Table 1 2018 EANBiT-RT program
From: Designing and delivering bioinformatics project-based learning in East Africa
Date | Course |
|---|---|
11–15 June 2018 (Week 01) | *Introduction lectures on bioinformatics *Introduction lectures on molecular biology *Introduction Lectures on Computing for Biology *Presentation of the recent history (since Sanger Sequencing) of sequencing technologies |
18 July–06 July 2018 (Week 02–04) | *Basic experimental design, biostatistics, manipulation of tabular data in R, and basic visualization (Scatter plots, box plots, regression lines) *Sequence alignments, BLAST tools, motifs, homology modeling (HMMs), profile databases (Pfam, Prosite, etc.) *Introduction to NGS data (Illumina short reads technology), their vocabulary (coverage, clusters, reads, etc.), and their different uses: RNAseq, whole genome assembly, amplicon sequencing *Whole genome assembly (de novo and reference-based) *Genome annotation * Barcodes, markers, and 16S rRNA analysis, Metagenomics/Microbiomes *Molecular evolution and phylogenetics, selection pressure (dN/dS analyses) *Population structure, Population genetics *Polymorphisms, variant calls, and genome-wide analysis studies (GWAS) *Genomic selection, marker-assisted selection *Transcriptomics *Protein structure, folding *Advanced UNIX command line (Bash scripting, sed, awk, etc.) *Advanced Python *Detailed analysis of Oxford Nanopore data sets |
09–13 July 2018 (Week 05) | *Scientific writing (papers and proposals) Scientific communication (to an audience of non-specialists) *Grant writing *Project management (Gantt charts, monitoring, evaluation, etc.) *Pedagogy *Academic integrity, authorship, collaboration management (MoU), supervision, leadership skills, and conflict resolution * Research ethics (responsible conduct, research on human subjects, etc.) *Literature management (references, online journal databases) and paper critique *Open Science, Issues of Reproducibility, Open Source Data, and Publications |