Genomics and Next Generation Sequencing course in Silicon Valley

[Abizar Lakdawalla]

I will be teaching a 4 day course at UCSC Silicon Valley Extension (4 Saturdays) which is a deep dive into genomics, genetics, cell biology (on day 1), in depth explanation of the sequencing technologies available today - single molecule or ensemble sequencing (on day 2), research application of NGS such as targeted and whole genome sequencing, epigenomics, transcriptional analysis and protein nucleic acid interactions (day 3), and clinical applications of NGS from prenatal screening to early cancer detection, liquid biopsies to infectious disease monitoring (day 4).

https://www.ucsc-extension.edu/certificate-program/offering/genomics-and-next-generation-dna-sequencing-methods-and-applications

This class in a labor-of-love for me and is distills  a decade+ experience in NGS while at Illumina, Thermo Fisher and other companies into a 4-day intensive. 

Great class if you are looking to join the many genomics companies such as Grail, Genomic Health, Foundation Medicine, Illumina, Roche, Thermo, Qiagen, etc.

[Henri Lentonen]

Hello,

have they compared more than 1% of human and chimpanzee DNA already?

Also I dont find anywhere, how many percent is chimp DNA already sequenced.

As here only 1.9 million base pairs was compared, it is about 0.06% of the whole genome. Why only so little can be compared?

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC379137/

Also this is noteworthy:

"98.6% sequence identity drops to only 86.7% taking into account the multiple insertions/deletions (indels) dispersed throughout the region. "

http://www.pnas.org/content/100/13/7708.short

[Abizar Lakdawalla]

Yes they have compared whole genomes not only from existing apes but also from ancient humans (neanderthals, etc.) with modern humans. 

There has been quite a bit of focus on genes that are different from other apes to figure out what are "human" genes (http://science.sciencemag.org/content/360/6393/eaar6343). Also another interesting discovery is that RNA splice forms are quite different even though the gene is essentially the same (https://www.ncbi.nlm.nih.gov/pubmed/28957512). We are still scratching the surface of genomics! Pretty exciting time!

BTW, percentages are not useful metrics when the numbers are large. For example, about 1-2% of our genome codes for proteins. So a metric such as 1% difference in chimps and humans does not mean much because that 1% difference may all be in coding genes - this is not true of course - but just to give you a sense of how numbers can mislead. Another example of percentages being misleading is anti-bacterial soaps etc that say that 99% of bacteria are eliminated. the amount of original bacteria may be 10e7. So if I have got rid of 99% I still have 1,000,000 bacteria remaining!

--
-- You received this message because you are subscribed to the Google Groups DIYbio group. To post to this group, send email to diy...@googlegroups.com. To unsubscribe from this group, send email to diybio+un...@googlegroups.com. For more options, visit this group at https://groups.google.com/d/forum/diybio?hl=en
Learn more at www.diybio.org
---
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To unsubscribe from this group and stop receiving emails from it, send an email to diybio+un...@googlegroups.com.
To post to this group, send email to diy...@googlegroups.com.
Visit this group at https://groups.google.com/group/diybio.
To view this discussion on the web visit https://groups.google.com/d/msgid/diybio/e7c99b1b-7cea-4239-b4c1-0bd70e730403%40googlegroups.com.
For more options, visit https://groups.google.com/d/optout.

[Greg Westin]

I've been doing soe research on biosimilars and i would like to take this course.  Is there a gel electrophoresis available that's more than 48 base
pairs capacity.