Harvard:Biophysics 101/2007/Project: Difference between revisions
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Suggest clinical testing actions and lifestyle changes | Suggest clinical testing actions and lifestyle changes | ||
== | ==Identifying Common Genetic Motifs in Disease== | ||
We can write a script to interface all input genotypes with phentoypes for disease (note: we don't specifically have to look for motifs common to disease, but that seems pretty practical to me. Any phenotype will do, though). | |||
===Input Data=== | |||
Since this script would theoretically cross-reference genotype and phenotype, we would need: | |||
* Genotypic Inputs (presumably in the form of personalized genome sequences) | |||
* Phenotypic Inputs (presumably this would take the form of a medical history for the corresponding genome sequence) | |||
===Data Characterization and analysis=== | ===Data Characterization and analysis=== | ||
I think we could design an algorithm to go through and scan for varying numbers of motifs of varying lengths found in specific population subsets, but absent in others. Are there any significant patterns found in a diseased group of people? Significant motifs present in sick populations? Significant motifs absent? | |||
We will certainly have to perform quality-control, and perhaps we can model Cystic Fibrosis, color blindness, sickle cell (etc) to optimize our detection methods. | |||
===Action=== | ===Action=== | ||
How can we use these data to help people? Any identified motifs could certainly direct our research efforts, implicating new sites and players in the molecular mechanisms of disease. I'm a little confused by the recommendation on the project page of 'medical/dietary action'. Certainly we could use our data to inform someone of their risk for disease (note, this information could also be abused. Perhaps that would better inform their life-style choices? Prevention is an ideal solution to disease, but, for the inevitable genetic ones, we direct research towards therapy and subversion of the identified molecular mechanisms. | |||
==Application3== | ==Application3== | ||
Revision as of 12:15, 26 February 2007
Project Ideas
Project ideas that came up in the class February 22 are posted [here]
Application1 - ApoE
Alzheimers desease
Input Data
ApoE sequences
Data Characterization and analysis
Identify variation and search OMIM for similar variation and relationship to desease
Action
Suggest clinical testing actions and lifestyle changes
Identifying Common Genetic Motifs in Disease
We can write a script to interface all input genotypes with phentoypes for disease (note: we don't specifically have to look for motifs common to disease, but that seems pretty practical to me. Any phenotype will do, though).
Input Data
Since this script would theoretically cross-reference genotype and phenotype, we would need:
- Genotypic Inputs (presumably in the form of personalized genome sequences)
- Phenotypic Inputs (presumably this would take the form of a medical history for the corresponding genome sequence)
Data Characterization and analysis
I think we could design an algorithm to go through and scan for varying numbers of motifs of varying lengths found in specific population subsets, but absent in others. Are there any significant patterns found in a diseased group of people? Significant motifs present in sick populations? Significant motifs absent?
We will certainly have to perform quality-control, and perhaps we can model Cystic Fibrosis, color blindness, sickle cell (etc) to optimize our detection methods.
Action
How can we use these data to help people? Any identified motifs could certainly direct our research efforts, implicating new sites and players in the molecular mechanisms of disease. I'm a little confused by the recommendation on the project page of 'medical/dietary action'. Certainly we could use our data to inform someone of their risk for disease (note, this information could also be abused. Perhaps that would better inform their life-style choices? Prevention is an ideal solution to disease, but, for the inevitable genetic ones, we direct research towards therapy and subversion of the identified molecular mechanisms.
