Post on 07-Apr-2017
An emblematic open science project for HK
@SCEdmunds@BauhiniaGenome
#HKGenome
A brief history of genomics…
Source: http://www.genome.gov/Images/press_photos/highres/38-300.jpg
Human Genome Project: 1990-2003. 1 Genome = $3 Billion
Post-Human Genome Project
1st Gen
2nd (next) Gen
Source: http://www.genome.gov/sequencingcosts/ (with apologies)
The skills needed for the 21st century
"by 2025, it is possible that as many as 25% of the population in developed nations and half of that in less-developed nations will have their genomes sequenced”
Big Data: Astronomical or Genomical?http://journals.plos.org/plosbiology/article?id=10.1371%2Fjournal.pbio.1002195
GENOMICS IN HONG KONG
BGI HK Chamber O’Illumina’sThe LHC of Biology?
20PB of storage
Made in Hong Kong
Hong Kong’s R&D spend is lowData: WorldBank
Hong Kong’s R&D spend is lowData: WorldBank
Hong Kong could invest in R&D
• HK runs a surplus (unlike everyone else)• US spend on Human Genome (1988-2003)
returned $1.98 in economic output for every $1.00 spent
• US spend on genomics (1993-2010) returns $2.01 for every $1.00 spent
• General public R&D spend in UK returns about £1.20 for every £1.00 spent
http://bit.ly/1jTzB3R
Hong Kong’s focus…“The plot earmarked for expansion of Hong Kong Science Park might now be used to build apartment blocks instead. Is the government backing down on its commitment to project Hong Kong as a major technology hub?” http://bit.ly/1TxCRj3
Hong Kong’s focus…“The plot earmarked for expansion of Hong Kong Science Park might now be used to build apartment blocks instead. Is the government backing down on its commitment to project Hong Kong as a major technology hub?” http://bit.ly/1TxCRj3
Hong Kong’s fears…
https://www.afcd.gov.hk/english/conservation/con_gmo/con_gmo.html
WORKING AROUND THE SYSTEM
Breaking the funding bottleneck
Biggest crowdfunding successes
The “Peoples Parrot”Puerto Rican Parrot Genome Project (Amazona vittata )Rarest parrot, national bird of Puerto Rico
Community funded from artworks, fashion shows, beer brands, crowdfunding…
Genome annotated by students in community college as part of bioinformatics education
Paper and Data published in GigaScience and GigaDB
Taras K Oleksyk, et al., (2012) A Locally Funded Puerto Rican Parrot (Amazona vittata) Genome Sequencing Project Increases Avian Data and Advances Young Researcher Education. GigaScience 2012, 1:14Steven J. O’Brien. (2012): Genome empowerment for the Puerto Rican parrot – Amazona vittata. GigaScience 2012, 1:13Oleksyk et al., (2012): Genomic data of the Puerto Rican Parrot (Amazona vittata) from a locally funded project. GigaScience. http://dx.doi.org/10.5524/100039
The “Peoples Parrot”
https://youtu.be/Hr43ZXP9NGw
CHANGING THE SYSTEM
Brought to you by: HK CUHK
…and the people of Hong Kong
An emblematic genome project
A historical mystery that needs solving
?
Botanical and Afforestation Department, 1903: "The mysterious origin of the tree and its magnificent flowers at once arrest the interest. … So far, all efforts to identify them with any foreign species have failed"
Plant genomics #101Why hybrids changed the world?
An icon that needs protecting
Useful Bauhinia?
Latin name
Common name
(Nepal) Edible use Other useBauhinia purpurea Tanki
Flowers and young shoots eaten as vegetable. Leaves used as fodder.
Bauhinia valii BhorlaPods eaten as vegetable.
Fruits edible.
Stem bark used to make ropes.Leaves used to make umbrella
Traditional plates for ritual functions.
Bark juice used as fermenting material and to cure blood
dysentery.
Bauhinia variegata Koiralo
Young shoots and leaves eaten as vegetable. Flowers eaten as vegetable or used
to make pickle. N/A
Useful Bauhinia?
Useful Bauhinia?
A puzzle that needs assembling
With Parts Made in (BGI) Hong Kong
Building skills and awareness in HK
Building skills and awareness in HK….in the news
http://www.scmp.com/magazines/post-magazine/article/1875917/unique-project-sequence-genome-hong-kong-bauhinia-tree
Building skills and awareness in HK….in the art galleries
Building skills and awareness in HK….in the art galleries
Building skills and awareness in HK….on the radio
http://programme.rthk.hk/channel/radio/programme.php?name=radio3/1_2_3_show&d=2015-11-19&p=5979&e=&m=episode
CNN “On China” covering the Bauhinia Genome project, 27th April 2016 https://youtu.be/TyJBALA0da0
Building skills and awareness in HK….on TV
A project that needs supporting
@bauhiniagenome #bauhinawatchhttps://www.facebook.com/BauhiniaGenome
http://bauhiniagenome.hk/
http://igg.me/at/bauhinia https://www.patreon.com/BauhiniaGenome
Follow us:
What next for the peoples GMO?
Education: #bauhiniawatch
Education: school outreach
Education: (OER) teaching materials
https://www.oercommons.org/courseware/lesson/9147/overview
Education: reproducible research
Education: lets make genomes!(or at least 4 x transcriptomes)
Education: lets share (OPEN) data
Next: lets analyse (OPEN) data
Finally: what can you do to help?
• Spread the word.
• Phenotype: #bauhiniawatch.
• Donate towards whole genomes.
• Help with fundraising.
• Learn & help with genome assembly.
Thank you for listening!