IGEM:Stanford/2010/Notebook/mRNA sRNA: Difference between revisions
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'''One Idea to measure [B] / [A]''' (assume [A] ≠ 0) | '''One Idea to measure [B] / [A]''' (assume [A] ≠ 0) | ||
input A induces expression of GFP mRNA | *input A induces expression of GFP mRNA | ||
input B induces expression of GFP sRNA (sRNA that targets the GFP mRNA transcript) | *input B induces expression of GFP sRNA (sRNA that targets the GFP mRNA transcript) | ||
so for a given [A], | *so for a given [A], | ||
**if [B] = 0, we should see glowing bacteria | |||
if [B] = 0, we should see glowing bacteria | **if 0 < [B] < [A], we should see some glow | ||
**if [B] > [A], we should see no glow | |||
if 0 < [B] < [A], we should see some glow | |||
if [B] > [A], we should see no glow | |||
'''Another Idea to measure [B] / [A]''' (assume [A] ≠ 0) | '''Another Idea to measure [B] / [A]''' (assume [A] ≠ 0) | ||
input A induces expression of GFP mRNA and YFP sRNA | *input A induces expression of GFP mRNA and YFP sRNA | ||
input B induces expression of YFP mRNA and GFP sRNA | *input B induces expression of YFP mRNA and GFP sRNA | ||
so for a given [A], | *so for a given [A], | ||
**if [B] = 0, we should see GREEN glowing bacteria | |||
if [B] = 0, we should see GREEN glowing bacteria | **if 0 < [B] < [A], we should see some glow that is more GREEN than YELLOW. | ||
**if [B] > [A], we should see some glow that is more YELLOW than GREEN. | |||
if 0 < [B] < [A], we should see some glow that is more GREEN than YELLOW. | |||
if [B] > [A], we should see some glow that is more YELLOW than GREEN. | |||
==References== | ==References== | ||
| Line 34: | Line 28: | ||
**catalytic (ribozymes) | **catalytic (ribozymes) | ||
*engineered riboregulators (possible mechanism for us) | *engineered riboregulators (possible mechanism for us) [http://www.nature.com/nbt/journal/v22/n7/pdf/nbt986.pdf Engineered riboregulators enable post-transcriptional control of gene expression] | ||
**Note: apparently does not work well in practice | |||
*engineering those aforementioned sRNA's: | |||
**vague article [http://www.nature.com/nmeth/journal/v4/n12/full/nmeth1207-986b.html Engineers meet small RNA] | |||
**some specifics [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1994261/pdf/pbio.0050229.pdf Quantitative Characteristics of Gene Regulation by Small RNA] | |||
Latest revision as of 19:53, 20 June 2010
General Ideas
One Idea to measure [B] / [A] (assume [A] ≠ 0)
- input A induces expression of GFP mRNA
- input B induces expression of GFP sRNA (sRNA that targets the GFP mRNA transcript)
- so for a given [A],
- if [B] = 0, we should see glowing bacteria
- if 0 < [B] < [A], we should see some glow
- if [B] > [A], we should see no glow
Another Idea to measure [B] / [A] (assume [A] ≠ 0)
- input A induces expression of GFP mRNA and YFP sRNA
- input B induces expression of YFP mRNA and GFP sRNA
- so for a given [A],
- if [B] = 0, we should see GREEN glowing bacteria
- if 0 < [B] < [A], we should see some glow that is more GREEN than YELLOW.
- if [B] > [A], we should see some glow that is more YELLOW than GREEN.
References
- here's a good reference: Engineering RNA-based circuits. It discusses different methods of regulation by RNA:
- via base-pairing (small RNA)
- shape-based (riboswitches)
- catalytic (ribozymes)
- engineered riboregulators (possible mechanism for us) Engineered riboregulators enable post-transcriptional control of gene expression
- Note: apparently does not work well in practice
- engineering those aforementioned sRNA's:
- vague article Engineers meet small RNA
- some specifics Quantitative Characteristics of Gene Regulation by Small RNA
