A multi-step filtering approach was applied to reduce the number of 5.6 M variants to a subset of 1.2 M variants for experimental validation on two Affymetrix® Axiom® 600 k screening arrays.
Due to the very high number of SNPs detected in the previous steps, a multi-step filtering strategy was followed to reduce the number to a robust and tractable subset for HD array design.
A multi-step filtering was applied as follows: spots were removed from analysis if signals were <2 times the average of the control spots, as calculated for each slide over the three subarrays.
To overcome the classical gene biomarker detection methods based on differentially expressed genes (DEGs) in studies with small number of samples, resulting too many false positives and low statistical power, Hur et al. (Seoul National U., Korea) proposed a multi-step filtering method to predict gene biomarkers from RNA-Seq data of case-control mouse-knockout studies [ 13].
An integrated approach of an interactome, reactome and genome-scale structural analysis to identify potential drug targets of Mycobacterium tuberculosis is a comprehensive approach among these studies which implements multi-step filters.
For coding variants, the probe with the higher p-convert value was chosen based on this classification, whereas for all remaining variants probe sets were further filtered according to the following multi step approach.
Considering the different factors that are associated with erroneous TCR CDR3 sequences, we would envision a multi-step process for filtering sequences.
This was previously a multi step process.
Metric selection methods we assessed included "filter gradient" using a multi-step approach to filter candidate metrics down to only the most reproducible and responsive, "indirect gradient" using a correlative unconstrained ordination approach, and "direct gradient" involving an automated constrained ordination approach.
We employ a multi-step process to progressively filter out articles less likely to contain information that can be integrated into the current TAIR database structure.
Step 2: Filtering CUIs using CUI TF-IDF.
