Asuragen Informatics Services
Asuragen offers the support you need from consultation to extensive data analysis
using the most up-to-date methods. Utilize our expertise in combination with our
Gene Expression Profiling
Service, miRNA Profiling
Service, Genotyping Service
or from your own microarray experiments.
Asuragen prides itself on accuracy of analysis, but goes further to ensure you can
rapidly extract meaningful results and determine a course of action. Our proprietary
miRInform™
data packaging system is a prime example of a highly interactive and user-friendly
environment for interpreting results.
Asuragen participated in the pivotal
MAQC-I FDA initiative to standardize gene expression profiling data analysis,
as well as the MAQC-II
initiative to set standards for biomarker discovery and validation.
Services Available
- Value-oriented, preconfigured data analysis pipelines
- Custom data analyses
- For gene expression profiling services
- For genotyping
services
As part of our
Agilent aCGH service, you will receive:
- Raw Data Files
- Extracted Quantitative Data Files from Agilent’s Feature Extraction
software
- Analysis Report Tables
- Normalization only
- DNA Analytics Reports
- Consultation and analysis with statisticians, computational biologists,
or bioinformaticians
- Access to industry-leading software tools for pathway analysis
and biomarker discovery
- Customized data processing pipelines for repetitive analyses
- Custom primer and probe designs for qPCR and qRT-PCR assays
- Access to informatics staff for on-going support
Standard Service Premium - SSP
In addition to Standard data packaging of raw data, Asuragen offers a pipelined
analysis and packaging service for support of one-way statistical comparisons from
the Affymetrix or Illumina gene expression platforms. For statistical analysis and
graphical representation of your entire experiment, our SSP data analysis package
offers additional analysis and these deliverables:
- Data normalization
- Hypothesis testing by one-way ANOVA of the summarized array data,
providing p-value and fold-change information relevant to your experimental groups
- Publication-quality figures and images, including:
- Hierarchical clustering
- Pair-wise volcano plot(s)
- Box Plot(s)
- Principal components analysis (PCA) plot(s)
These are provided in electronic form on the data delivery DVD in addition to the
standard deliverables provided with every gene expression profiling project. With
all SSP projects we will call you upon shipment of your data to arrange a one-hour
web-based informatics review of your data.
Custom Designed Experimental and Analysis Plans
All good studies begin with a sound experimental design.
Consultation with Asuragen’s bioinformatics team can provide you with a
custom experimental design prior to doing the biological study and/or an analysis
plan based on your experimental questions. This analysis plan will comprise the
best statistical methodologies to address your biological question. Replication
is crucial to microarray studies as it is with any biological experiment because
there is inherent noise in the data, even after systematic sources of variation
are removed. It is difficult to yield meaningful and accurate statistical analysis
results without replication. For most basic studies we recommend at least three
biological replicates. More complex designs may require more replicates. Contact us to discuss the statistical implications
of your experimental design.
Staff Qualification
When a new team member joins the informatics team, they are provided hands-on training
with Asuragen-provided test materials. After their training period, data from a
qualification set of samples is evaluated on each operator before they are considered
“qualified” and allowed to analyze client data sets.
Additional Services Available
Sample prep:
Cell lines
– eukaryotic and prokaryotic
Blood/biofluids
Frozen/RNAlater/RNAretain
tissues
Fixed (FFPE) tissues
mRNA Analysis:
miRNA Analysis:
DNA Analysis:
Requirements for Informatics Services
Sample Input Requirements for the services listed above are found in the Sample Submission Form and Shipping Instructions.