2012 10 26 - Genomics in Education Workshop, Schoolcraft College, Livonia MI

Section Navigation

• Pre-workshop Homework
• Workshop Agenda and Resources
• Travel Information

 Pre-Workshop Homework

Laptop Compatibility

If you are bringing your own laptop:

Most laptops (<5 years old) updated with the latest web browser (we recommend FireFox:http://www.mozilla.org/en-US/firefox/fx/ ) will have no problem.

Here are some things to check:

• If possible, make sure you have have administrative privileges on your computer (should it become necessary to install or update software during the workshop).
• Ensure that your computer is running a current browser (Mozilla Firefox 13/ Internet Explorer 8 (IE 9 preferred) / Safari 4 or later).
• Be aware, Java 7 has known issues that limit some functionality on DNA Subway. Get Java 6 @ this link: http://java.com/en/download/manual_v6.jsp
• If you are a Windows user, ensure that your computer is running Java 6 Update 19 or later by going to http://java.com and click ‘Do I Have Java?’ Then click ‘Verify Java version’ and install.
• If you are a Mac user, check that your computer has the latest Java installed (probably Java 6) and that it also is enabled. (Check it out at http://java.com or contact williams@cshl.edu for additional advice).
• To test your Java installation, go to http://gfx.dnalc.org/files/apollo/test/ and follow the instructions at that site. The test is successful if an image opens up on your computer that looks like this screenshot: Java Screenshot

Make sure you have a valid iPlant account

• You should be able to log into the DNA subway at: http://dnasubway.iplantcollaborative.org/.
• If you do not have an iPlant account, please get one at: http://user.iplantcollaborative.org/register.

Additional Readings and Assignments

• ReviewDNA Subway manual (a printed copy will be presented at the workshop)
• Review DNA Barcoding laboratory (a printed copy will be presented at the workshop)
• Bring a small sample of plant tissue (a leaf/flower/etc.) or collect one on campus before the experiment.
• If you wish to bring sequence data for the DNA barcoding or genome annotation experiments feel free to do so! 
• Check out the slides and papers mentioned in the agenda.

Workshop Agenda and Resources

Wiki Short URL: http://www.iplantcollaborative.org/scwiki

Friday, October 26th

Saturday, October 27th

Other Websites and Links and Resources

• DNA Subway Manual
• Workshop handouts in WORD and PDF
• DNA Barcoding Manual 
• Barcoding lab planning and prep
• http://www.learnaboutsma.org/   - SMA website and splicing animation.
• http://www.urbanbarcodeproject.org - UBP website
• http://www.iBoL.org - International Barcode of Life Project

Post Workshop Survey

Please complete this survey at the conclusion of the workshop:

• https://www.surveymonkey.com/s/GenomicsInEducation_post

Post Workshop DNA Sequencing Results

Instructions for accessing your DNA Sequence from DNA Subway

 

1.       Log into DNA Subway (dnasubway.iPlantcollaborative.org)

2.       Start a blue line project

3.       Under 'Select Project Type' select the project type to be ‘rbcL’ barcoding

4.       Under ‘Select Sequence Source’ choose ‘Import Sequence from DNALC’ Your sequences have a the tracking number: 10-209012416 and are

           posted as the entry under Jermel Watkins on 11/2/12

5.       Select the sequences you want to include and run your project; each person should have two sequences, 1 forward, 1 reverse.

           For example, Student 1 will have a sequence called Student1-M13F(21).... and a sample called Student1-M13R....

Gel Photos:

Important Pre-Workshop Travel Info

Recommended Lodging

There is no reimbursement for lodging. These hotels include those recommended by our hosting institution,but no guarantees are offered about the availability or suitability of the hotels.

Check website like hotels.com and travelocity.com for additional hotels and rates. 

Nearest Airports/ Rail

Taxi rates and rentals info:

Call ahead of time to reserve/confirm

Parking Information:

Parking is free. You can park in the North or South Parking lots; the North lot may be a bit closer. The following is a note on the Schoolcraft College website regarding possible delays on Haggerty Road. Note:       Lane closures and delays can be expected through October while Haggerty Road between Six and Seven Mile is resurfaced. Please allow extra time when driving to campus. Haggerty Road will remain open throughout the project. There are five Schoolcraft entrances off of Haggerty; drivers can proceed to another entrance if they find that one is blocked.

On-Campus Directions:

http://www.schoolcraft.edu/maps/livonia.asp