Journal: iScience

Article Title: Streptococcus pneumoniae pneumolysin and neuraminidase A convert high-density lipoproteins into pro-atherogenic particles

doi: 10.1016/j.isci.2021.102535

Figure Lengend Snippet:

Article Snippet: NT Control Software , Nanotemper , provided in package for Monolith NT.115 pico machine.

Techniques: Ex Vivo, Isolation, Recombinant, Plasmid Preparation, Labeling, Staining, Blocking Assay, Enzyme-linked Immunosorbent Assay, Expressing, Software

Journal: Immunity

Article Title: The white adipose tissue is a reservoir for memory T cells that promotes protective memory responses to infection

doi: 10.1016/j.immuni.2017.11.009

Figure Lengend Snippet: (A–B) >4 weeks post-infection with Yptb ΔyopM, mice were injected i.v. with YopE69–77 peptide or control vehicle. At 18 hours post-injection, the total mAT was isolated for microarray analysis. (A) Pathway analysis was performed using Enrichr and graphed based on enrichment score (Log10 (adjusted p value)). (B) Diagonal plot with red dots representing genes from the 2 most significantly enriched lipid metabolic pathways (GO: 0046460 and GO: 0006368) from (A) that were downregulated ≥2 fold (with an adjusted p value <0.05) after peptide injection compared to control. (C–D) >4 weeks post-infection with the Yptb ΔyopM, mice were injected i.v. with YopE69–77 peptide or control vehicle and analyzed 4 hours post-injection. (C) Relative concentration of adiponectin in serum. (D) Relative concentration of cholesterol in serum. (E–F) Relative gene expression determined by RT-qPCR on adipocytes isolated from mAT of mice >4 weeks post infection with Yptb ΔyopM at 18 hours post-injection. (G–H) >4 weeks post-infection with Yptb ΔyopM, the mAT was cultured with YopE69–77 peptide or control vehicle and AT and culture supernatants were analyzed after 48 hours. (G) Relative gene expression was evaluated from the indicated genes. (H) Levels of free glycerol were measured in culture supernatants. Error bars in all graphs represent standard deviation. Data are representative of at least 5 experiments with 2–7 mice per group. ns not significant *p<0.05, **p<0.01, ***p<0.001, ****p<0.0001. See Figure S6.

Article Snippet: N/A Oligonucleotides 5’-ATGAGTAACTTCTCTGGATTTACG-3’ IDT YscF-Forward 5’-TTATGGGAACTTCTGTAGGATG-3’ IDT YscF-Reverse Acaca Qiagen QT00258419 Dgat2 Qiagen QT00134477 Fasn Qiagen QT00149240 Gbp4 Qiagen QT00174608 Gbp11 Qiagen QT01255142 Ifi47 Qiagen QT00116935 Pparg Qiagen QT00100296 Hprt Qiagen QT00166768 Recombinant DNA Software and Algorithms clusterProfiler Yu et al., 2012 N/A Cytoscape 3.4.0 Nepusz et al., 2012 N/A DEseq pipeline Anders and Huber, 2010 N/A Enrichr http://amp.pharm.mssm.edu/Enrichr/ N/A FastQC software package version 0.11.5 Babraham Bioinformatics N/A Flowjo software Treestar N/A Imaris software Bitplane N/A Prism software Graphpad N/A STAR aligner Dobin et al., 2013 N/A Trimmomatic Bolger et al., 2014 N/A Other Open in a separate window DATA AND SOFTWARE AVAILABILITY

Techniques: Infection, Injection, Control, Isolation, Microarray, Concentration Assay, Gene Expression, Quantitative RT-PCR, Cell Culture, Standard Deviation

Journal: Immunity

Article Title: The white adipose tissue is a reservoir for memory T cells that promotes protective memory responses to infection

doi: 10.1016/j.immuni.2017.11.009

Figure Lengend Snippet: DATA AND SOFTWARE AVAILABILITY

Article Snippet: N/A Oligonucleotides 5’-ATGAGTAACTTCTCTGGATTTACG-3’ IDT YscF-Forward 5’-TTATGGGAACTTCTGTAGGATG-3’ IDT YscF-Reverse Acaca Qiagen QT00258419 Dgat2 Qiagen QT00134477 Fasn Qiagen QT00149240 Gbp4 Qiagen QT00174608 Gbp11 Qiagen QT01255142 Ifi47 Qiagen QT00116935 Pparg Qiagen QT00100296 Hprt Qiagen QT00166768 Recombinant DNA Software and Algorithms clusterProfiler Yu et al., 2012 N/A Cytoscape 3.4.0 Nepusz et al., 2012 N/A DEseq pipeline Anders and Huber, 2010 N/A Enrichr http://amp.pharm.mssm.edu/Enrichr/ N/A FastQC software package version 0.11.5 Babraham Bioinformatics N/A Flowjo software Treestar N/A Imaris software Bitplane N/A Prism software Graphpad N/A STAR aligner Dobin et al., 2013 N/A Trimmomatic Bolger et al., 2014 N/A Other Open in a separate window DATA AND SOFTWARE AVAILABILITY

Techniques: Software, Virus, Recombinant, Enzyme-linked Immunosorbent Assay, Isolation, SYBR Green Assay, Staining, Microarray