Gene Expression Microarrays

The study of gene expression profiling of cells and tissue has become a major tool for discovery in medicine. Microarray experiments allow description of genome-wide expression changes in health and disease. Moreover, an unbiased and systematic study of gene expression profiling allows the establishment of a new taxonomy of disease for syndromes in which biological processes and disorders could be characterized using molecular tools and fingerprinting. The design, analysis, and interpretation of microarray experiments require specialized knowledge for experimental design, data preprocessing, gene selection methods and statistical analysis.

Services Offered

Jaivik Data provides extensive support for microarray gene expression analysis. At Jaivik Data, raw data and images from any microarray platform on receipt undergo extensive quality control using our in-house pipeline, followed by raw data processing, differential gene expression analysis and biological interpretation. Standard report deliverables provided by Jaivik Data include data quality control, background correction and normalization of raw data, data transformation, , differential gene expression analysis including pie charts and clusters, exploratory data analysis (box plot, scatter plot, heatmap, MA plot, volcano plot), gene set enrichment analysis for differentially expressed genes, function and pathway analysis for statistically significant genes, and documentation of statistical methods used for analysis for publication.

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DNA Methylation Microarrays

DNA Methylation is a type of chemical modification of DNA that can be inherited and subsequently removed without changing the original DNA sequence. It is manifested in a number of important biological processes and human diseases including cancer. A multitude of methods have been devised over the last 20 years for DNA methylation analysis, but recently, improved technologies for genome-wide DNA methylation analysis, using microarray or second-generation sequencing-based approaches, allow epigenome-wide association studies to be performed for many complex diseases.

Services Offered

Jaivik Data provides data analysis services for genome-wide DNA methylation of CpG sites using latest statistical techniques. Our services include differential methylation of control and disease samples, functional annotation, adjustment of confounding factors on DNA methylation, principal component analysis, hierarchical clustering, gene-set enrichment analysis, and many more. We have developed an improved pipeline for simultaneous analysis of hundreds of samples on multicore linux platform. The current pipeline employs initial preprocessing of raw data which performs probe filtering, signal correction and data normalization and transformation. This ensures that the data for further analysis is completely reliable.

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