Journal: Journal of neuroscience research

Article Title: AP-1 and the injury response of the GFAP gene

doi: 10.1002/jnr.24338

Figure Lengend Snippet: hGFAP is the human GFAP DNA fragment used to generate the 73-7 line used as the AxD model (Messing et al., 1998). The WT-1, -2 and -3 transgene is the previously described gfa2-nlac (Brenner et al., 1994); its complete sequence is available from AddGene as part of pGfa2-nLac (Plasmid #53126). WT-4 is identical to WT-1, except that the promoter starts at bp −1757 instead of −2163. The AP1m-1, -2 and -3 transgene is identical to WT-4, except that the AP-1 site has been changed from TGACTCA to TTCAGAA. Nucleotide positions are relative to the RNA start site as +1. The positions for the AP-1 and STAT3 binding sites are the first (5’) nucleotide. The diagrams are not drawn to scale.

Article Snippet: The probe/primer sets were 4352339E for mouse Gapdh, Mm01253033_m1 for mouse Gfap and Hs00909238_g1 for human GFAP.

Techniques: Sequencing, Plasmid Preparation, Binding Assay

Journal: Journal of neuroscience research

Article Title: AP-1 and the injury response of the GFAP gene

doi: 10.1002/jnr.24338

Figure Lengend Snippet: Responses of h GFAP-lacZ transgenes to injuries.

Article Snippet: The probe/primer sets were 4352339E for mouse Gapdh, Mm01253033_m1 for mouse Gfap and Hs00909238_g1 for human GFAP.

Techniques:

Journal: Journal of neuroscience research

Article Title: AP-1 and the injury response of the GFAP gene

doi: 10.1002/jnr.24338

Figure Lengend Snippet: Effect of STAT inhibition on basal and injury-induced Gfap expression.

Article Snippet: The probe/primer sets were 4352339E for mouse Gapdh, Mm01253033_m1 for mouse Gfap and Hs00909238_g1 for human GFAP.

Techniques: Inhibition, Expressing, Control, Over Expression, Western Blot

Journal: Cancer cell

Article Title: Tumor evolution of glioma intrinsic gene expression subtype associates with immunological changes in the microenvironment

doi: 10.1016/j.ccell.2017.06.003

Figure Lengend Snippet: (A, B) Tumor purity of 364 and 369 TCGA IDH-WT GBM samples was determined by ABSOLUTE (A) and ESTIMATE (B), respectively. The difference in tumor purity between subtypes was evaluated using a two-sample Student t-test. (C) Comparison of ITGAM and AIF1 gene expression levels between GBM and derived neurosphere models. N.MES indicates non-mesenchymal cases. (D) The upper panel shows ssGSEA enrichment scores and associated expression subtype classifications. Bottom panels display protein expression of the microglial markers ITGAM and AIF1, astrocyte marker glial fibrillary acidic protein (GFAP) and the loading control tubulin and vinculin. (E) Comparison of immune cell fractions among subtypes. Immune cell fractions were estimated using CIBERSORT and corrected using ABSOLUTE purity scores per sample. The distribution of immune cell fractions of 86 PN, 136 CL and 104 MES IDH-WT GBMs with simplicity score>0.05 were shown by purple, skyblue and green boxplots, respectively. Median value difference of cell fraction among subtypes was evaluated using Mood's test. Boxplots represent 25th and 75th percentiles, with midlines indicating the median values and points within the boxes indicating the mean values. Whiskers extend to the lowest/highest values of the data sample excluding outliers (A-C, E). See also Figure S3 and Table S5.

Article Snippet: The primary antibodies include ITGAM (CD11B) (Sigma Aldrich, #HPA002274), AIF1 (IBA1) (Wako, #016-20001), GFAP (Cell Signaling, #3670), NF1 (clone McNFn27b, GeneTex, #GTX15776), Actin (Sigma Aldrich, A5044), Vinculin (EMD Millipore, # 05-386) and Tubulin (Cell Signaling, #2128).

Techniques: Comparison, Gene Expression, Derivative Assay, Expressing, Marker, Control

Journal: Cancer cell

Article Title: Tumor evolution of glioma intrinsic gene expression subtype associates with immunological changes in the microenvironment

doi: 10.1016/j.ccell.2017.06.003

Figure Lengend Snippet: Key Resources Table

Article Snippet: The primary antibodies include ITGAM (CD11B) (Sigma Aldrich, #HPA002274), AIF1 (IBA1) (Wako, #016-20001), GFAP (Cell Signaling, #3670), NF1 (clone McNFn27b, GeneTex, #GTX15776), Actin (Sigma Aldrich, A5044), Vinculin (EMD Millipore, # 05-386) and Tubulin (Cell Signaling, #2128).

Techniques: Recombinant, Purification, Staining, cDNA Synthesis, Sample Prep, RNA Sequencing, Software