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• Spring 2012:LFM Proposal
  This project is restricted to nine weeks of work and experimentation. We have set aside three weeks for experimentation, wit ...mportant milestone, since it allows focusing work on getting the imager to work with software in the upcoming weeks.
  14 KB (2,166 words) - 05:15, 18 May 2012
• Spring 2012:Vincent Lee Journal
  This week, I have been '''trying''' to modify LFDisplay to work with hexagonal grids, but the code is difficult to understand and I suspect ... optics that disappeared when the optics disappeared. Now, this just means work as hard as possible now that the optics are off.
  8 KB (1,373 words) - 18:43, 13 August 2013
• Spring 2012: Jonathan Gootenberg Journal
  I began a tiny bit of work on movement of the stage for the center determining code. Started to work on PSF lab. There was a bug in the code, and the stage would not move. Will
  11 KB (1,937 words) - 22:57, 22 May 2012
• Spring 2012:Vincent Lee Lab 2
  * Learning how optical components like those from ThorLabs come together and work.
  4 KB (611 words) - 21:37, 4 June 2015
• Spring 2012: Real Time qPCR
  Wiki Page for Real Time qPCR work
  154 B (15 words) - 21:13, 15 May 2012
• Spring 2012:Leanna Morinishi LFM
  I would be thrilled to work on this project for a number of reasons: * It will force me to work on image processing, I am novice status :p
  3 KB (368 words) - 15:41, 17 May 2012
• Spring 2012:LFM
  I would be thrilled to work on this project for a number of reasons: * It will force me to work on image processing, I am novice status :p
  4 KB (576 words) - 05:19, 18 May 2012
• Spring 2012:LFM Literature
  I would be thrilled to work on this project for a number of reasons: * It will force me to work on image processing, I am novice status :p
  2 KB (335 words) - 15:59, 17 May 2012
• Spring 2012:LFM Documentation
  === Prior Work === ...f>, his thesis<ref>[http://www.lytro.com/renng-thesis.pdf]</ref>, and some work from a postdoc at Harvard<ref>[http://rubenportugues.net/me.shtml]</ref>. T
  18 KB (2,796 words) - 05:15, 18 May 2012
• Alumni Page
  ...i contact info and the Bio-Instrumentation research labs or companies they work at. Use these sages to help you learn how 20.309 curriculum and skills are
  583 B (81 words) - 07:32, 6 December 2013
• Optical Microscopy Part 4: Particle Tracking
  ...iments of J. Perrin that lead to his Nobel Prize. A translation of the key work is included in the reprints folder. Have a look – he used latex spheres,
  9 KB (1,469 words) - 01:01, 10 March 2016
• Protocols for cell culture
  ** Try not to disturb air flow, yet still work! * Work 6" inward, away from glass.
  18 KB (2,896 words) - 18:17, 25 February 2024
• Optical Microscopy Part 1: Brightfield Microscopy
  ...even after moving your microscope. Understanding how all of the components work together can be daunting. Ask about any components that perplex you. <li> One way to make this work is to rescale your image to 16 bits: <tt> imshow( 65535/4095 * microruler10
  23 KB (3,758 words) - 22:45, 12 January 2017
• Optical Microscopy: Brownian motion and microscopy stability
  ...iments of J. Perrin that lead to his Nobel Prize. A translation of the key work is included in the reprints folder. Have a look – he used latex spheres,
  7 KB (1,071 words) - 01:05, 13 September 2012
• Emmanuel Quiroz
  * How does 20.309 apply to your work? * Should I get PhD/MS or work at a company?
  781 B (105 words) - 01:19, 6 December 2013
• Optical Microscopy Part 2: Fluorescence Microscopy
  ... laser with focusing optics. You must attend the safety lecture before you work with the laser. See an instructor if you missed the lecture. Do not begin w When you work with lasers, keep these laser safety best practices in mind:
  20 KB (3,262 words) - 22:06, 14 August 2017
• DNA Melting: Using the Matlab DNAMelter GUI
  ...ram again, and/or close it, re-open it, and run it again. If this does not work, consult a TA or Instructor.
  4 KB (644 words) - 21:08, 29 August 2013
• DNA Melting II: Using the Matlab DNALockIn GUI
  ...ram again, and/or close it, re-open it, and run it again. If this does not work, consult a TA or Instructor.
