Journal: Oncogene

Article Title: H19 lncRNA identified as a master regulator of genes that drive uterine leiomyomas

doi: 10.1038/s41388-019-0808-4

Figure Lengend Snippet: TET3 affects DNA methylation and histone modifications of the MED12, TGFBR2, and TSP1 promoters. a UtLM cells were transfected with siCon or siTET3 for 48 h, followed by ChIP-qPCR analysis. Data are presented as mean relative TET3 enrichment over input. n = 3. Red numbers indicate nucleotide positions relative to the transcriptional start sites, with PCR products depicted as red-stripped bars. b Sequences of critical transcription regulatory regions (CTRR) of MED12 , TGFBR2 , and TSP1 . The differentially methylated cytosine residues are marked in red. The red numbers mark the positions of the indicated nucleotides relative to the transcriptional start sites. c UtLM cells were transfected with siCon or siTET3 for 48 h, followed by QMSP analysis. n = 3. d UtLM cells were transfected with siCon or siTET3 for 48 h, followed by ChIP-qPCR analysis. Data are presented as mean relative enrichment over input. n = 3. All data are representative of at least two independent experiments and are presented as mean ± SEM. * p < 0.05, ** p < 0.01

Article Snippet: Antibodies for TET3 (GeneTex, GTX121453; used at a dilution of 1/500), TGFBR2 (Abcam, ab184948; used at a dilution of 1/1000), TSP1 (Abcam, ab85762; used at a dilution of 1/500), MED12 (Novus Biological, NB100–2357; used at a dilution of 1/500), HMGA2 (Proteintech, 20795–1-AP; used at a dilution of 1/500), GRAF1 (Cell Signaling, 8802; used at a dilution of 1/500), SPARC (Cell Signaling, 8725; used at a dilution of 1/500), COL3A1 (LS-Bio, LS-C159386; used at a dilution of 1/1000), COL4A1 (LS-Bio, LS-C100552; used at a dilution of 1/500), COL5A2 (Origene, TA809611; used at a dilution of 1/500), and GAPDH (Abcam, ab128915; used at a dilution of 1/10000) were purchased.

Techniques: DNA Methylation Assay, Transfection, ChIP-qPCR, Methylation

Journal: Oncogene

Article Title: H19 lncRNA identified as a master regulator of genes that drive uterine leiomyomas

doi: 10.1038/s41388-019-0808-4

Figure Lengend Snippet: H19 and TET3 co-express with fibroid-promoting genes in vivo. a , c RT-qPCR analyses were performed on RNAs extracted from human fibroids and matched myometrium tissues. Spearman’s correlation showed positive correlations between expression of H19 and TET3 ( a , left panel), as well as TET3 and its target genes MED12 , TGFBR2 , and TSP1 ( c ) in a statistically significant manner. No correlation between expression of H19 and HMGA2 at the RNA level was detected ( a , right panel). Spearman’s correlation coefficient, p -values, and sample numbers are presented. b Results of western blotting analysis of HMGA2 in human fibroids and matched myometrium. n = 3. Data are representative of two independent experiments and are presented as mean ± SEM

Article Snippet: Antibodies for TET3 (GeneTex, GTX121453; used at a dilution of 1/500), TGFBR2 (Abcam, ab184948; used at a dilution of 1/1000), TSP1 (Abcam, ab85762; used at a dilution of 1/500), MED12 (Novus Biological, NB100–2357; used at a dilution of 1/500), HMGA2 (Proteintech, 20795–1-AP; used at a dilution of 1/500), GRAF1 (Cell Signaling, 8802; used at a dilution of 1/500), SPARC (Cell Signaling, 8725; used at a dilution of 1/500), COL3A1 (LS-Bio, LS-C159386; used at a dilution of 1/1000), COL4A1 (LS-Bio, LS-C100552; used at a dilution of 1/500), COL5A2 (Origene, TA809611; used at a dilution of 1/500), and GAPDH (Abcam, ab128915; used at a dilution of 1/10000) were purchased.

Techniques: In Vivo, Quantitative RT-PCR, Expressing, Western Blot

Journal: Scientific Reports

Article Title: A novel nudivirus infecting the invasive demon shrimp Dikerogammarus haemobaphes (Amphipoda)

doi: 10.1038/s41598-020-71776-3

Figure Lengend Snippet: The ‘ Dikerogammarus haemobaphes nudivirus ’ circular genome with open reading frames (ORF) graphically plotted across the 119,754 bp sequence. Locus tags for each similar virus are denoted in the place of DhNV genes, where possible. Gold regions and text indicate predicted genes on the positive strand and black regions and text indicate those on the negative strand. Below the genome, the green plot displays genome coverage across the genome using the MiSeq and HiSeq trimmed sequence reads . ORFs with significant similarity (e-value < 0.001) to other nudivirus genes are listed as the reference gene number on the corresponding viral genome. The circular plot was developed in Circa ( www.omgenomics.com/circa/ ) and the coverage map from CLC genomics workbench v.12 (Qiagen).

Article Snippet: The circular plot was developed in Circa ( www.omgenomics.com/circa/ ) and the coverage map from CLC genomics workbench v.12 (Qiagen).

Techniques: Sequencing

Journal: bioRxiv

Article Title: Designer Fat Cells: Adipogenic Differentiation of CRISPR-Cas9 Genome-Engineered Induced Pluripotent Stem Cells

doi: 10.1101/2023.10.26.564206

Figure Lengend Snippet: Different cell concentrations of Ccl2-Luciferase PDiPSCs primed in adipogenic media for 3 days were injected into LD mice and IVIS imaging was used to quantify cells present in the mouse, (a) Photon flux per animal was calculated every week for 4 weeks. Bars represent mean photon flux + SEM (n=3- 7). Exact p values are displayed using LD mice with PBS injection as the control, (b) WT and LD mice were injected with 20e 6 cells and imaged for 28 weeks using IVIS imaging. Values represent mean photon flux ± SEM (n=3-7). All statistics were run using a 2-way ANOVA with Sidak’s post-hoc test. SEM, standard error of the mean, (c) Representative images of WT and LD mice at various timepoints from IVIS imaging are shown. The red circle highlights the area of injection.

Article Snippet: After waiting 10 minutes, mice were positioned on their dorsal aspect and images were taken from the ventral view with an exposure time of 5 minutes using an IVIS Lumina (PerkinElmer, Waltham, MA, USA; Living Image 4.2; 1-min exposure; bin, 8; field of view, 12.5 cm; f/stop, 1; open filter).

Techniques: Luciferase, Injection, Imaging, Control