Bioinformatics

A foundational quiz on NCBI, EBI, and Uniprot, as well as common formats like FASTA, FASTQ, SAM/BAM, and VCF.

Covers PDB files, secondary structure prediction, homology modeling, and protein-ligand docking basics.

Explore the logic of De Bruijn graphs, read mapping, variant calling, and the differences between Illumina and Nanopore data.

Master the workflow of RNA-Seq: from normalization (TPM, FPKM) to differential gene expression analysis.

Test your knowledge on Hidden Markov Models (HMMs), Support Vector Machines (SVMs), and Neural Networks in genomics.

Focuses on Protein-Protein Interaction (PPI) networks, metabolic pathways, and network topology (degree, centrality).

Test your basic knowledge of pairwise alignment, dot plots, and the difference between global and local alignment.

A deep dive into the mathematical algorithms behind optimal sequence alignment, scoring matrices, and gap penalties.

How do we search massive databases? Covers k-tuples, E-values, bit scores, and the different flavors of BLAST.

Test your understanding of tree construction methods like UPGMA, Neighbor-Joining, Maximum Likelihood, and Bayesian inference.

The principles behind BLAST and sequence homology.

Methods like UPGMA and Neighbor-Joining.

Concepts of genome assembly and RNA-Seq analysis.

Understanding NCBI, GenBank, and PDB.

What is bioinformatics and what is it used for?