CS111 Introduction to Genome Browsers

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==Objective==
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==Objectives==
This course will provide a general introduction to genome browsers to acquaint the researcher on the use and data available on several popular genome browsers such as the UCSC Genome Browser, Ensembl, NCBI Map Viewer and Integrated Microbial Genomes (IMG). There are several publicly available genome browsers (see course outline) that allow researchers to access annotated data on a large number of genomes. These genome browsers are excellent resources for data discovery and analysis. This course is targeted towards researchers who are not acquainted with these genome browsers or who wish to learn to use these tools more effectively. The course will go over the basic use of each genome browser and some of the data and tools available to them. The user will also get a good overview of comparisons and contrasts between these browsers.  
This course will provide a general introduction to genome browsers to acquaint the researcher on the use and data available on several popular genome browsers such as the UCSC Genome Browser, Ensembl, NCBI Map Viewer and Integrated Microbial Genomes (IMG). There are several publicly available genome browsers (see course outline) that allow researchers to access annotated data on a large number of genomes. These genome browsers are excellent resources for data discovery and analysis. This course is targeted towards researchers who are not acquainted with these genome browsers or who wish to learn to use these tools more effectively. The course will go over the basic use of each genome browser and some of the data and tools available to them. The user will also get a good overview of comparisons and contrasts between these browsers.  
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No experience is required, although prior experience with any other programming language will be helpful. Math skills will also be useful. This course is certified by the [[Bioinformatics Organization|Bioinformatics Organization, Inc.]], the largest international affiliation in the field, and it will count as '''10''' "Continuing Scientific Education" (CSE) credits (one credit per contact hour) within the Organization. Students completing the course will receive a certificate attesting to that.
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No experience is required, although prior experience with any other programming language will be helpful. Math skills will also be useful.
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==Course outline==
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==Instructor==
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* [[Warren Lathe]]
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==Syllabus==
Each class is approximately 90 minutes long, each would include about 45 minutes of introduction (where attendees can follow along on the browser) and another 45 minutes of hands-on project exercises.  
Each class is approximately 90 minutes long, each would include about 45 minutes of introduction (where attendees can follow along on the browser) and another 45 minutes of hands-on project exercises.  
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Conclusion: General summary and a compare and contrast of genome browsers.  
Conclusion: General summary and a compare and contrast of genome browsers.  
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==Course schedule==
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|hours=10
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This course has been offered once. Access to completed courses is available to enrolled students only, because of privacy and confidentiality issues. If you are interested in an upcoming course, register using instructions below.
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* [http://edu.bioinformatics.org/AT/site Course AT (online), May 14-18, 2007]
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==Registration==
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Registration comprises of two steps. First, [https://edu.bioinformatics.org/login/signup.php create an online account] to access the educational section of our website. Second, register for this course by making a payment using either the online registration form (click on the scheduled course above; ''use this form only for credit card payments via secured PayPal''), or by sending in the [http://edu.bioinformatics.org/download/registration_form.pdf mail-in registration form] (~150 kB PDF, ''use this form if paying by US checks, credit card or corporate purchase order''). Please check the tuition rates and discounts below.
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Registration deadline: When full
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===[[Tuition discounts]]===
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* Returning student discount: A 20% (rounded up) discount applies for students who have paid the base tuition (without a similar discount) for a course at Bioinformatics.Org that does '''''not''''' fall in the CS101 range (e.g., CS102A/B) (please use the mail-in registration form rather than PayPal if taking this discount).
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* Cluster course discount: A 50% (rounded up) discount (cannot be combined with the 20% discount) applies for students who have paid the base tuition for a course that '''''does''''' fall in the CS101 range (please use the mail-in registration form rather than PayPal if taking this discount).
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Tuition (all prices USD):
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        <td style="border-right: solid 1px black; padding: 0.5em;">Base tuition</td>
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        <td style="border-right: solid 1px black; padding: 0.5em;">If taken with another course at base tuition</td>
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        <td style="border-right: solid 1px black; padding: 0.5em;">Commercial</td>
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        <td style="border-right: solid 1px black; padding: 0.5em;">$595</td>
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        <td style="border-right: solid 1px black; padding: 0.5em;">$397</td>
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        <td style="border-right: solid 1px black; padding: 0.5em;">$476</td>
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        <td style="border-right: solid 1px black; padding: 0.5em;">$318</td>
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For full-time students and the unemployed, please inquire about an additional discount (verification required).
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==Logistics==
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Online courses are offered via an online meeting system.  Access information will be provided prior to the start of the course. Each lecture will last 45 to 90 minutes, depending on the topics covered. For those who cannot attend the lectures at those times, the lectures will be recorded and placed on the course website as Flash videos (resolution reduced by 30%) each day, within one day.  Students will also be able to communicate with the instructor and other students via the course forums.  Lecture attendance is therefore not required.
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Since this will be an interactive, hands-on workshop, all attendees will need a computer with a broadband Internet connection (1 Mbps or faster is strongly recommended for those watching the live lecture), a sound card with speakers, a modern Web browser, and the [http://www.adobe.com/products/flashplayer/ Adobe Flash plugin].  A microphone and webcam is not required for this course.  The necessary software, lecture notes and exercises will be provided.
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==Additional information==
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If you have any questions, please send a message to [http://edu.bioinformatics.org/message/discussion.php?id=100003 J.W. Bizzaro] (login required) or call +1 978 562 4800.
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==See also==
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* [[Educational services|Educational services at Bioinformatics.Org]]
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Revision as of 05:38, 10 September 2009

