A repository for the lessons and tutorials for the Functional Annotation TOPIC channel of the BVCN
This BVCN topic will cover:
- how to predict opening reading frames for all three domains of life
- the methodologies used to assign functions to proteins
- the intricacies of the specific tools and databases that can used for varying levels of specificity
Date posted: 9 April 2020
Author(s): Dr. Benjamin Tully
Instructor(s): Dr. Benjamin Tully
- Tools for predicting open reading frames for Bacteria and Archaea
- Tools for predicting open reading frames for Eukaryotes
- Converting open reading frames to predicted proteins
Date posted: 9 April 2020
Author(s): Dr. Benjamin Tully
Instructor(s): Dr. Benjamin Tully
- Use Prodigal to predict microbial proteins
Content | Video presentation |
Primary tools/programs used:
Date posted: 18 April 2020
Author(s): Dr. Benjamin Tully
Instructor(s): Dr. Benjamin Tully
- Difference between homolog and ortholog?
- Tools for homology based functional annotation
Date posted: 9 April 2020
Author(s): Dr. Benjamin Tully
Instructor(s): Dr. Benjamin Tully
- Use BLAST+ and DIAMOND
- Interpret similarity based results
Content | Video presentation |
Primary tools/programs used:
Date posted: 1 May 2020
Author(s): Dr. Benjamin Tully, Dr. Adelaide Rhodes
Instructor(s): Dr. Benjamin Tully
- How do position-sensitive models work?
- How to use a position-sensitive model to interpret function
Date posted: 1 May 2020
Author(s): Dr. Benjamin Tully, Dr. Adelaide Rhodes
Instructor(s): Dr. Benjamin Tully
- Use HMMER
- Interpret HMM search results
Content | Video presentation |
Primary tools/programs used:
Date posted: 5 May 2020
Author(s): Arkadiy Garber
Instructor(s): Arkadiy Garber
- Describe the process for making HMM to detected iron-related proteins
- How FeGenie works
Date posted: 5 May 2020
Author(s): Arkadiy Garber
Instructor(s): Arkadiy Garber
- Demonstration of how FeGenie identifies iron-related proteins
Content | Video presentation |
Primary tools/programs used: