4 × 44 k whole human genome microarray slides  (Agilent technologies)

Journal: Drug Design, Development and Therapy

Article Title: Targeted inhibition of mammalian target of rapamycin (mTOR) enhances radiosensitivity in pancreatic carcinoma cells

doi: 10.2147/DDDT.S42390

Figure Lengend Snippet: Scatter plot of the gene differential expression in PC-2 cells induced by RPM. Notes: The Cy3 (RPM treated group) and Cy5 (untreated control) channel intensities from the two-color DNA microarray experiments were shown in the scatter plot. The variables appear in a linear relationship, and the linear correlation between them is 0.935. The red plots represented upregulated genes, and the green plots represented downregulated genes. Abbreviation: RPM, rapamycin.

Article Snippet: The samples were subjected to mRNA expression profiling on 4 × 44 K Agilent Whole Human Genome Microarray slides (catalog G4112F; Agilent Technologies Inc), using a single-color array method.

Techniques: Expressing, Microarray

Journal: Drug Design, Development and Therapy

Article Title: Targeted inhibition of mammalian target of rapamycin (mTOR) enhances radiosensitivity in pancreatic carcinoma cells

doi: 10.2147/DDDT.S42390

Figure Lengend Snippet: ( A ) RT-PCR analysis for the DNA-damage repair and transcription genes after the treatment with RPM; ( B ) Difference between the cDNA microarray and RT-PCR in DNA-damage repair and transcription genes. Notes: The genes examined here are: (1) DDB1(NM_001923); (2) RAD51 (NM_002876); (3) XRCC5 (NM_021141); (4) PCNA (NM_002592); and (5) ABCC4 (NM_005845). The values represent the mean ± SD of the data from three independent experiments. Abbreviations: RPM, rapamycin; RT-PCR, reverse transcription polymerase chain reaction; SD, standard deviation.

Article Snippet: The samples were subjected to mRNA expression profiling on 4 × 44 K Agilent Whole Human Genome Microarray slides (catalog G4112F; Agilent Technologies Inc), using a single-color array method.

Techniques: Reverse Transcription Polymerase Chain Reaction, Microarray, Standard Deviation

Journal: Cell Communication and Signaling : CCS

Article Title: Molecular immunologic correlates of spontaneous latency in a rabbit model of pulmonary tuberculosis

doi: 10.1186/1478-811X-11-16

Figure Lengend Snippet: Bacillary growth and global transcriptome analysis of rabbit lungs during Mtb CDC1551 infection. Bacterial CFU in the lungs were enumerated up to 24 weeks and microarray analysis of gene expression profile was performed in the lungs of Mtb-infected rabbits at 2, 4, 8 and 12 weeks post-infection and compared to the uninfected animals. A : Total lung bacillary load determined by plating organ homogenates from each infected rabbit on agar plates. For each animal, about 30% of the entire lung, comprising all 5 lung lobes, was used to prepare the homogenates. B : PCA mapping of data points obtained from pooled samples from uninfected (n = 3) or one experiment from each of the three biological replicates from Mtb-infected rabbit lungs at each time point (n = 3 per time point). Eclipse drawn around the triplicate data points for each time point represents area spanning two-fold standard deviation from the median expression levels. C : Venn diagram showing the number of statistically significantly differentially expressed genes (SDEG) by Mtb infection of rabbit lungs at 2, 4, 8 and 12 weeks post-infection. The genes were selected based on a False Discovery Rate (FDR) of 5% (equivalent to p ≤0.05).

Article Snippet: The 4 × 44 k rabbit whole genome microarray slides, associated reagents and software were purchased from Agilent Technologies (Agilent Technologies, Inc. Santa Clara, CA) and used as per the manufacturers’ instructions.

Techniques: Infection, Microarray, Expressing, Standard Deviation

Journal: BMC Immunology

Article Title: Differential effects of Paclitaxel on dendritic cell function

doi: 10.1186/1471-2172-11-14

Figure Lengend Snippet: Microarray analysis of DC exposed to LPS 1 μg/ml or paclitaxel 100 μM for 2 hours.

Article Snippet: This was used as a probe on the Whole Human Genome Microarray (4 × 44 K) slide (Agilent).

Techniques: Microarray

Journal: BMC Complementary and Alternative Medicine

Article Title: Hot water extract of Agaricus blazei Murrill specifically inhibits growth and induces apoptosis in human pancreatic cancer cells

doi: 10.1186/s12906-018-2385-4

Figure Lengend Snippet: a Venn diagram analysis of global gene expression of pancreatic cancer cells treated with the hot water extract of Agaricus blazei Murrill (AbE). Genes with a statistically significant (greater than four-fold) change in expression were collected and classified. In the three cell lines, 394 genes were commonly altered. b Quantitative reverse transcription PCR was performed to validate the microarray results. The expression of genes associated with cell cycle progression or apoptosis was altered by the AbE treatment. The mean changes in gene expression relative to those in untreated cells, calculated by using GAPDH as the reference housekeeping gene, are displayed on a log2 scale. The difference in expression of each mRNA relative to that of non-treated cells was determined using a Student’s t-test. * p < 0.05, ** p < 0.01, *** p < 0.001

Article Snippet: For each hybridization, 1.65 μg of cRNAs was fragmented at 60 °C for 30 min using the Gene Expression Hybridization Kit (Agilent Technologies) and hybridized at 65 °C for 17 h to a 4 × 44 K Whole Human Genome Microarray slide (Agilent Technologies) in accordance with the manufacturer’s instructions.

Techniques: Expressing, Microarray