Combined high-depth Illumina+PacBio Sequencing of several samples from FDA-ARGOS

<p>The (real) sequencing data is compiled from a concatenation of sequencing runs from Database for Reference Grade Microbial Sequences (FDA-ARGOS). Specifically, the following samples were sequenced with both Illumina and PacBio. The sample accessions are shown below.</p> <pre><code> BioSample Run Platform Organism bases source 1 SAMN06173354 SRR5409204 ILLUMINA Bacillus anthracis 1778000000 Colorado Serum Co., Anthrax Spore Vaccine 2 SAMN06173354 SRR5409205 PACBIO_SMRT Bacillus anthracis 2420000000 Colorado Serum Co., Anthrax Spore Vaccine 3 SAMN06173356 SRR5448657 ILLUMINA Bacillus circulans 2311000000 swab with brown-gray powder 4 SAMN06173356 SRR5448656 PACBIO_SMRT Bacillus circulans 242000000 swab with brown-gray powder 5 SAMN04875535 SRR4123920 ILLUMINA Elizabethkingia anophelis 1357000000 blood 6 SAMN04875535 SRR4123919 PACBIO_SMRT Elizabethkingia anophelis 2173000000 blood 7 SAMN06173306 SRR5413253 ILLUMINA Escherichia coli O157 3051000000 clinical isolate 8 SAMN06173306 SRR5413252 PACBIO_SMRT Escherichia coli O157 915000000 clinical isolate 9 SAMN06173318 SRR5413272 ILLUMINA Mycobacterium avium subsp. paratuberculosis 1032000000 feces 10 SAMN06173318 SRR5413271 PACBIO_SMRT Mycobacterium avium subsp. paratuberculosis 462000000 feces 11 SAMN07312468 SRR5879398 ILLUMINA Mycobacterium tuberculosis 1054000000 human 12 SAMN07312468 SRR5879396 PACBIO_SMRT Mycobacterium tuberculosis 1854000000 human 13 SAMN04875542 SRR4123931 ILLUMINA Neisseria gonorrhoeae 1053000000 ATCC strain 14 SAMN04875542 SRR4123930 PACBIO_SMRT Neisseria gonorrhoeae 1117000000 ATCC strain </code></pre> <p>Samples were selected with the SRA Run selector. The SraRunTable.txt file was exported containing the metadata for each sample, and fastq-dump from the SRA toolkit was used to write out fastq files for each run, with paired Illumina data being split into separate _1.fastq.gz and _2.fastq.gz files. </p

qqman v0.1.0

<p>qqman version 0.1.0 on CRAN</p

Additional file 4: of DNA methylation in the APOE genomic region is associated with cognitive function in African Americans

Figure S1. Correlation of blood and brain methylation for the eight CpG sites significantly associated with delayed recall in GENOA: Results from the Blood Brain DNA Methylation Comparison Tool. Boxplots of methylation level by tissue type, and scatterplots demonstrating the relationship between methylation in whole blood and four brain regions (prefrontal cortex (PFC), entorhinal cortex (EC), superior temporal gyrus (STG), and cerebellum (CER)) in N = 71–75 matched samples from individuals archived in the MRC London Neurodegenerative Disease Brain Bank. Samples from both neuropathologically unaffected controls and individuals with variable levels of neuropathology were included. Plots were generated from the Blood Brain DNA Methylation Comparison Tool ( http://epigenetics.essex.ac.uk/bloodbrain/ ). Only CpG sites that showed a significant association with delayed recall (FDR q < 0.1) in the GENOA sample were investigated. (PDF 595 kb

Additional file 1: Table S1. of Key influence of sex on urine volume and osmolality

Bivariate associations for variables that did not pass stepwise linear model selection criteria. Figure S1. Analysis of biological sex on variability in urine osmolality (A) and urine volume (B). (DOCX 50 kb

Additional file 3: of DNA methylation in the APOE genomic region is associated with cognitive function in African Americans

Table S3. Sensitivity analysis for the association between methylation and delayed recall in APOE ε2 non-carriers (N = 183). A summary of results for the sensitivity analysis in APOE ε2 non-carriers, including association coefficients and significance levels. (DOC 185 kb

Additional file 1: of DNA methylation in the APOE genomic region is associated with cognitive function in African Americans

Table S1. Association between DNA methylation and delayed recall in the subset sample (N = 242). A summary of results for the analysis in subjects with available genotype data, including association coefficients, significance levels, and additional percent variation in delayed recall explained by methylation. (DOC 190 kb

Additional file 5: of DNA methylation in the APOE genomic region is associated with cognitive function in African Americans

Figure S2. Correlation of blood and brain methylation for the eight CpG sites significantly associated with delayed recall in GENOA: Results from Blood-Brain Epigenetic Concordance (BECon). Comethylation plots showing the methylation levels in blood and three cortical regions (Broadmann area 10 (BA10), prefrontal cortex; Broadmann area 7 (BA7), parietal cortex; and Broadmann area 20 (BA20) temporal cortex) in 16 individuals ranging from 15 to 87 years of age from the Douglas-Bell Canada Brain Bank (panel 1), as well as a summary of blood-brain correlations (Spearman correlation value), variability of the CpGs (range of beta values between 10th and 90th percentile in the sample), and the effect of cell composition (change in beta value before and after adjustment for cell composition) (panel 2). Plots were generated from the Blood-Brain Epigenetic Concordance database ( https://redgar598.shinyapps.io/BECon/ ). Only CpG sites that showed a significant association with delayed recall (FDR q < 0.1) in the GENOA sample were investigated. (PDF 21 kb

Additional file 2: of Comparison of the caries-protective effect of fluoride varnish with treatment as usual in nursery school attendees receiving preventive oral health support through the Childsmile oral health improvement programme — the Protecting Teeth@3 Study: a randomised controlled trial

CHU9D questionnaire – Nursery version. (DOCX 79 kb

Le Grelot : journal satirique paraissant le samedi

03 décembre 19461946/12/03 (N31)

L'Athlète : journal hebdomadaire de tous les sports

11 mai 19381938/05/11 (N1096)-1938/05/11.Appartient à l’ensemble documentaire : Aquit