Category:CACAO: Difference between revisions
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==='''The Setup'''=== | ==='''The Setup'''=== | ||
* we will be running 5 rounds and instructors can choose any or all rounds of the open competition to participate in. Additionally, instructors can choose to run their own round with support from us. | * we will be running 5 rounds and instructors can choose any or all rounds of the open competition to participate in. Additionally, instructors can choose to run their own round with support from us. | ||
==='''Advanced Biocuration Course for Undergraduates'''=== | ==='''Advanced Biocuration Course for Undergraduates'''=== | ||
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* syllabus for CACAO | * syllabus for CACAO | ||
* syllabus for Advanced Biocuration | * syllabus for Advanced Biocuration | ||
==CACAO Spring 2011== | ==CACAO Spring 2011== | ||
Revision as of 16:54, 28 June 2011
The Community Assessment of Community Annotation with Ontologies (CACAO) is a competition for teams of undergrads around the world to improve the functional annotation of genes.
The rapid advances in genomics technology mean that we are discovering genes faster than we can figure out what they do. For most new sequences, gene function will be inferred by comparison with well-studied model systems such as E. coli. This means that the quality of functional annotation for these models is very important for the future of biology.
We ran a pilot competition in the Spring of 2010 with 20 volunteer undergraduates from Texas A&M University. The competition was then set up as a multi-national competition in the Fall of 2010 with the addition of teams from University College London. We completed a new competition in Spring 2011 with teams from TAMU, UNT, Miami Univ (Ohio), Penn State & Michigan State using GONUTS. If you are interested in participating, please email us at ecoliwiki@gmail.com.
This image to the right illustrates the general logic behind the CACAO activity.
Over-reaching Learning Objective
The over-reaching learning objective is to help students understand:
- Where does our knowledge come from?
- How did the authors of textbooks or review papers know that certain gene products (proteins or RNAs) did the specific things they describe?
- What techniques did scientists use to characterize them?
CACAO Course Learning Objectives
- To critically analyze scientific papers and identify evidence for functional annotations.
- seek information from online resources and add annotations to GONUTS.
- formulate annotations using GO terminology while working effectively in a group.
- evaluate peer-contributed annotations, construct challenges and prepare appropriate defenses.
CACAO Fall 2011
Multi-Institutional Competition
- we are looking forward to another semester of heated biocuration competition
- if you are interested in more information or joining, please email Brenley or Jim.
The Setup
- we will be running 5 rounds and instructors can choose any or all rounds of the open competition to participate in. Additionally, instructors can choose to run their own round with support from us.
Advanced Biocuration Course for Undergraduates
- this fall, we are adding to our courses with an advanced biocuration course at TAMU. The course requires previous enrollment/volunteering in CACAO and is meant to train undergraduates to become judges and assessors of the annotations contributed by students participating in CACAO. We feel this is the next step in the evolution of CACAO and offers students further advancement and training in functional annotation.
Course Materials
- syllabus for CACAO
- syllabus for Advanced Biocuration
CACAO Spring 2011
Multi-Institutional Competition
- Spring 2011 - teams from Texas A&M, UNT, Miami Univ (Ohio), Penn State & Michigan State
- TAMU, UNT & MU teams participated in all 5 rounds this semester
- Penn State teams participated in an internal competition before joining the World Series (The fifth & final round)
- all 5 universities participated in the World Series round with more than 100 students
Scoreboards
- We operated this semester's competition on GONUTS and gave students the opportunity to annotate literature on any protein that has a UniProt record
- E. coli was the most commonly annotated species, though
- World Series Scoreboard
- Penn State Internal Competition Scoreboard
- Spring 2011 rounds 1-4 Scoreboard
CACAO for Fall 2010
Course Design & Syllabus
- Below is the syllabus for the CACAO competition at Texas A&M University for Fall 2010. Students are taking this class for 1 hour of directed studies credit or are volunteering for no credit.
Scoreboard
Multi-Institutional & Multi-National Competition
- Fall 2010 - 6 teams from Texas A&M and 2 teams from University College London
- All teams participated in 4 rounds over the course of the semester
Annotations on GONUTS
- We operated the Fall 2010 competition on GONUTS and gave students the opportunity to annotate literature on any protein that has a UniProt record
Course Materials Available for Download
Links and Other resources
Pages in category "CACAO"
The following 2 pages are in this category, out of 2 total.