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• 20.109(F12):Lab tour
  ... these stations - all are fair game, as is the lab safety material covered in today's pre-lab lecture.'''</font color> ...ence ones. If time permits, you will read the absorbance of your dilutions in the spectrophotometer so transfer the volumes to cuvettes and do not throw
  27 KB (4,585 words) - 13:41, 29 July 2015
• 20.109(F12): Mod 3 Day 2 Phage nanowires
  ... how the p8 proteins allow the SWNTs to associate in parallel to the phage in the photo), but the viruses also position parts of the SWNTs to the surroun Today in lab you will react your SWNT:phage with titanium isopropoxide, harvest a sm
  10 KB (1,590 words) - 13:41, 29 July 2015
• 20.109(F12): M1 ppt summary and notes
  *This assignment is due by 11AM. *This assignment can be '''no more than 12 slides total.'''
  6 KB (922 words) - 13:41, 29 July 2015
• 20.109(F12): FACS data analysis and defense
  *The slides for this assignment are due by 11AM. *The oral defense for this assignment will take place during lab on M2D1, either 10.11.12 or 10.12.12.
  3 KB (584 words) - 13:41, 29 July 2015
• 20.109(F12): Online cloning lab and defense
  ... need, rather than have them done for you by the teaching faculty...and so in that sense this is a more "real" view to the work you'll do when you leave Sign in (upper right, blue button), then "Launch Your Labs" (center of screen, blue
  4 KB (767 words) - 13:41, 29 July 2015
• 20.109(F12):Module 2
  ...to improve and extend the performance of the bacterial photography system. In the process we may also learn something new about the natural systems upon ...F12): System engineering research article| Guidelines for research article assignment]]<br>
  4 KB (506 words) - 13:41, 29 July 2015
• 20.109(F12): Mod 2 Day 2 Measuring system performance
  ...e output...then the cells might swim to the light rather than turn a color in response. ...nderstanding of the system we're working with is obviously needed. To look in the black box that senses light, we'll have to learn more about the two com
  22 KB (3,562 words) - 13:41, 29 July 2015
• 20.109(F12): Mod 2 Day 1 Testing an engineered biological system
  ...jects, or exquisitely control responses to the world changing around them. In this experimental module we will consider the possibilities and limitations ...amilies of proteins that behave in predictable ways, both individually and in combination with other protein families and sequence motifs.
  15 KB (2,366 words) - 13:41, 29 July 2015
• 20.109(F12): Mod 2 Day 5 Assessing re-tuned system
  #the β-gal activity of the mutant photography strains grown in the light and dark ...otype but rather there has been some random change in the cell's genome or in the pPCB plasmid that is responsible. As a class, though, we'll hope that t
  8 KB (1,334 words) - 13:41, 29 July 2015
• 20.109(F12): Mod 2 Day 6 Readouts of DNA, Protein
  ... reaction rates. Thus it's important to show that the protein still exists in the cell (at a minimum) and that its expression is about the same as the wi ...that is later probed with an antibody specific to the protein of interest. In our case we will use a polyclonal antibody to detect the EnvZ portion of Cp
  15 KB (2,536 words) - 13:41, 29 July 2015
• 20.109(F12): Mod 2 Day 7 Readout of Protein
  ...ression of the light sensing protein, Cph8, and the mutant versions of it. In general, detection depends on which antibody you choose, and the quality of ...ize one epitope, while other antibodies, called polyclonal antibodies, are in fact antibody pools that recognize multiple epitopes.
  11 KB (1,673 words) - 13:41, 29 July 2015
• 20.109(S13):PCR and paper discussion (Day3)
  ...low concentration compared to the DNA in the sample as a whole, especially in complex mixtures, thus increasing opportunities for non-specific binding. ...it a great non-specific binder of proteins that we will use time and again in 20.109.
  17 KB (2,771 words) - 13:47, 29 July 2015
• 20.109(S13):Initiate cell culture (Day2)
  ... is more similar to that of humans. In this module, we will work with an ''in vitro'' culture model of cartilage-forming cells. ...mple, high molecular weights correlate with increased viscosity. Alginates in general are shear-thinning, which is to say their viscosity decreases as sh
  9 KB (1,562 words) - 13:48, 29 July 2015
• 20.109(S14):16S PCR and paper discussion (Day3)
  ...nt at a low concentration compared to the DNA in the sample as a whole, as in a complex mixture. Note that only engineered polymerases, such as those bou ...it a great non-specific binder of proteins that we will use time and again in 20.109.
  19 KB (3,108 words) - 13:58, 29 July 2015
• 20.109(S14):DNA cloning (Day4)
  ... an antibiotic resistance marker on the backbone, and growing the bacteria in said antibiotic. (We’ll say more about that procedure below.) This method ...uct, and a backbone, such as a commercially available vector, are depicted in black and blue, respectively. These are digested with the same restriction
  15 KB (2,521 words) - 13:58, 29 July 2015
• 20.109(S14):Initiate cell culture (Day2)
  ... is more similar to that of humans. In this module, we will work with an ''in vitro'' culture model of cartilage-forming cells. ...mple, high molecular weights correlate with increased viscosity. Alginates in general are shear-thinning, which is to say their viscosity decreases as sh
  9 KB (1,550 words) - 13:59, 29 July 2015
• 20.109(S14):Lab tour
  ...ay. Afterward, you may have some time remaining to begin the For Next Time assignment, and are strongly encouraged to do so. We'll re-group at 4:15 pm for a BioS ...e stations below: all are fair game, as is the lab safety material covered in the orientation pre-lab lecture.'''</font color>
  28 KB (4,689 words) - 13:59, 29 July 2015
• 20.109(S14):Begin Western protein analysis (Day2)
  ...ll be using during Module 2, and plated a known quantity of each cell type in preparation for protein analysis. Today you will lyse the cells, isolate th ...We'll learn more about the structure of antibodies, and different contexts in which they are used, during Module 3. For now, we'll discuss where they com
  16 KB (2,680 words) - 13:59, 29 July 2015
• 20.109(S14):Complete Western and prepare damaged DNA (Day4)
  ... and cells) our system for investigating NHEJ. In fact, it's quite typical in scientific research that a long development phase is required just to get t ...ty amazing if you think about it! Several of the enzymes that will be used in class are “high fidelity” variants, designed for more specific activity
  17 KB (2,797 words) - 13:59, 29 July 2015
• 20.109(S14):DNA repair assays(Day6)
  ... that cannot pass through viable membranes and thus identifies dead cells. In addition to purification, the flow cytometer can count the number of cells ...trical charge deflects the cell to make it fall into a collection chamber. In FC, each cells is interrogated, and documented as fluorescent or not, but t
  17 KB (2,912 words) - 13:59, 29 July 2015