MNSC))

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Box plot of δ^i

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miRNA 31 (# UV : 5 / 7 )

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P-values Differential Expression Hypothesis

#Censored obs in dataset

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UCNR

MNV+1

LOD

KNN

#Censored obs in dataset

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UCNR MNV+1 LOD KNN

-0.4 -0.2

Estimates Differential Expression δ^i

miRNA 41 (final # UV : 13 (MNA) / 23 (MNSC))

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Box plot of δ^i

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miRNA 41 (# UV : 13 / 23 )

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P-values Differential Expression Hypothesis

#Censored obs in dataset

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UCNR

MNV+1

LOD

KNN

#Censored obs in dataset

S5 Figure: The graphs illustrate the di↵erences between the methods when applied to nondi↵erentially expressed microRNAs (true i = 0). Two non-di↵erentially expressed microRNAs are tracked during the simulation study. (a) Estimates of di↵erential expression by UCNR (green solid line), multiple t-tests with MOD normalization and LOD imputation (red dashed line), MNV+1 imputation (blue dotted line) and KNN imputation (black dotted-dashed line). Censoring an observation at some point for this particular microRNA is marked by a black circle (MNA group) or a grey square (MNSC group) on the horizontal axis. (b) Plot of log10 p-values for the hypothesis test (H0 : i = 0; H1 : i 6= 0). (c) Box plot of di↵erential expression estimates.

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