Difference between revisions of "Team:ColumbiaNYC/Brainstorm"

 
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       <h1>Brainstorming</h1>
 
       <h1>Brainstorming</h1>
       <p>Lorem ipsum dolor sit amet, consectetur adipisicing elit. Sint, explicabo dolores ipsam aliquam inventore corrupti.</p>
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       <h3>Here are some other ideas we came up with this summer that future iGEM teams can incorporate into their own projects:</h3>
 
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               T-cell Targeted Nociceptive Sodium Channels
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               No Pain, but Sure Gain: T-cell Targeted Nociceptive Sodium Channels
 
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            Nav1.7 is a voltage-gated sodium channel expressed on nociceptive neurons, neurons responsible for transmitting pain signals from the PNS to the CNS.
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              Nav1.7 is a voltage-gated sodium channel expressed on nociceptive neurons, neurons responsible for transmitting pain signals
Nav1.7 is essential for normal pain sensation; if it is not expressed, the patient will not feel pain at all, and if it is overexpressed, the patient will experience chronic pain (20% of the population worldwide).
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              from the PNS to the CNS. Nav1.7 is essential for normal pain sensation; if it is not expressed, the patient will
Nav1.7 is therefore a prime therapeutic target whose blockage by an T-cell antibody would mitigate pain, with the T cell acting as a potential analgesic.
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              not feel pain at all, and if it is overexpressed, the patient will experience chronic pain (20% of the population
A circuit would be designed so that once the T cell binds to the epitope, a chimeric antigen receptor (CAR) could be engineered to be drug-switchable so that the T cells are controllable, which is not currently the case.
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              worldwide). Nav1.7 is therefore a prime therapeutic target whose blockage by an T-cell antibody would mitigate
This way, a physician could titrate cell activity and control timing with a drug, which is potentially safer.
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              pain, with the T cell acting as a potential analgesic. A circuit would be designed so that once the T cell binds
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              to the epitope, a chimeric antigen receptor (CAR) could be engineered to be drug-switchable so that the T cells
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              are controllable. This way, a physician could titrate cell activity and control timing with a drug, which is
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              potentially safer. An accessible drug that suppresses pain would not only be of much relevance to medicine, but
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              also in our daily lives.
 
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              Mechanosensitive or Extrinsic-activated  Coagulatory Cells
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                Cancer Diagnostics Using GPCR in Yeast
 
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            There are products (such as polymer based gels) that rapidly stops blood loss
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              Cancer is the second greatest cause of death in the United States. Nevertheless, many biomarkers have been found for various
However, they require physical application to the wound, meaning that they would not be able to stop internal bleeding and would not be practical to chronic or potentially-widespread bleeding such as hemophilia.
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              types of cancer, such as pancreatic, breast and prostate cancer. These biomarkers that are intrinsic to a particular
Our cells would receive either a physical or chemical signal in response to a blood vessel being broken changing the extracellular pressure or releasing tissue factors through the extrinsic coagulation pathway, respectively.
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              form of cancer can be applied to cancer diagnostics and detection, given a specific receptor and reporter. G
This would either induce a promoter, resulting in either a positive transcription loop or activation of an allosteric modulatory switch.
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              protein coupled receptors, along with yeast, can be used as a reliable method of cancer detection when enhanced
The circuit would output cofactor 10a (FXa), the catalyst for the coagulation pathway.
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              with directed evolution (to induce sensitivity to high concentrations of biomarker, but not low concentrations)
The system would be tested in cell culture and murine models. Tissue Factor is released by the ruptured walls
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              and expressed alongside GFP in the presence of a strong signal.
1 Factor 10a (Xa) molecule can catalyze the formation of 1000 thrombin molecules
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              Fluorescent Eukaryotic Cells for Optical Measurement
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                A Long-Awaited Remedy for Hemophilia: Probiotic Hemophilia Treatment
 
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            Many physiologists and neuroscientists use optical methods to measure cell behavior
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              Hemophilia A, the most common type of hemophilia, is caused by a missing or defective factor VIII clotting protein. Current
1)multiple portions of the sample could be monitored simultaneously, representing interactions between different cell species with different cellular functions
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              treatments are time-consuming, expensive, and unpleasant. Our idea is to create a probiotic that secretes coagulation
2)measurements can be made real-time  
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              factor VIII into the small intestine to be absorbed into the bloodstream. We would obtain cells with mutations
3)measurements can be relatively non-invasive.  
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              in the thioredoxin reductase gene (trxB) and glutathione reductase gene (gor) in order to make E.coli’s intracellular
Current methods involve extrinsic dyes or proteins that can cause photodynamic damage to the cells.
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              environment oxidizing. This is necessary for the oxidation of the disulfide bonds in the Factor VIII proteins,
Our pathway would receive a (neuro)chemical signal from a neighboring cell which would set off a signaling cascade that ultimately excites a fluorescent protein.
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              which along with the expression of a heterologous protein disulfide isomerase and a heterologous chaperone protein,
CRISPR?
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              enhances the yield and solubility of Factor VIII proteins. The proteins will be expressed in
The half life would have to be short and the circuit regulation cascading because both are fast and transient enough to allow for the next excitation by the next action potential.
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              <em>E.coli</em>, given the appropriate auxotrophic control sequences and gene casette. The production of the factor
https://www.wired.com/2014/07/neuron-zebrafish-movie/
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              VIII proteins will be tested via Western Blot, and the activity of the proteins will be observed with a APTT-based
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              one-stage assay. Finally, the solubility of the proteins was evaluated by verifying the presence of the proteins
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              in an aqueous fraction (after centrifugation).
 