Contents

Objectives

This course will provide a general introduction to genome browsers to acquaint the researcher on the use and data available on several popular genome browsers such as the UCSC Genome Browser, Ensembl, NCBI Map Viewer and Integrated Microbial Genomes (IMG). There are several publicly available genome browsers (see course outline) that allow researchers to access annotated data on a large number of genomes. These genome browsers are excellent resources for data discovery and analysis. This course is targeted towards researchers who are not acquainted with these genome browsers or who wish to learn to use these tools more effectively. The course will go over the basic use of each genome browser and some of the data and tools available to them. The user will also get a good overview of comparisons and contrasts between these browsers.

No experience is required, although prior experience with any other programming language will be helpful. Math skills will also be useful.

Instructor

Syllabus

Each class is approximately 90 minutes long, each would include about 45 minutes of introduction (where attendees can follow along on the browser) and another 45 minutes of hands-on project exercises.

Conclusion: General summary and a compare and contrast of genome browsers.

Scheduled courses

If you are interested in an upcoming course, register using instructions below. (Access to completed courses is available to enrolled students only, because of privacy and confidentiality issues.)

Registration

Registration for courses at Bioinformatics.Org takes two steps:

Step 1
If you haven't already done so, create an on-line account to access the educational section of our website. Please note that the registration for our educational system is separate from that of the main website; you will require another account.
Step 2
Register for the course by making a payment using either the on-line registration form (click on the name of the course where it appears in the list of upcoming courses; use this form only for PayPal payments and credit card payments via secured PayPal), or by sending in the registration form (PDF; use this form if paying by US checks, credit card or corporate purchase order).

Please also check the course tuition rates and discounts.

Registration deadline: When full

Tuition & discounts

Live instruction held on-line
Live instruction held on-site
On-demand instruction held on-line

Additional discounts are available as follows:

Logistics

The necessary software, lecture notes and exercises will be provided.

Live instruction held on-line

On-line/live courses use the WebEx on-line meeting system. Access information will be provided prior to the start of the course. Unless otherwise noted, each lecture begins at 16:00 GMT and runs for about (please inquire), depending on the topics covered.

For those who cannot attend the lectures at those times, the lectures will be recorded and placed on the course website as AVI video files each day, within one day. Students will also be able to communicate with the instructor and other students via the course forums. Lecture attendance is therefore not required.

Since this will be an interactive, hands-on workshop, all attendees will need a computer with a broadband Internet connection (1 Mbps or faster is strongly recommended for those watching the live lecture), a sound card with speakers, a modern Web browser, and Java. A microphone and webcam are not required but may be used.

Certification

This course is certified by the Bioinformatics Organization, Inc., the largest international affiliation in the field, and it will count as 10 "Continuing Scientific Education" (CSE) units (one unit per contact hour) within the Organization. Students completing the course will receive a certificate attesting to that.

Refund policy

For any course type, if a student is not satisfied with the conduct or content of a course, they may request a full refund within the first two days of lecture. After two days but within a week, a 50% refund will be granted. After one week, a 100% credit toward another course will be granted. No refunds or credits apply beyond those stated here.

Additional information

Please contact us for questions or additional information.

See also

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