User Group Meeting 2017

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Highlight and Interviews

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Interviews

Jon Hill, Computational Biologist, Boehringer Ingelheim

Hong Liu, Computational Biologist, Takeda

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Presentations from QIAGEN

RNA-Seq analysis in ArrayStudio and biological interpretation in IPA

Understanding Innate Anti-PD-1 Resistance Therapy in Melanoma Through Transcriptomics Integrative Transcriptome Analysis Using ArraySuite (AS) and Ingenuity Pathway Analysis (IPA)

RNA-Seq profiling and analysis of pre-treatment melanomas in Array Studio.[00:00]

  • Manage sample data
  • QC and align
  • Quantify and visualize expression
  • Find differentially-expressed genes/transcripts (anti-PD1 non-responders vs. responders)
  • Send the data to IPA

Biological Interpretation of the transcriptome in Ingenuity Pathway Analysis (IPA) [31:29]

  • Analyze expression signatures to pinpoint significant pathways associated with advanced melanoma
  • Identify differentially expressed splice variants and their association to advanced melanoma
  • Generate novel regulatory networks as hypotheses suggesting drivers of anti-PD1 resistance in advanced melanoma.

Session Leader: Dr. Joseph Pearson, Head of customer Support, QIAGEN Bioinformatics Session Leader: Dr. Jean-Noel Billaud, Senior Principal Scientist, QIAGEN Bioinformatics



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Ingenuity Pathway Analysis (IPA)-OmicSoft integration

Secondary analysis in Array Studio (training session) of RNA-seq data

  • Find differentially-expressed genes/transcripts
  • Send the data to IPA

Biological interpretation of the whole transcriptome

  • Analyze non-responder versus responder gene expression signatures to pinpoint significant genes and pathways associated with advanced melanoma
  • Identify significantly differentially expressed isoforms and their association to advanced melanoma (IsoProfiler-GTEx)
  • Generate novel regulatory networks as hypotheses suggesting drivers of the expression changes observed in the innate anti-PD1 resistance treatment in advanced melanoma.
  • Compare this analysis across a repository of processed datasets from OmicSoft Lands (Analysis Match)
  • Visualize a specific gene of interest in OncoLand

Session Leader: Dr. Jean-Noel Billaud, Senior Principal Scientist, QIAGEN Bioinformatics

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Single Cell RNA-Seq Analysis in OmicSoft

Introduction to Single Cell RNA-Seq analysis in OmicSoft

  • Single Cell RNA-Seq introduction [00:00]
  • OmicSoft Single Cell pipeline [05:51]
  • Demo with case study [17:32]

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Presentations from our Clients

AbbVie Omics Hub

Paul M. Jung from AbbVie gave a nice presentation during out UGM 2017, giving a great example to show how our clients can integrate OmicSoft products for data analysis, metadata management, omic data/project sharing, cloud integration, etc.

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Related Articles

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