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              Collagen-like protein production by engineered bacteria
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                  Ecoligen: Collagen-like protein production by engineered bacteria
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            Most collagen products used for biomaterials or biomedical devices are extracted from animal sources. However, application of animal collagen carries the risk of pathogen or prion contamination and the possibility of causing allergies. Other problems include the lack of standardization for animal collagen extraction processes and the inability to modify collagen sequences to achieve different biological purposes. Compared with collagens extracted from animal tissues, recombinant collagens are highly pure, disease free, consistent among batches, and amendable to sequence modifications and large scale production. Such recombinant collagen can be made by bacteria, allowing for the use of versatile and cheap collagen.
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                Most collagen products used for biomaterials or biomedical devices are extracted from animal sources. However, application
 
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                of animal collagen carries the risk of pathogen or prion contamination and the possibility of causing allergies.
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                Other problems include the lack of standardization for animal collagen extraction processes and the inability
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                to modify collagen sequences to achieve different biological purposes. Compared with collagens extracted from
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                animal tissues, recombinant collagens are highly pure, disease free, consistent among batches, and amendable
 +
                to sequence modifications and large scale production. Such recombinant collagen can be made by
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                <em>
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                E.coli</em>bacteria, allowing for the use of versatile and cheap collagen, especially in the fields of regenerative
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                medicine and tissue engineering.
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<h2> Here are some more ideas expanded upon in depth: </h2>
  
 
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Latest revision as of 05:24, 31 October 2017

Brainstorming

Here are some other ideas we came up with this summer that future iGEM teams can incorporate into their own projects:

Nav1.7 is a voltage-gated sodium channel expressed on nociceptive neurons, neurons responsible for transmitting pain signals from the PNS to the CNS. Nav1.7 is essential for normal pain sensation; if it is not expressed, the patient will not feel pain at all, and if it is overexpressed, the patient will experience chronic pain (20% of the population worldwide). Nav1.7 is therefore a prime therapeutic target whose blockage by an T-cell antibody would mitigate pain, with the T cell acting as a potential analgesic. A circuit would be designed so that once the T cell binds to the epitope, a chimeric antigen receptor (CAR) could be engineered to be drug-switchable so that the T cells are controllable. This way, a physician could titrate cell activity and control timing with a drug, which is potentially safer. An accessible drug that suppresses pain would not only be of much relevance to medicine, but also in our daily lives.
Cancer is the second greatest cause of death in the United States. Nevertheless, many biomarkers have been found for various types of cancer, such as pancreatic, breast and prostate cancer. These biomarkers that are intrinsic to a particular form of cancer can be applied to cancer diagnostics and detection, given a specific receptor and reporter. G protein coupled receptors, along with yeast, can be used as a reliable method of cancer detection when enhanced with directed evolution (to induce sensitivity to high concentrations of biomarker, but not low concentrations) and expressed alongside GFP in the presence of a strong signal.
Hemophilia A, the most common type of hemophilia, is caused by a missing or defective factor VIII clotting protein. Current treatments are time-consuming, expensive, and unpleasant. Our idea is to create a probiotic that secretes coagulation factor VIII into the small intestine to be absorbed into the bloodstream. We would obtain cells with mutations in the thioredoxin reductase gene (trxB) and glutathione reductase gene (gor) in order to make E.coli’s intracellular environment oxidizing. This is necessary for the oxidation of the disulfide bonds in the Factor VIII proteins, which along with the expression of a heterologous protein disulfide isomerase and a heterologous chaperone protein, enhances the yield and solubility of Factor VIII proteins. The proteins will be expressed in E.coli, given the appropriate auxotrophic control sequences and gene casette. The production of the factor VIII proteins will be tested via Western Blot, and the activity of the proteins will be observed with a APTT-based one-stage assay. Finally, the solubility of the proteins was evaluated by verifying the presence of the proteins in an aqueous fraction (after centrifugation).
Most collagen products used for biomaterials or biomedical devices are extracted from animal sources. However, application of animal collagen carries the risk of pathogen or prion contamination and the possibility of causing allergies. Other problems include the lack of standardization for animal collagen extraction processes and the inability to modify collagen sequences to achieve different biological purposes. Compared with collagens extracted from animal tissues, recombinant collagens are highly pure, disease free, consistent among batches, and amendable to sequence modifications and large scale production. Such recombinant collagen can be made by E.colibacteria, allowing for the use of versatile and cheap collagen, especially in the fields of regenerative medicine and tissue engineering.

Here are some more ideas expanded upon in depth: