Journal: Annals of Translational Medicine

Article Title: Hes1 is associated with long non-coding RNAs in colorectal cancer

doi: 10.21037/atm.2019.08.11

Figure Lengend Snippet: Up-regulated and down-regulated lncRNA expression in colorectal tissues. (A) Heatmap of lncRNA expression in three colon cancer tissues comparing to matched three normal colon tissues detected by LncRNA/mRNA Expression Microarray (T, tumor; N, normal; fold change cut-off: 2.0). (B) Volcano Plot of lncRNA expression in 3 colon cancer tissues comparing to matched 3 normal colon tissues. LncRNA, long noncoding RNA; Exp, experiment, tumor group.

Article Snippet: Gene expression was determined using The ArrayStar Human LncRNA/mRNA Expression Microarray Version 3.0 (ArrayStar, MD, USA) following the manufacturer’s instructions.

Techniques: Expressing, Microarray

Journal: Annals of Translational Medicine

Article Title: Hes1 is associated with long non-coding RNAs in colorectal cancer

doi: 10.21037/atm.2019.08.11

Figure Lengend Snippet: Hes1 is associated with lncRNAs in colon cancer SW480 cells. (A) RIP-seq targeting Hes1. (B) Heatmap of the expression of Hes1-associated lncRNAs in three colon cancer tissues comparing to matched three normal colon tissues detected by LncRNA/mRNA Expression Microarray (T, tumor; N, normal). LncRNA, long noncoding RNA.

Article Snippet: Gene expression was determined using The ArrayStar Human LncRNA/mRNA Expression Microarray Version 3.0 (ArrayStar, MD, USA) following the manufacturer’s instructions.

Techniques: Expressing, Microarray

Journal: Frontiers in Physiology

Article Title: Multiple rather than specific autoantibodies were identified in irritable bowel syndrome with HuProt™ proteome microarray

doi: 10.3389/fphys.2022.1010069

Figure Lengend Snippet: The flow chart of the whole study. The study is comprised of three stages including Huprot™ human proteome microarray screening, IBS focused microarray test and ELISA validation. IBS, irritable bowel syndrome; HCs, healthy controls; DCs, disease controls.

Article Snippet: The HuProt™ version 3.0 human proteome microarray (CDI Laboratories, Inc., Baltimore, Maryland, United States) contains >19,000 unique proteins (autoantigens).

Techniques: Microarray, Enzyme-linked Immunosorbent Assay

Journal: Frontiers in Physiology

Article Title: Multiple rather than specific autoantibodies were identified in irritable bowel syndrome with HuProt™ proteome microarray

doi: 10.3389/fphys.2022.1010069

Figure Lengend Snippet: Comparison of optical density value of validated proteins between protein positive group and negative group by IBS focused microarray. The optical density value of ELAVL4 (IgG) of protein positive group is significantly higher than negative group by IBS focused microarray (A) . The optical density values of WT1-AS and EXOSC5 (IgG) are not significantly different between protein positive group and negative group (B,C) . The optical density value of PIGP (IgA) of protein positive group is significantly higher than negative group by IBS focused microarray (D) .

Article Snippet: The HuProt™ version 3.0 human proteome microarray (CDI Laboratories, Inc., Baltimore, Maryland, United States) contains >19,000 unique proteins (autoantigens).

Techniques: Microarray

Journal: Stem Cell Research & Therapy

Article Title: Vimentin expression is retained in erythroid cells differentiated from human iPSC and ESC and indicates dysregulation in these cells early in differentiation

doi: 10.1186/s13287-019-1231-z

Figure Lengend Snippet: Expression and knockdown of miR-30a. a miR-30a microarray expression data from hESC and adult samples matched for developmental stage. Total microRNA was processed and analysed by Sistemic Ltd., using the Agilent miRNA platform (using version 3 of Agilent’s Human microRNA microarray slides; miRBase version 12.0), n = 4 ± SE. b miR30a expression as assessed by real-time quantitative polymerase chain reaction in cells transduced with miRZIP-30a and a scrambled vector at 17 days post-transduction. Relative fold change in expression (normalized to RNU48) was calculated by the ΔΔCT method, and values are expressed as 2ΔΔCT. The plot is representative of two repeats

Article Snippet: Total microRNA was processed and analysed by Sistemic Ltd., using the Agilent miRNA platform (using version 3 of Agilent’s Human microRNA microarray slides; miRBase version 12.0), n = 4 ± SE. b miR30a expression as assessed by real-time quantitative polymerase chain reaction in cells transduced with miRZIP-30a and a scrambled vector at 17 days post-transduction.

Techniques: Expressing, Microarray, Real-time Polymerase Chain Reaction, Transduction, Plasmid Preparation

Journal: Journal of Experimental & Clinical Cancer Research : CR

Article Title: Cancer-associated fibroblasts promote the survival of irradiated nasopharyngeal carcinoma cells via the NF-κB pathway

doi: 10.1186/s13046-021-01878-x

Figure Lengend Snippet: CAFs reduced the level of DNA damage in NPC cells after irradiation. a GSEA of GSE48501 cell microarray and tissue microarray were conducted and pathways related to DNA damage and repair were enriched. b and c Comet assay showed that CAFs reduced the level of DNA damage in irradiated tumor cells. d and e Interruption of the IL-8 signaling pathway increased the distribution of γ-H2AX foci post-irradiation. f and g A blockade of the NF-κB pathway increased γ-H2AX foci in irradiated NPC cells. h and i A blockade of the IL-8/NF-κB pathway increased the level of DNA damage in irradiated NPC cells. * P < 0.05; ** P < 0.01; *** P < 0.001; **** P < 0.0001, ns, no significance

Article Snippet: Gene Set Enrichment Analysis (GSEA) software version 3.0 (Broad Institute, USA) was used to analyze GSE48501 and a human microarray containing radioresistant and radiosensitive NPC samples.

Techniques: Irradiation, Microarray, Single Cell Gel Electrophoresis

Journal: PLoS ONE

Article Title: Integrative Analyses of Uterine Transcriptome and MicroRNAome Reveal Compromised LIF-STAT3 Signaling and Progesterone Response in the Endometrium of Patients with Recurrent/Repeated Implantation Failure (RIF)

doi: 10.1371/journal.pone.0157696

Figure Lengend Snippet: A) A heatmap of genes in the “JAK-STAT pathway” gene set. Genes within the green box are leading characters for building enrichment scores in CON. The color spectrum from blue to red indicates low to high expression. B) Realtime RT-PCR to confirm differential expression of genes within the green box of the gene set. C) Immunohistochemical analyses of phosphorylated signal transducer and activator of transcription 3 (pSTAT3) in RIF. Note that the number and intensity of STAT3 positive stromal cells were significantly reduced in RIF. D) HSCORE analysis for immunohistochemistry of pSTAT3 in endometrial stromal cells. CON and RIF represent endometrium of healthy fertile women and patients with RIF, respectively. *, p <0.05. Scale bar: 100 μm.

Article Snippet: The expression value and detection calls were computed from the raw data and Gene Set Enrichment Analyses (GSEA, version 3.7) was applied to interpret expression profiles from microarrays (Broad Institute, Cambridge, MA, USA).

Techniques: Expressing, Reverse Transcription Polymerase Chain Reaction, Quantitative Proteomics, Immunohistochemical staining, Immunohistochemistry