Journal: Stem Cell Research & Therapy

Article Title: HMGB1-modified mesenchymal stem cells attenuate radiation-induced vascular injury possibly via their high motility and facilitation of endothelial differentiation

doi: 10.1186/s13287-019-1197-x

Figure Lengend Snippet: Microarray analysis of differentially expressed genes in MSCs during endothelial differentiation. In EC-MSC coculture system, there MSC samples for each group were collected at days 0 and 7, respectively, and sent to microarray analysis of differentially expressed genes. The inclusion criteria for differentially expressed genes were the absolute fold change of RNA levels > 1.5 and P value < 0.05. The analysis yielded 2482 (999 upregulated and 1483 downregulated) genes in MSC-H cells and 1325 (671 upregulated and 654 downregulated) genes in MSC-C cells. These genes were enriched in GO terms ( a ) and KEGG pathways analysis ( b ). The enriched terms that were present in both MSC-C and MSC-H groups were marked by asterisks. The MSC-H cells yielded a cluster of the most enriched terms with high similarity to MSC-C cells. Approximately one-half of the most enriched GO terms and pathways were consistent between them. Nevertheless, multiple pathways were noteworthy of being exclusively enriched in MSC-H cells, including MAPK and p53 signaling. c The number of differentially expressed genes (significance genes) enriched in the shared GO terms was counted and compared between groups. MSC-H cells yielded 1.7-fold (ranged from 1.5 to 1.9-fold) greater number of significance genes than MSC-C cells on average. d The number of differentially expressed genes (significance genes) enriched in the shared signaling pathways was counted and compared between groups. Similarly, MSC-H cells had an average 1.4-fold (ranged from 1.3 to 1.8-fold) increase of significance gene counts than the MSC-H cells

Article Snippet: Microarray analysis of MSC gene expression profile was performed by GeneChem (Shanghai, China).

Techniques: Microarray, Protein-Protein interactions

Journal: The Journal of Pathology: Clinical Research

Article Title: A 12‐gene signature to distinguish colon cancer patients with better clinical outcome following treatment with 5‐fluorouracil or FOLFIRI

doi: 10.1002/cjp2.17

Figure Lengend Snippet: A: Supervised hierarchical clustering displaying the genes significantly modulated between the resistant and sensitive cell lines (52 under‐ and 51 over‐expressed in resistant cell lines) using a cutoff of twofold change on expression and FDR < 0.01. B: Fold difference in gene expression between sensitive and resistant cell lines detected by qRT‐PCR analyses. Seven genes were selected from the list of altered genes for this analysis. The results from sensitive or resistant cell lines were pooled to obtain an estimated fold change. C: Correlation between the qRT‐PCR and the microarray expression data. The fold difference detected by qRT‐PCR between sensitive and resistant cell lines correlated significantly confirming the microarray results (Pearson's correlation or ρ = 0.739, p ‐value = 0.013).

Article Snippet: Hence, we used a publically available gene expression DNA microarray dataset generated by Almac Diagnostics on 359 FFPE tissue specimens from stage II colon cancer that did not receive adjuvant chemotherapy.

Techniques: Expressing, Gene Expression, Quantitative RT-PCR, Microarray