Difficulty level: Beginner
and
Contributors: Björn Grüning or Marek Vrbacky or Dr. Simon Andrews or Emily Angiolini
The questions this addresses are:
- What are benefits and drawbacks of different quantitation methods?
- How to choose which quantitation method bests suits my need?
\nThe objectives are:
- Choose your quantitation method.
Scientific topics: Proteomics
Keywords: proteomics, DDA
Resource type: hands-on tutorial
The questions this addresses are:
- How to convert LC-MS/MS raw files?
- How to identify peptides?
- How to identify proteins?
- How to evaluate the results?
\nThe objectives are:
- Protein identification from LC-MS/MS raw files.
Scientific topics: Proteomics
Keywords: proteomics, DDA
Resource type: hands-on tutorial
The questions this addresses are:
- How to download protein FASTA databases of a certain organism?
- How to download a contaminant database?
- How to create a decoy database?
- How to combine databases?
\nThe objectives are:
- Creation of a protein FASTA database ready for use with...
Scientific topics: Proteomics
Keywords: proteomics, DDA
Resource type: hands-on tutorial
The questions this addresses are:
- Did the tryptic digestions work?
- Is there an intensity gradient in the data?
- How good is the m/z accuracy?
\nThe objectives are:
- How to upload an imzML file into Galaxy
- Getting an overview of the MSI data with the MSI quality control tool
- How...
Scientific topics: Proteomics
Keywords: proteomics, mouse, imaging
Resource type: hands-on tutorial
The questions this addresses are:
- Which coding exon has the highest number of single nucleotide polymorphisms (SNPs) on human chromosome 22?
\nThe objectives are:
- Familiarize yourself with the basics of Galaxy
- Learn how to obtain data from external sources
- Learn how to run tools
-...
Keywords: introduction
Resource type: hands-on tutorial
The questions this addresses are:
- How to use Galaxy?
- How to get from peak regions to a list of gene names?
\nThe objectives are:
- Familiarize yourself with the basics of Galaxy
- Learn how to obtain data from external sources
- Learn how to run tools
- Learn how histories work
-...
Keywords: introduction
Resource type: hands-on tutorial
Five PowerPoint presentations and an Excel worksheet for a Train the Trainer course developed by Chris Taylor while at the Earlham Institute working for the National Institutes of Science's Bioinformatics and Biomathematics Training hub. The five slide decks cover pedagogical theory, trainer...
Scientific topics: Bioinformatics, Computational biology
Keywords: training, pedagogy
