View source for Missing value estimation methods for DNA microarrays


=== Citation ===
Troyanskaya, O., Cantor, M., Sherlock, G., Brown, P., Hastie, T., Tibshirani, R.,
Botstein, D., and Altman, R. B. (2001). Missing value estimation methods for dna
microarrays. Bioinformatics, 17(6):520–525.
[https://doi.org/10.1093/bioinformatics/17.6.520: 10.1093/bioinformatics/17.6.520]

=== Summary ===
SVD, KNN and row average imputation are evaluated with different parameter settings on real data sets with regard to robustness, sensitivity and accuracy.

=== Study outcomes ===
List the paper results concerning method comparison and benchmarking:
==== Outcome O1 ====
Rank of performance: KNN, SVD, row average, zero filling.

==== Outcome O2 ====
"KNN is relatively insensitive to .. K within the range of k=10-20" (Figure 1)
 
==== Outcome O3 ====
SVD "is sensitive to the type of data" and "is ideally suited .. in terms of .. constituent patterns"

=== Study design and evidence level ===

Just 4 imputation algorithms (SVD,KNN) are evaluated from which 2 are singular value substitutions (average,zero).

Analysis is performed over a broad range of hyperparameters (KNN: k=[1,1000], SVD: Eigengenes=[5,30]).

The imputation methods are only analyzed on data with less than 20%.

=== References ===