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Biosample Laboratory Services

Bioinformatics and Analytical Services

Bioinformatics and Analytical Services

RUCDR offers a broad range of bioinformatics services for the analysis and visualization of genomic data. Sophisticated software packages accept output files from microarray and next-generation sequencing platforms and enable rapid quality assessment and primary analysis of raw data. Downstream analyses produce richly annotated reports for in depth interpretation of complex genomics datasets.

Comprehensive Genotyping and DNA Copy Number Analyses

  • The Affymetrix Genotyping Console Software enables rapid primary analysis and quality checking of genotyping data generated by the Affymetrix GeneChip and GeneTitan platforms. This software integrates single nucleotide polymorphism (SNP), copy number polymorphism (CNP) and loss of heterozygosity (LOH) analyses into one application. When used in conjunction with the Annotation Converter module, genotype call data can be readily exported in a format that is suitable for downstream genetic linkage and association analyses.
  • The Illumina GenomeStudio Software is used to visualize and analyze microarray data generated by the Illumina iScan platform. The software package is comprised of three distinct modules for analysis of gene expression, genotyping and epigenetic profiling data. Data generated by GenomeStudio can be easily exported to a number of downstream software tools for secondary and tertiary analysis.

Gene Expression Analysis

  • The Affymetrix Expression Console Software supports probe set summarization for expression arrays, whole-transcriptome arrays and miRNA arrays run on the Affymetrix GeneChip and GeneTitan platforms. Data quality control is aided by a variety of visualization and graphing tools. Processed data is exported for seamless integration with secondary analysis packages for the statistical filtering and analysis of expression results.

NextGen Sequencing Analysis

  • Geospiza GeneSifter Analysis Edition (GSAE) is an analysis and visualization software platform for microarray and Next Generation Sequencing data. GSAE offers a state-of-the-art cloud computing environment that is highly scalable and flexible, providing users with the resources for computationally-intensive informatics applications. Intuitive pipelines transform raw microarray, RNA-seq, ChIP-seq and exome-seq data into biologically meaningful results.

Epigenetic Analyses

  • Geospiza GeneSifter Analysis Edition (GSAE) is an analysis and visualization software platform for microarray and Next Generation Sequencing data. GSAE offers a state of the art cloud computing environment that is highly scalable and flexible, providing users with the resources for computationally-intensive informatics applications. Intuitive pipelines transform raw microarray, RNA-seq, ChIP-seq and exome-seq data into biologically meaningful results.
  • The Illumina GenomeStudio Software is used to visualize and analyze microarray data generated by the Illumina iScan platform. The software package is comprised of three distinct modules for analysis of gene expression, genotyping and epigenetic profiling data. Data generated by GenomeStudio can be easily exported to a number of downstream software tools for secondary and tertiary analysis.
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145 Bevier Road Piscataway NJ 08854-8009
p 732 445 1498 f 732 445 1149 www.rucdr.org