qPCR  & NGS Application Workshops

The qPCR workshops on 21st and 22nd March are hosted by TATAA Biocenter (www.TATAA.com) or Bio-Rad (www.Bio-Rad.com)
The NGS data analysis workshop on 21st and 22nd March is hosted by Genomatix (www.Genomatix.com).
The workshop laboratories and seminar rooms are very close to the central lecture hall.

2-day workshops will be held in parallel at 21st and 22nd March 2013

The workshops are aimed at giving participants a deep and objective understanding of real-time quantitative PCR, biostatistics, expression profiling, digital-PCR, and its applications. The courses are intended for academic or industrial persons considering working with qPCR or scientists currently working with qPCR seeking a deeper understanding. All qPCR workshops offer extensive hands-on training by qPCR experts.

Participating companies are asked to support the workshops with real-time PCR cyclers, qPCR kits, consumables, centrifuges, pipettes, etc. Please contact our workshop organisation team, headed by Sylvia Pfaffl, bioMCC, Germany, Eventmanagement@bioMCC.com

In the qPCR data analysis workshop  the data conversion, normalisation procedure, biostatistical calculations and the expression profiling will be done with the newest GenEx software by MultiD.
You can download a free trial version from our webpage => Genex.gene-quantification.info

logo MultiD

The courses cover all aspects in qPCR and is held during 2-days. Each course is app. 50% hands-on and is limited to app. 20 participants, resulting in very interactive teaching and everybody given the opportunity to try the instrumentation.
After the course participants will be able to plan and perform qPCR experiments themselves, as well as interpret and analyze data. Detailed course material and full catering (lunch, coffee, soft drinks and snacks) are included in the course fee.

Course dates                 21st and 22nd March 2013
Course starts at            9:00  =   9 am
Course ends around    17:00  =  5 pm

Please register for symposium and workshops using the Internet based ConfTool registration platform => http://registration.qPCR-NGS-2013.net

    qPCR workshop sponsors:
logo MultiD

Workshop short agendas

Basic real-time qPCR Application Workshop   (2-days)  
hosted by TATAA Biocenter             Seminar room – S3

Description: The basic real-time qPCR course. You will aquire a comprehensive overview of the possibilities with real-time PCR, how to use it and how to analyze the results. The course contains:

Day 1
  • Basic PCR and qPCR
  • Review of different detection technologies (SYBR Green I, hydrolysis probes, Molecular Beacons, etc)
  • Different instrument platforms
  • Applications and possibilities of qPCR.
  • Primer and probe design
  • Basic data handling and analysis
  • Experimental design and optimization
Day 2
  • Introduction to quantification principles
  • Quantification strategies, uses and limitations
  • Strategies for normalization of qPCR data
  • Calculations using different relative quantification methods
  • Absolute quantification
  • Validation of qPCR assays

Experimental design and statistical data analysis for qPCR   (2-days)   hosted by TATAA Biocenter          Computer seminar room – PU26

Description: Learn how appropriate statistics shall be selected and applied correctly to get the most out of your qPCR data. The course includes theoretical lectures combined with practical data analysis performed with qPCR analysis software. The course contains:

Day 1 - Statistical analysis of real-time PCR data
  • Basic principles of statistics
  • Advanced principles of statistics
  • Statistical tests
  • Ability to detect a difference
Day 2 - Gene expression profiling with real-time PCR
  • Multiplate measurements
  • Standard curves and absolute quantification
  • Experimental design, Selecting reference genes
  • Relative quantification, Comparison of groups
  • Expression profiling
In the qPCR data analysis workshop  the data conversion, normalisation procedure, biostatistical calculations and the expression profiling will be done with the newest GenEx software by MultiD.
You can download a free trial version from our webpage => Genex.gene-quantification.info

MIQE: Quality control of qPCR in Molecular diagnostics   (2-days)   hosted by TATAA Biocenter                 Seminar room – S2

This course will go deep into the MIQE guidelines, describe the important steps in qPCR and how you should work to fulfill the guidelines. The course will also focus on how you do proper quality control of your qPCR assays to be used in molecular diagnostics. It will describe which controls that are needed and the statistics on how to do the evaluations.

The course contains:
  • Introduction to the MIQE guidelines
  • Nucleic acid extraction and quality control
  • Reverse transcription
  • Primer design
  • qPCR protocol and validation, LOD, LOQ
  • Principles of statistics
  • Normalization
  • Relative quantification
  • Absolute quantification
  • Variance contribution, experimental design
  • Precision testing

digital PCR  (2-days)   hosted by Bio-Rad                    Seminar room – S1

Description: Learn how to plan, perform, and analyze digital PCR experiments and how digital PCR can help your research to overcome the limitations of real-time qPCR.

Day 1
  • Welcome and introductions
  • Introduction to Digital PCR
  • Droplet generation and PCR start for CNV experiment
  • ddPCR applications: CNV
  • Start DR for CNV experiment
  • Droplet generation and PCR start for RED and ABS experiments
  • ddPCR Applications: RED and ABS
  • CNV results analysis
  • Start DR for RED/ABS experiment
  • Review of the day
Day 2
  • ddPCR: basic statistics
  • RED/ABS results analysis
  • Other ddPCR Applications: gene expression and NGS
  • When qPCR and when ddPCR? Moving from qPCR to ddPCR
  • Open Q&A session
  • Review of the workshop

NGS data analysis workshop (2-days)   hosted by Genomatix                 Computer seminar room – PU26A - GIS room

Description: The large amounts of data derived from next generation sequencing projects makes efficient data mining strategies necessary. In the course you will learn strategies for the analysis of different kinds of next generation sequencing data. The workshop is based on real world examples and will use the Genomatix software, which provides a graphical user interface; no programming, scripting, or command line tool knowledge is necessary to attend.

Day 1

General introduction to the Genomatix system
  • SNP analysis:
    • GMS demo:         mapping of DNA data and SNP detection
    • GGA hands-on:   SNP effects analysis characterization of regulatory SNPs
  • CNV analysis:
    • GGA hands-on:  pairwise CNV analysis
  • Methylation analysis:
    • GMS demo:         bisulfite mapping and methylation analysis
    • GGA hands-on:   visualization of methylation data
Day 2
  • miRNA analysis:
    • GMS demo:         mapping to smallRNA library
    • GGA hands-on:   differential miRNA expression
  • RNA analysis:
    • GMS demo:         spliced mapping to genome mapping to transcriptome
    • GGA hands-on:   differential expression analysis
    • biological classification and pathway analysis of differentially expressed genes
    • assessment and visualization of alternative exon/transcript usage
  • ChIP-Seq analysis:
    • GGA hands-on:   peak detection and classification
    • TF binding site analysis in ChIP peaks
    • de novo definition of common sequence motifs in ChIP data
    • next-neighbor analysis and regulatory target prediction for ChIP regions
    • correlation of several data sets     

Any questions =>  Contact our scientific organisation team, headed by Michael W. Pfaffl  qPCR-NGS-2013@wzw.tum.de
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