Difference between revisions of "CSB prerequisites"
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* Solid knowledge of the properties of the {{WP|Amino acid|'''proteinogenic amino acids'''}}, their names and one-letter code; | * Solid knowledge of the properties of the {{WP|Amino acid|'''proteinogenic amino acids'''}}, their names and one-letter code; | ||
* Understanding of the nature of sequence and structural data and the common formats ({{WP|FASTA_format|'''FASTA'''}}, [http://www.wwpdb.org/docs.html '''PDB''']) in which such data is stored; | * Understanding of the nature of sequence and structural data and the common formats ({{WP|FASTA_format|'''FASTA'''}}, [http://www.wwpdb.org/docs.html '''PDB''']) in which such data is stored; | ||
| − | * Familiarity with the molecular visualization program ''' | + | * Familiarity with the molecular visualization program '''UCSF Chimera'''; |
* Ability to view molecular structures in [[Stereo Vision|'''(wall-eyed) stereo''']]; | * Ability to view molecular structures in [[Stereo Vision|'''(wall-eyed) stereo''']]; | ||
* Familiarity with [http://www.ncbi.nlm.nih.gov '''NCBI'''], [http://www.ebi.ac.uk '''EBI'''] and [http://www.pdb.org/ '''PDB'''] databases and services; | * Familiarity with [http://www.ncbi.nlm.nih.gov '''NCBI'''], [http://www.ebi.ac.uk '''EBI'''] and [http://www.pdb.org/ '''PDB'''] databases and services; | ||
Latest revision as of 20:44, 19 January 2016
Prerequisites
Course prerequisites for BCB420/JTB2020.
For both BCB420 and JTB2020, you must have previously taken an introductory bioinformatics course, or otherwise acquired the necessary knowledge. I approximately expect familiarity with the material I cover in my BCH441 course. If you have not taken BCH441, please check the requirements below and update your knowledge and skills in time. I will not make accommodations for lack of prerequisites. Please check the syllabus for this course to find whether you need to catch up on additional material, and peruse the links below to find the information you may need.
- Solid knowledge of the properties of the proteinogenic amino acids, their names and one-letter code;
- Understanding of the nature of sequence and structural data and the common formats (FASTA, PDB) in which such data is stored;
- Familiarity with the molecular visualization program UCSF Chimera;
- Ability to view molecular structures in (wall-eyed) stereo;
- Familiarity with NCBI, EBI and PDB databases and services;
- Use of the EMBOSS suite of sequence analysis tools;
- Familiarity with the computation of multiple sequence alignments and the Jalview alignment editor;
- Computation and analysis of phylogenetic trees;
- Concepts of protein structure prediction; homology modeling;
- An introduction to statistics with R.
