Journal: Immunity

Article Title: The cytokine TNF promotes transcription factor SREBP activity and binding to inflammatory genes to activate macrophages and limit tissue repair

doi: 10.1016/j.immuni.2019.06.005

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: SureCell WTA 3′ Library Prep Kit for the ddSeq System , Illumina , Cat# 200142780.

Techniques: Purification, Control, Virus, Plasmid Preparation, Recombinant, Amplex Red Cholesterol Assay, cDNA Synthesis, SYBR Green Assay, Multiplex Assay, RNA Library Preparation, Microarray, Software

Journal: Mutagenesis

Article Title: Towards an advanced testing strategy for genotoxicity using image-based 2D and 3D HepG2 DNA damage response fluorescent protein reporters

doi: 10.1093/mutage/geab031

Figure Lengend Snippet: Hepatocyte maturation status of four different HepG2 models. (A) Bright field pictures showing morphological differences between the different models; HepG2 cultured in 2D and normal DMEM medium, HepG2 cultured in 2D and AAGLY medium, HepG2 cultured in 3D and normal DMEM medium, HepG2 cultured in 3D and AAGLY medium from left to right. (B) Gene expression profiles of some hepatocyte markers ( SERPINA1 and ALB ), CYP enzymes ( 3A4 , 3A7 and 1B1 ) and transporters ( UGT1A1 and SLC10A1 ) and the housekeeping genes ( GAPDH ). Gene expression values are relative to model 1 (HepG2 cultured in 2D and normal DMEM medium) and benchmarked to a pool of 10 different donors of cryopreserved PHHs (10×). N = 6; error bars represent SD; significance levels represented as * P adj < 0.05, ** P adj < 0.01 and *** P adj < 0.001.

Article Snippet: Samples were lysed for 15 min at room temperature, stored at −80°C and shipped for transcriptome analysis by BioSpyder.

Techniques: Cell Culture, Gene Expression

Journal: Genetics

Article Title: Sequential, Divergent, and Cooperative Requirements of Foxl2a and Foxl2b in Ovary Development and Maintenance of Zebrafish

doi: 10.1534/genetics.116.199133

Figure Lengend Snippet: Transcriptome profiling changes of gonadal development-related genes in ovaries of foxl2a−/− and foxl2b−/− mutants. (A) Relatively transcribed changes of several kinds of gonadal development-related genes between foxl2a−/− and WT ovaries or foxl2b−/− and WT ovaries at 150 dpf. (B–N) Relative expression qRT-PCR detection of the indicated genes in WT, foxl2a−/−, and foxl2b−/− ovaries from 105 to 270 dpf (n = 3). The qRT-PCR quantification of each gene expression is normalized to actb1, and the data are presented as mean ± SEM * P ≤ 0.05 (Duncan’s multiple range test).

Article Snippet: The transcriptome analysis, including library construction, sequencing, and bioinformatic analysis were performed by Beijing Genomics Institute, China.

Techniques: Expressing, Quantitative RT-PCR, Gene Expression

Journal: Genetics

Article Title: Sequential, Divergent, and Cooperative Requirements of Foxl2a and Foxl2b in Ovary Development and Maintenance of Zebrafish

doi: 10.1534/genetics.116.199133

Figure Lengend Snippet: Transcriptome profiling changes of cyp genes in the ovaries of foxl2a−/− and foxl2b−/− mutants. (A) Relatively transcribed changes of nine cyp genes between foxl2a−/− and WT ovaries or foxl2b−/− and WT ovaries at 150 dpf. (B–J) Relative expression qRT-PCR detection of nine cyp genes in WT, foxl2a−/−, and foxl2b−/− ovaries from 105 to 270 dpf (n = 3). The qRT-PCR quantification of each gene expression is normalized to actb1, and the data are presented as mean ± SEM * P ≤ 0.05 (Duncan’s multiple range test).

Article Snippet: The transcriptome analysis, including library construction, sequencing, and bioinformatic analysis were performed by Beijing Genomics Institute, China.

Techniques: Expressing, Quantitative RT-PCR, Gene Expression