br Data The data represent the

Data
The data represent the result of metagenomic shotgun-sequencing of human gut microbiota at 3 time points: before the H. pylori eradication therapy, immediately after 2 weeks of therapy and several weeks after the treatment. The dataset contains 15 metagenomic samples in raw reads format with 30.4 ± 10.7 mln of reads per sample (mean ± SD).
These data together with those described in [2] were involved in the study devoted to the gut microbiome changes caused by antimicrobial therapy [1].
Detailed description of samples is given in Table 1.

Experimental design, materials and methods

Acknowledgements
This work was financially supported by the Ministry of Education and Science of Russian Federation (Agreement no. 14.575.21.0076, ID RFMEFI575I4×0076).

Specifications Table

Value of the data

Data
Along with the data set, we provide information about the experimental details on the hypoxic cell culture setup that determine the actual pericellular pO2, both in a normoxic and hypoxic incubator. Culture medium volume as well as vessel surface area and geometry all influence culture medium depth above the settled GSK503 in an unstirred culture. Because of poor solubility in the liquid phase and continuous cellular consumption, the pO2 in the culture medium decreases with depth toward the cells at the bottom of a standard culture dish where its actual value is not known [5]. In addition, we provide a step by step protocol for using the mirVana buffer system in combination with Pure Link micro kit filter columns for extraction of total RNA from cells. We tested the quality of the deposited microarray data for each of the 20 samples (Fig. 1, Supplementary material). Further, we represent the global comparison between the four experimental conditions (Figs. 2 and 3). Fig. 1 depicts the box plots for all microarray experiments after normalization. We illustrate differential gene expression through experimental factors (IL-15 priming and hypoxia) using Venn diagram (Fig. 2) and heatmap representations (Figs. 3 and 4). The differential gene expression data is available as Supplementary material 1.

Experimental design, materials and methods

Acknowledgements
This work was supported by intramural funds and by the foundation Klaus Tschira Stiftung, Germany​, grant number 00.277.2015.

Data
The dataset of this article describes delayed IFNγ production in adult mice infected with RSV as well as the immune response and viral clearing effects of IFNγ when delivered intranasally compared to PBS alone. Fig. 1 shows RSV-mediated weight changes and viral clearance in adult mice treated with intranasal IFNγ or PBS. Figs. 2–5 show changes in innate and adaptive immunity in RSV-infected adult mice treated with IFNγ or PBS.

Experimental design, materials and methods
Balb/cJ mice aged 6–8 weeks, were ordered from The Jackson Laboratory, Bar Harbor, ME and were maintained in pathogen-free facilities in the Division of Laboratory Animal Resources at the University of Pittsburgh (Pittsburgh, PA). Experiments and animal handling were performed according to protocols approved by The University of Pittsburgh Institutional Animal Care and Use Committee. Where indicated, mice were infected intranasally (i.n.) with RSV Line 19 (RSV L19, Martin Moore, Emory University, Atlanta, GA) (5 × 105pfu/g, ~1.5 × 106 pfu in 100μl) under isoflurane anesthesia. On one day post infection (dpi) 50μl of recombinant murine IFNγ (16ng/g) (Peprotech, Rocky Hill, NJ) or vehicle only (PBS) were delivered intranasally to RSV-infected mice under light isoflurane anesthesia GSK503 on 1, 3, and 5dpi. Mice were weighed daily; percent change from baseline weight was reported. At the indicated times post-infection, at least 5 mice per group were culled for tissue collection. Lungs were lavaged with HBSS-EDTA, then right lungs were harvested and processed for flow cytometry and left lungs were snap frozen for viral plaque assays as previously described [2].