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1. UCSC Genome Browser Tutorial: the basics
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- Опубликовано: 3 сен 2014
- UCSC Genome Browser Tutorial
Video 1
An introduction to the UCSC Genome Browser, a tool used by researchers around the world. Here I discuss:
--genomes and assemblies
--chromosome coordinates
--gene structure
--manipulating the window
I would just really like to thank you for taking time to put together these tutorials. You will have contributed a great deal to my final year undergrad project and hopefully my masters next year and my career in the future and for that I salute you!
+Steven McLoughlin Thank you, Steven! Best of luck with your final project and the rest of your career. I can't wait to see what you discover!
How did your masters go
Thank you very much for your tutorial, I'd got really stuck and lost self confidence until I found your videos, really made a lot of the things clear. Every undergraduate should see this
Science can be challenging, Grisha. Don't give up! You can always reach out if you have questions about how to use the genome browser.
you guys are great. we need people like you.
Thank you Keewon!
Thank for you for taking time out for making these tutorials. You are very helpful. Cheers
You're welcome AoiHana! Please pay it forward by helping others appreciate the human genome, and by showing kindness to all who possess one :)
Thanks for this Sam. I am a masters student moving from Chemistry to Biology, so a lot of this is new for me. These videos really helped with a bioinformatics course I am taking.
I'm glad this was helpful for you, Max. Good luck in the rest of your Masters program!
@@samallon9492 thanks a lot. Was wondering if you would offer private tuition via zoom? I could really use a few sessions for this course… please let me know if possible
@@semb12 My thesis defense is fast-approaching, so unfortunately I don't think I'll have time for tutoring. If you let me know what you're having trouble with, maybe I can point you in the right direction?
@@samallon9492 That is a shame but I understand! I just have a final project, where I need to investigate my chosen mRNA using various bioinformatic tools. So it will require a few sessions I think to answer all my questions. Perhaps you know someone else who could help? Thanks a lot!
i have started my bioinformatics classes and your videos really are helping to get through..
thank you
Thank you for watching, shomoita! I think bioinformatics can help us solve some of the world's most crucial problems. Keep up the good work!
Thanks a lot from Spain bro, it really helped me out!
You're welcome David! Let me know if you have any questions :)
very useful thank you sam
Thank you Sir for sharing this video. You've got a new student today !
You're welcome Syed! Let me know if you have any questions
Thank you, I will.
Awesome series of presentations and explanations! Thanks for sharing.
You're welcome, Ami! I hope this helps with your studies or research.
Thank you for the tutorial, UCSC has a difficult genomic page. It is extremely difficult to navigate through but this tutorial helps.
REPLY
Sunny, I'm sorry that you're currently struggling with the genome browser, but I know that you will master it eventually!
Thanks mate! It saved me an hour.
Of course dude! Happy genome browsing :)
Hey Sam.. thanks so much for the tutorial. It was so simple but well informed and keep up the good work .. :)
+Benedict Mutimba Thank you for watching, Benedict! The human genome is something we all share, so it's something we should all appreciate and celebrate.
Hi sam, Can we take export file by searching a specific genes. It would help to see for repeat maskers available for each variant.. Can you please help me in that.. Thank you
This was so helpful!!
Hi Sam, this is a wonderful channel, and the one which I wanted. I just want to know how the particular gene on chromosome of human to locate and make it on and off for occurrence of any disease to recover. Like editing a algorithm.
Thanks Sanjay! I'm not sure I understand your question, but there are some genes that can be turned on/off to cure a disease. For example, turning off hemoglobin beta (HBB) and turning on fetal hemoglobin (HBG1/2) may be a way to cure sickle cell anemia. However, most diseases may not be curable in such a way.
These videos are awesome! Was wondering where on the Genome Browser can you find the chromosome location (e.g. 1q32-q41)?
No you're awesome, Jillian! It sounds like you're looking for the Chromosome Band track, under the Mapping and Sequencing category. Try setting Chromosome Band from Hide to Full, then refresh the browser. Check out video 2 of my tutorial to learn more about how to use tracks, and let me know if you run into issues.
Vielen Dank
WERE I CAN SEE CHIM CHROMOSOMES AND GENES?
James, do you mean the chimp genome? That is one of the options - just click Genomes, then search for “chimp” or click chimp just below human in the phylogenetic tree
AMAZING thank you!!!
You're welcome Emmie! Best of luck in your studies/research.
thx
Where is ideogram and gene name?
Hi Zoha. The chromosome ideogram is the series of black and gray boxes right below the search bar. The centromere is represented by 2 dark red triangles pointed at each other.
The gene name is found on the left side of a genes track, such as the RefSeq Genes track I have open in this video.
@@samallon9492 thank u so much🥰
@@zohaali2073 you're welcome!
thx
yr wlcm!