Distributions of microbiome communities generated for simulation experiments in terms of percentage (A) and species counts (B). The sequence percentages not displayed in the chart are human. High coverage—high bacteria coverage treatments (Table S4). Low Coverage—low coverage treatment for all organisms (Table S5). 3.3× bacteria—increased number of bacteria vs baseline; 2× fungi—increased number of fungi vs baseline; 5× virus—increased number of viruses vs baseline (Table S9). Out of 96 scenarios, 84 use the baseline composition. (PNG 53 kb
Venn diagram illustrating overlap of genera defined by putative 16S rRNA and mRNA reads for five met...
Metagenomic and metatranscriptomic analyses of genes encoding three pathofunctions, namely, the form...
Table S2. Coefficient of variation (CV) values for individual bacteria taxa in the bacterial mock co...
Figure S1. Scatterplot contrasting for each sample the number of successfully profiled species again...
MetAnnotate estimates microbial community abundance with high accuracy, demonstrated by estimated cl...
Figure S1. Concordance of species coverage predicted by reads (x-axis, both plots) with species cove...
Species abundance in mock staggered community. Table S2. DNA concentration in mock staggered communi...
Supplementary tables. Supplementary Table S1. Bacterial abundances in Simulation 1 (high-diversity c...
Figure S1. Bases classified total or target over centrifuge score. Each sample has two lines of the ...
Microbial diversity in the 4 microbiome projects. Representation of microbial diversity using, (a) g...
Figure S1. Effect of primary filters on the number of reads. Figure S2. Insert size distribution. Fi...
Table S3. DESeq normalized RNASeq data representing eight different Veillonella genomes in the in vi...
The number of genomes of major genera exhibiting individual pathofunctions is displayed, where the p...
Table S1. Accuracy of taxonomic assignments of 18S and 28S rRNA variable genetic regions. Related to...
Table S1. Number of genomes left in the reference databases and training sets of the methods used in...
Venn diagram illustrating overlap of genera defined by putative 16S rRNA and mRNA reads for five met...
Metagenomic and metatranscriptomic analyses of genes encoding three pathofunctions, namely, the form...
Table S2. Coefficient of variation (CV) values for individual bacteria taxa in the bacterial mock co...
Figure S1. Scatterplot contrasting for each sample the number of successfully profiled species again...
MetAnnotate estimates microbial community abundance with high accuracy, demonstrated by estimated cl...
Figure S1. Concordance of species coverage predicted by reads (x-axis, both plots) with species cove...
Species abundance in mock staggered community. Table S2. DNA concentration in mock staggered communi...
Supplementary tables. Supplementary Table S1. Bacterial abundances in Simulation 1 (high-diversity c...
Figure S1. Bases classified total or target over centrifuge score. Each sample has two lines of the ...
Microbial diversity in the 4 microbiome projects. Representation of microbial diversity using, (a) g...
Figure S1. Effect of primary filters on the number of reads. Figure S2. Insert size distribution. Fi...
Table S3. DESeq normalized RNASeq data representing eight different Veillonella genomes in the in vi...
The number of genomes of major genera exhibiting individual pathofunctions is displayed, where the p...
Table S1. Accuracy of taxonomic assignments of 18S and 28S rRNA variable genetic regions. Related to...
Table S1. Number of genomes left in the reference databases and training sets of the methods used in...
Venn diagram illustrating overlap of genera defined by putative 16S rRNA and mRNA reads for five met...
Metagenomic and metatranscriptomic analyses of genes encoding three pathofunctions, namely, the form...
Table S2. Coefficient of variation (CV) values for individual bacteria taxa in the bacterial mock co...