Visuomenės mokslas ir biohacking'as (NMA žiemos sesija 2016, Palanga)
•Download as PPTX, PDF•
0 likes•226 views
Visuomenės mokslas (citizen science), žmonių kompiuterija (human computation), atviras mokslas (open science) ir biohacking'as (NMA žiemos sesija 2016, Palanga)
Recommended
Recommended
More Related Content
Viewers also liked
Viewers also liked (10)
Similar to Visuomenės mokslas ir biohacking'as (NMA žiemos sesija 2016, Palanga)
Similar to Visuomenės mokslas ir biohacking'as (NMA žiemos sesija 2016, Palanga) (11)
More from Egle Marija Ramanauskaite
More from Egle Marija Ramanauskaite (8)
Visuomenės mokslas ir biohacking'as (NMA žiemos sesija 2016, Palanga)
- 1. EGLĖ MARIJA RAMANAUSKAITĖ, MSc Vilnius University, Citizen Cyberlab, Human Computation Institute VISUOMENĖS MOKSLAS (CITIZEN SCIENCE) „ŽMONIŲ KOMPIUTERIJA“ BIOHACKING‘AS ... IR KITI DALYKAI ! Seplutia @Seplute ir @mmokslas linkedin.com/in/eglemarija facebook.com/EgMaRam emramanauskaite@gmail.com # citizenscience # openscience # wecantwait #wecurealz # savethebees # mmokslas Mano mokslo populiarinimo straipsnių galite rasti technology.org ir kitur!
- 2. KĄ MES ŠIANDIEN VEIKSIME: Tyrinėsime: • „visuomenės mokslą“ (citizen science), „žmonių kompiuteriją“ • „debesų biochemiją“ • „biohackingą“, „atvirą mokslą“ (open science) Galvosime: • Kuo svarbus Mokslas 2.0, ypač atviras duomenų dalijimasis, „atvira genomika“ ir kt. Hackinsime!
- 4. CITIZEN SCIENCE – real scientific research done by or together with non-scientists • Popular in the English- speaking world, esp. US • Europe catching up … • Mostly biodiversity, but others popping up
- 6. • thinking Cell Slider (Cancer Research UK)
- 8. FoldIt
- 9. Phylo
- 11. • sensing
- 12. WHY DOES CITIZEN SCIENCE MATTER? Q1. Can you… be in a lot of places at once?
- 13. CITIZEN SCIENTISTS can Charlop-Powers, Z. et al. (2015). Global biogeographic sampling of bacterial secondary metabolism. eLife, 4, e05048.
- 15. Q2. Can you… trick time to squeeze in ALL THAT DATA?? Q3. Or have a free-to-use supercomputer right in your lab???
- 17. CITIZEN SCIENTISTS will help you (if you ask kindly)
- 21. CITIZEN SCIENTISTS: ×ARE NOT cheap labor! Enjoy learning about science Appreciate a fun way to spend time See the Big Picture & want to contribute to science!
- 24. PRIE KO ČIA „DEBESŲ BIOCHEMIJA“ ? Tai biochemija, kuri atliekama nebe laboratorijoje, o „kažkur kitur“ Pvz.: • Tyrimai užsakomi iš privačių įmonių • Eksperimentai „simuliuojami“ kompiuterinių algoritmų • (jei tai nepavyksta – neracionalu) duomenis renka arba apdoroja civiliai mokslininkai Ir pan. Kas tuomet lieka „profesionaliems“ biochemikams?
- 25. Ar visuomenės mokslas, atviras mokslas, atviri duomenys – nėra „pavojingi“ visuomenei?
- 26. Ar Mokslo 2.0 (Science 2.0) laikais išliks vietos profesionaliam mokslui, profesionalioms laboratorijoms?
- 27. IS CITIZEN SCIENCE RELIABLE? YES: • 1 trained researcher = 23 citizen scientists • Thousands of volunteers do this • Usually one task / puzzle / experiment is given to several citizen scientists CITIZEN SCIENTISTS: Have skills unmatched by any computer Have “microexpertise” that makes a powerful team Are quick to learn
- 28. Think outside the box!! Not noise… whole new type of galaxy!
- 29. CITIZEN SCIENTISTS CAN: Achieve breakthroughs Publish papers Help solve the world’s most pressing problems, like climate change, Alzheimer’s, cancer… Follett R, Strezov V (2015) An Analysis of Citizen Science Based Research: Usage and Publication Patterns. PLoS ONE 10(11): e0143687.
- 36. BENDROMIS ŽMONIŲ IR JŲ UNIKALIŲ SUGEBĖJIMŲ JĖGOMIS GELBĖJAM PASAULĮ
- 43. Gal kas pasiūlytų geresnius vertimus „visuomenės mokslui“, „žmonių kompiuterijai“, „debesų biochemijai“, „atviram mokslui“ ?..