  9 KB (1,422 words) - 23:19, 19 November 2013
• Geometrical optics and ray tracing
  ...he image plane since there is no place the rays actually come together; it needs another lens (such as your eye) in order to view it. More examples of real ... image. Although the image is inverted on your retina, your brain does the work for you to see the image in the right orientation.
  23 KB (3,769 words) - 01:20, 27 August 2019
• MATLAB: Estimating resolution from a PSF slide image
  ...l = 0.5 * ( max( ImageData(:) ) + median( ImageData(:) ) ); % this may not work in all cases
  17 KB (1,769 words) - 14:21, 30 September 2017
• Physical optics and resolution
  ...uwenhoek and Robert Hooke made dramatic improvements in microscopes. Their work brought about many fundamental discoveries. Both men documented the existen * How does the probe work? What properties or events does it measure?
  15 KB (2,262 words) - 14:22, 6 September 2018
• Real electronics
  ...banana terminals in place. On new breadboards these are held away from the work surface by rubber or plastic feet on the backboard. On our breadboards thes
  9 KB (1,443 words) - 16:28, 20 October 2015
• Error analysis
  ...l. Fortunately, there always seems to be somebody with a bigger office who needs a couch. ...ch time you repeat a measurement, the incremental value added by your hard work diminishes. The tenth measurement is only about 11% as valuable as the firs
  24 KB (3,757 words) - 14:57, 3 September 2018
• Cellular microrheology
  ...he work of Mason ''et al.'' to 3T3 cells in particular can be found in the work of Tseng ''et al.'' <ref>[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC13023
  5 KB (750 words) - 18:34, 18 October 2013
• DNA Melting: Using the LockIn DNAMelter GUI
  ...ram again, and/or close it, re-open it, and run it again. If this does not work, consult an Instructor.
  10 KB (1,467 words) - 00:16, 8 November 2017
• DNA Melting: Using the Basic DNAMelter GUI
  ...d/or close MATLAB, re-open it, and run BasicMelter again. If this does not work, consult a TA or Instructor.
  5 KB (719 words) - 23:46, 7 November 2017
• Optics Bootcamp
  ...some exercises in the lab. The written problems will help you with the lab work. After you do the problems, come on by the lab. (Or do the problems in lab ... ray tracing and Snell's law to locate the image of the turtle. Show your work. <br>
  28 KB (4,857 words) - 20:09, 31 July 2017
• 20.109(S08)
  ...ts at the bench, ones that will increase the likelihood of success in your work and ensure the health and safety of you and those around you. By the end of
  3 KB (406 words) - 14:24, 5 June 2015
• 20.109(S08): TA notes for module 2
  #None: all work today is computer work. #*As before, ~1:20 dilution initiated between 8:30 and 9:30 am should work well.
  8 KB (1,223 words) - 16:04, 15 June 2015
• 20.109(S08): TA notes for module 1
  '''Prep Work''' *NB168 pCX-D3G+Linker -- This plasmid needs to be cut in three ways and each bkb purified!
  12 KB (1,868 words) - 16:04, 15 June 2015
• 20.109(S08):Transcript-level analysis (Day5)
  ...of Block Buffer to the plate. Wait another 60-90 minutes. In the meantime, work on your analysis (Part 3).
  14 KB (2,255 words) - 16:04, 15 June 2015
• 20.109(S08):Testing cell viability (Day3)
  ...of your labmates time.''' Reading the protocol in advance will help you work more quickly, and is strongly recommended. ...ls can basically be treated the same way. You and your partner may want to work in parallel, one on 2D prep and one on 3D prep. Unless otherwise stated, al
  18 KB (3,087 words) - 16:04, 15 June 2015
• 20.109(S08):Characterize protein expression (Day5)
  ... has 15 &mu;L of liquid in it. You might use the table below to guide your work. #Measure the absorbance of each sample at 595 nm. Work as quickly as you can, because the absorbance will continue to slowly chang
  12 KB (1,946 words) - 16:04, 15 June 2015
• 20.109(S08):Start-up biomaterials engineering (Day1)
  ... of the surrounding environment on cell phenotype. In particular, you will work with primary chondrocytes in both liquid and gel culture. The specific aspe ...many cells you need to initiate your cultures, in case extra animal tissue needs to be ordered. Per 3D sample, you will prepare 1 mL of alginate beads (thus
  5 KB (805 words) - 16:04, 15 June 2015
• 20.109(S08):Initiate cell culture (Day2)
  ...eir knee joints is more similar to that of humans. In this module, we will work with an ''in vitro'' culture model of cartilage-forming cells. ... time however you find useful (FNT assignment, notebook prep, or unrelated work).
