Regulatory agencies advise to use the most conservative approach to impute missing data. As a drawback, single imputation methods do not take into account imputation variability.Giulia ToniniPhD Menarini RicercheFlorence
Multiple studies have highlighted dysregulation of complex networks of peripheral blood immune responses in COVID-19, using single-cell RNA-sequencing (scRNA-seq) analysis5,6,7,8,9,10,11,12,13,14. Monocytes5,6,7,8,9, antigen-presenting cells10, natural killer (NK) cells5,6,11, T cells...
For ATAC only, we used TF activity z scores (k-nn imputation with k = 20). For RNA + ATAC, we paired siblings and used combined features. Repeated Stratified k-fold cross-validation (n_splits = 5, n_repeats = 5) was used for analysis, resulting in 25 accuracy/...
The advent of low cost next generation sequencing has made it possible to sequence a large number of dairy and beef bulls which can be used as a reference for imputation of whole genome sequence data. The aim of this study was to investigate the accuracy and speed of imputation from a high...
While current imputation methods provide improved gene expression information, they still rely on the comparison of similar cells with largely absent gene expression information, for example by using clustering approaches. Genes that are not expressed in neighboring cells cannot be imputed, limiting the ...
-imputed data (Additional file1: Figure S4). All of the clusters in the non-imputed data were also identified when we re-analyzed the imputed data, with the exception of two neuronal clusters (7 and 10) that were merged into a single cluster (cluster 6) after gene expression imputation....
A modified Chromium 10x droplet-based protocol that subsamples cells for both short-read and long-read (nanopore) sequencing together with a new computational pipeline (FLAMES) is developed to enable isoform discovery, splicing analysis, and mutation det
“imputation” step to infer the true expression level of zero values in the input matrix. We choose the scImpute package [48] since it is the fastest among the imputation methods we have tested [48,49]. It takes about 1 minute on K-dataset using four cores of an Intel Xeon CPU E5-...
Platelet counts were considered as nonresponse if they were missing after imputation. The proportion of patients who underwent splenectomy during the study was summarized. The exposure-adjusted incidence rates and patient incidence rates of AEs were summarized by system organ class and by preferred term...
Post-hoc analyses were performed to quantify the potential of missing data for primary outcomes only: multiple imputation for missing at random was used,23 with M = 20 imputations and adjustment of the imputation model for site, age, number of urinary symptoms and signs, previous antibiotic...