- 44. BIOHACKING‘AS „PASIDARYK PATS“ BIO (DIY BIO)
- 45. Kodėl „Pasidaryk Pats“? Ar inovacijoms didesnį potencialą turi „paprasti“ žmonės, ar mokslininkai? Pavojai? Hackeriai ar teroristai ? Kas yra DNR barkodinimas? (DNA barcoding) Kodėl lyginama su asmeninių kompiuterių pradžia? Ką norėtumėt nubiohackinti pirmiausia?
- 46. Kokį vaidmenį biohacking‘as turi visuomenės moksliniam „išprusimui“?
- 48. herocoli.com
- 51. Kam sekvenuoti individualius genomus? Privalumai? Pavojai? Ar visus klausimus atsakys genomo sekos žinojimas? Ar norėtumėt žinoti savo genomo seką?
- 52. OPENSNP
- 54. Ar įdėtumėte savo genomo seką į laisvai prieinamus internetus?
- 55. Dalius !
- 59. Global abundance and comparative distribution of AD/KS sequences.The global abundance (A and C), sample-to-sample variation (B and D), and geographic distribution (E, F, G, and H) of adenylation domains (AD) and ketosynthase domains (KS) were asse... Zachary Charlop-Powers et al. eLife Sciences 2015;4:e05048
- 60. Biomedically relevant natural product hotspots and diversity.Hotspot analysis of natural product biosynthetic diversity to identify samples with a high total proportion of reads corresponding to a natural product family of interest (A and D), the ... Zachary Charlop-Powers et al. eLife Sciences 2015;4:e05048
Editor's Notes
- Global abundance and comparative distribution of AD/KS sequences.The global abundance (A and C), sample-to-sample variation (B and D), and geographic distribution (E, F, G, and H) of adenylation domains (AD) and ketosynthase domains (KS) were assessed by pyro-sequencing of amplicons generated using degenerate primers targeting AD and KS domains found in 185 soils/sediments from around the world. (A and C) Global AD (A) or KS (C) domain diversity estimates were obtained by rarefying the global OTU table (de novo clustering at 95%) for AD and KS sequences and calculating the average Chao1 diversity metric at each sampling depth. (B and D) The ecological distance (i.e., Jaccard dissimilarity) between AD (B) or KS (D) domain populations sequenced from each metagenome was determined as a function of the great circle distance between sample collection sites (km). Insets show local relationships (<500 km) in more detail. (E and F) All sample collection sites are shown on each world map and lines are used to connect sample sites that share at least the indicated fraction (3%, 10%) of AD (E) or KS (F) OTUs. (G and H) Biome-specific relationships within domain OTU populations sequenced from geographically proximal samples assessed by Jaccard similarity. Samples were collected from (G) Atlantic forest, saline or cerrado environments or from the (H) New Mexican desert topsoils or hot springs sediments.DOI: http://dx.doi.org/10.7554/eLife.05048.003
- Biomedically relevant natural product hotspots and diversity.Hotspot analysis of natural product biosynthetic diversity to identify samples with a high total proportion of reads corresponding to a natural product family of interest (A and D), the maximum unique OTUs corresponding to a natural product family of interest (B and D), or the estimated sample biodiversity (C and D). In A and B samples are arranged by longitude and hemisphere as is shown in the Sample Key. (A) For each sample, sequence reads assigned by eSNaPD are expressed as a percentage of total reads obtained for that sample. A sample is designated a hotspot if more than one percent (0.01; horizontal line) of its reads map to a specific gene cluster. Fractional observance data for five representative gene clusters or gene cluster families (zorbamycin, oocydin, tiacumicinB, epoxomicin, glycopeptides) that show significant sample dependent difference in read frequency are shown. (B) Hotspots of elevated gene cluster family diversity can be identified by determining the number of unique OTUs occurring in each sample that, by eSNaPD, map to a natural product gene cluster of interest. Sample specific OTU counts for nocardicin, rifamycin, bleomycin, and daptomycin clusters are shown. Samples containing greater than 50% of the maximum observed OTU value are colored and mapped in (C). OTU diversity measurements do not predict the abundance of a specific cluster in a metagenome [as predicted in (A)], but instead are used to identify locations where the largest number of congener-encoding clusters may be found. These sites are predicted to be most useful for increasing the structural diversity and therefore potential clinical utility of these medically important families of natural products. (C) Estimated diversity of AD/KS reads by sample. AD and KS OTU tables were combined and for each sample the Chao1 diversity metric was calculated at 5000 reads, providing a baseline metric for comparing sample biosynthetic diversity. The average number of unique OTUs observed over 10 rarefactions analyses is shown (also see Supplementary file 7). (D) Hotspot map of samples identified in A, B and C. (E) Representative structures of target molecule families highlighted in A and B.DOI: http://dx.doi.org/10.7554/eLife.05048.004