This RNA-seq workshop will address critical issues related to Transcriptomics data, like:

Processing raw Next Generation Sequencing (NGS) data:

1. Next Generation Sequencing data preprocessing:

Trimming technical sequences
Removing PCR duplicates
2. RNA-seq based quantification of expression levels:

Conventional pipelines (looking at known transcripts)
Identification of novel isoforms
Analysis of Expression Data Using Machine Learning:

3. Unsupervised analysis of expression data:

Principal Component Analysis
Clustering
4. Supervised analysis:

Differential expression analysis
Classification, gene signature construction
5. Gene set enrichment analysis

The workshop will include hands-on exercises utilizing public domain datasets:

breast cancer cell lines transcriptomic profiles ([ Ссылка ]),
patient-derived xenograft (PDX) mouse model of tumor and stroma transcriptomic profiles ([ Ссылка ]), and
processed data from The Cancer Genome Atlas samples ([ Ссылка ]).
Team: The workshops are designed by the researchers at the Tauber Bioinformatics Research Center at University of Haifa, Israel in collaboration with academic centers across the US. Technical support for the workshops is provided by the Pine Biotech team.

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