Illumina® Infinium
HumanMethylation450 BeadChip
Methylation Workflow
for Illumina BeadChip
Partek has developed the only third-party analysis
workflow for the Illumina® Infinium® HumanMethylation450
BeadChip used in epigenomic research. Access the
workflow through Partek® Genomics Suite™ software
where you can perform analysis in a single, user-friendly
application. Start by importing native .idat files directly
into Partek Genomics Suite and applying innovative
techniques for signal processing, background correction,
and normalization. Follow with secondary analysis using
powerful embedded statistics and visualizations to yield
deep biological interpretation. Going from raw data to
biological interpretation has never been easier.
Exploratory analysis using Principal Component Analysis
(PCA) for detection of sample grouping and outliers.
• Import raw .idat files and perform background correction
• Filter probes by chromosome, single-nucleotide
polymorphism (SNP), copy number variant (CNV) regions,
multiple mapping, and detection p-values
• Normalize data with Illumina normalization
and SWAN methods
• Perform exploratory analysis with principal component
analysis (PCA), clustering, partial least squares (PLS), and
multidimensional scaling (MDS)
• Apply inferential statistics of methylated loci at the
individual level and across experimental conditions
to compare islands
Hierarchical clustering analysis of significant differentially
methylated genomic regions.
• Visualize with hierarchical clustering, 2D/3D
dot-plots, profile trellis, chromosome view, and more
• Integrate with other data-types, such as mRNA/miRNA
expression, SNP/CNV, and ChIP
• Interpret biological meaning with pathway and gene
ontology analysis
Partek is a registered trademark of Partek Incorporated.
copyright of Kanehisa Laboratories. Under license from Pathway Solutions Inc.
Copyright © 2015 Partek Incorporated. St. Louis, MO.
Pathway analysis of genes, which had been found to be
targeted by differential methylation using Partek® Pathway™.
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Europe: +44 (0) 2075 588491
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[email protected] | www.partek.com
Partek® Genomics Suite® Workflows for Illumina® Data
Partek Genomics Suite has workflows for the following Illumina assays to provide you one platform for all your
genomic data analysis needs.
RNA Sequencing
Next Generation Sequencing*
Differential Gene Expression •
Small RNA-Seq
•
Alternative Splicing
•
Fusion Transcripts
•
Coding SNPs/eQTL
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DNA Sequencing
Candidate Genes
•
Whole Genome
•
Exome
•
Gene Regulation
Copy Number
•
DNA Methylation
•
ChIP-Seq
•
ncRNA
Gene Expression
•
Microarray
Micro RNA
Association/Trio
Allele Specific Copy Number
LOH
Copy Number
DNA Methylation
*Partek Genomics Suite accepts any aligned NGS data in BAM/SAM formats. When alignment is performed with Partek® Flow® software the results are
seamlessly imported into Partek Genomics Suite.
Partek is a registered trademark of Partek Incorporated. All other brands or product names mentioned are trademarks owned by their respective companies or organizations.
Copyright © 2015 Partek Incorporated. St. Louis, MO.
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