  12 KB (2,006 words) - 16:04, 15 June 2015
• 20.109(S08):Preparing cells for analysis (Day4)
  ...eting your cells, clean your microfuge. You can finish setting up your RNA work area while the cells spin down. ... different from DNA in its stability. Consequently it is more difficult to work with RNA in the lab. It is not the techniques themselves that are difficult
  16 KB (2,751 words) - 16:04, 15 June 2015
• 20.109(S08):Protein-level analysis (Day6)
  ...king about the structure of cartilage for a bit, as promised on Day 4. Our work in this module has focused on chondrocytes themselves (viability and morpho ... diluted antibody per well. Incubate for 90 min (at room temperature), and work on Part 2 of today's protocol.
  9 KB (1,409 words) - 16:04, 15 June 2015
• 20.109(S08):Wrap-up analysis (Day7)
  ...nce they will undergo partly different manipulations. You may also want to work on two separate worksheets, one for each collagen type.
  7 KB (1,208 words) - 16:04, 15 June 2015
• 20.109(S08): Assignments
  ... semester in lab, but you will <font color = red>submit individual written work (lab report, portfolio, essay) and give individual journal club presentatio ...in the "for next time" section of each lab day. <font color = red> You can work with your lab partner, friends and teaching assistants on these assignments
  3 KB (394 words) - 14:24, 5 June 2015
• 20.109(S08):DNA engineering/Lab report
  ...figures, but if you do so, you must include the reference to the published work (e.g., the figure should not be downloaded from a web site). ...re used to detect homologous recombination in mammalian cells. The reader needs to know what the goal is: which plasmid did you set out to create? Part B w
  10 KB (1,670 words) - 14:24, 5 June 2015
• 20.109(S08):Module 2
  ...pful discussions during the development of this module, as well as for her work in developing a [http://openwetware.org/wiki/20.109:Module_2 related module
  3 KB (445 words) - 14:24, 5 June 2015
• 20.109(S08):DNA engineering/DNA engineering by PCR (Day 1)
  ... establish good habits for documentation of your work. By documenting your work according to the exercises done today, you will ...re there are no spaces between or after the letters or your search won’t work. Change the color of the start codon to blue. Repeat the “Find…” proc
  27 KB (3,752 words) - 14:24, 5 June 2015
• 20.109(S08):Module 1
  We gratefully acknowledge 20.109 instructor Natalie Kuldell for her crucial work developing and teaching previous iterations of this module.
  4 KB (637 words) - 14:24, 5 June 2015
• 20.109(S08):DNA engineering/Agarose gel electrophoresis (Day 3)
  Ligations generally work best when there is a 1:4 ratio of backbone to insert. You will ligate your
  10 KB (1,806 words) - 14:24, 5 June 2015
• 20.109(S08):DNA engineering/Examine candidate clones (Day 5)
  *work best in the same buffer and at the same temperature.<br> ...faculty has set up four overnight LB + AMP cultures of bacteria for you to work with. Three of these cultures have colonies from the ligation reactions you
  10 KB (1,634 words) - 14:24, 5 June 2015
• 20.109(S08):Guidelines for editing OpenWetWare
  ==Sign your work==
  3 KB (494 words) - 14:24, 5 June 2015
• 20.109(S08):Start-up protein engineering (Day1)
  ...s wasting a month of your time repeating experiments already proven not to work or reinventing the wheel. ...erse pericam (IPC). You will annotate these sequences to guide your design work.
  15 KB (2,452 words) - 14:24, 5 June 2015
• 20.109(S08):Site-directed mutagenesis (Day2)
  ...al of information in order to design mutagenized inverse pericams nice work! Today you will put your designs into practice. ...reaction, to ensure that all the reagents are working properly. You should work quickly but carefully, and keep your tubes in a chilled container at all ti
  12 KB (1,954 words) - 14:24, 5 June 2015
• 20.109(S08):Prepare expression system (Day3)
  #Incubate on ice for 1 hour. (You might work on parts 3-5 of today's protocols now.) ===Microbial work===
  13 KB (2,221 words) - 14:24, 5 June 2015
• 20.109(S08):General lab policy
  ... your partner and to others in the lab if you are not up to speed when the work begins. ... have cut yourself (even if you consider it minor), if something broke and needs cleaning up, or if you are on fire.
  2 KB (376 words) - 14:24, 5 June 2015