Total RNA from paired brain tumor tissue and adjacent noncancerous mucosa samples (N = 2) was extracted using TRIzol reagent (Life Technologies, Rockville, MD, USA) as described previously28 (link), 29 (link). Total RNA (20 μg) was used for labeling and hybridization with the SurePrint G3 Human Gene Expression array (Agilent, Welgene Biotech, Taiwan) containing 7419 lncRNAs and 27958 human genes. Slides were scanned and intensities measured using GenePix Pro 4.1 software (Axon Instruments Inc. Foster City, CA, USA).
Sureprint g3 human gene expression array
Manufactured by Agilent Technologies
Sourced in United States
The SurePrint G3 Human Gene Expression array is a high-performance microarray platform designed for comprehensive gene expression profiling. It provides comprehensive coverage of the human transcriptome, enabling the measurement of expression levels for a large number of genes simultaneously.
Automatically generated - may contain errors
3 protocols using sureprint g3 human gene expression array
1
Profiling Tumor Gene Expression
2
Gene Expression and Epigenetic Analysis
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Expression studies were performed using the Agilent platform following manufacturer's instructions. Briefly, 100 ng RNA extracted with TriZOL from MOs, MACs and OCs hybridized to a SurePrint G3 Human Gene Expression Array (Agilent Technologies, CA, USA). Probe intensity normalization and downstream analysis were obtained using statistical analysis language R in combination with Bioconductor repository functions (http://bioconductor.org ). Data normalization was followed by probe identity filtering, under strong statistical confidence thresholds (P < 0.01; FDR < 0.05; FC < 0.5 and FC > 2 for downregulated and upregulated respectively). Finally, comparison of expression and DNA methylation and hydroxymethylation data were performed by applying custom R scripting. To test for the association of gene expression and 5mC/5hmC we calculated the Pearson correlation coefficient using outlier corrected data. In detail, we fit a linear model and removed data points with Cooks distance measures greater than twice the median Cooks distance.
3
Transcriptome Profiling of ALCL
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Total RNA from paired ALCL tumor tissue and adjacent noncancerous mucosa samples (N = 3) were extracted using the TRIzol reagent (Life Technologies, Rockville, MD, USA), as described previously15 (link). Total RNA (20 μg) was used for labeling and hybridization with the SurePrint G3 Human Gene Expression array (Agilent, Welgene Biotech, Taiwan) containing 7419 lncRNAs and 27958 human genes. Slides were scanned and intensities were acquired using GenePix Pro 4.1 software (Axon Instruments Inc. Foster City, CA, USA).
About PubCompare
Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.
We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.
However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.
Ready to get started?
Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required
Revolutionizing how scientists
search and build protocols!