The document discusses how new developments on the web can help scientists share information more openly and collaboratively. It describes how tools like blogs, wikis, and social networks allow researchers to openly discuss data, findings, and ideas. As an example, it highlights how Chinese scientists rapidly shared genomic data on the 2011 E. coli outbreak online, enabling global crowdsourcing efforts that helped analyze and understand the outbreak more quickly. The document advocates for open science through open access, open source, and open data practices to accelerate discovery and make science fairer and more impactful.
Presentation at "Strategies for managing social media research data", Feb 12, 2016. Cambridge. http://www.data.cam.ac.uk/events/strategies-managing-social-media-research-data
2014 CrossRef Annual Meeting Keynote: Ways and Needs to Promote Rapid Data Sh...Crossref
Keynote address: "Ways and Needs to Promote Rapid Data Sharing" by Laurie Goodman of GigaScience.
Data is the base upon which all scientific discoveries are built, and data availability speeds the rate at which discoveries are made. Given that the overall goal for research is to improve human health and our environment, waiting to release data until after the first publication (sometimes taking years) is unacceptable. There are myriad issues that impede researchers from openly, and most importantly, rapidly sharing data, including lack of incentives: no credit, limited funding benefits, and little impact on career advancement; and cultural issues: the fear of being scooped. However, scientific publishers —the communicators of science and a key mechanism by which a researcher’s productivity is measured— can, and should, play a central role in promoting data sharing. Data citation and publication are just some of the ways we can support and encourage researchers who share data. Here, I will provide examples to help make clear the need for publishers to play an active role in this process and provide potential ways to facilitate our ability to promote open and rapid data sharing. This is not easy; but it is essential.
Scott Edmunds from GigaScience on 'Publishing in the Open Data Era", at the "Open, Crowdsource and Blockchain Science!" hangout at Hackerspace.sg, 23rd March 2015
April 14 2011 talk by Rosie Redfield at the University of Louisville. Title" What I learned from #arseniclife: communication and quality control in science
Presentation at "Strategies for managing social media research data", Feb 12, 2016. Cambridge. http://www.data.cam.ac.uk/events/strategies-managing-social-media-research-data
2014 CrossRef Annual Meeting Keynote: Ways and Needs to Promote Rapid Data Sh...Crossref
Keynote address: "Ways and Needs to Promote Rapid Data Sharing" by Laurie Goodman of GigaScience.
Data is the base upon which all scientific discoveries are built, and data availability speeds the rate at which discoveries are made. Given that the overall goal for research is to improve human health and our environment, waiting to release data until after the first publication (sometimes taking years) is unacceptable. There are myriad issues that impede researchers from openly, and most importantly, rapidly sharing data, including lack of incentives: no credit, limited funding benefits, and little impact on career advancement; and cultural issues: the fear of being scooped. However, scientific publishers —the communicators of science and a key mechanism by which a researcher’s productivity is measured— can, and should, play a central role in promoting data sharing. Data citation and publication are just some of the ways we can support and encourage researchers who share data. Here, I will provide examples to help make clear the need for publishers to play an active role in this process and provide potential ways to facilitate our ability to promote open and rapid data sharing. This is not easy; but it is essential.
Scott Edmunds from GigaScience on 'Publishing in the Open Data Era", at the "Open, Crowdsource and Blockchain Science!" hangout at Hackerspace.sg, 23rd March 2015
April 14 2011 talk by Rosie Redfield at the University of Louisville. Title" What I learned from #arseniclife: communication and quality control in science
Scott Edmunds talk at G3 (Great GigaScience & Galaxy) workshop: Open Data: th...GigaScience, BGI Hong Kong
Scott Edmunds talk at G3 (Great GigaScience & Galaxy) workshop: Open Data: the reproducibility crisis, and the need for transparency. Melbourne University 19th September 2014
"Leaders and Laggards in the preservation of raw biomedical research data" presented at NEDCC 2010, The Tectonics of Digital Curation
A Symposium on the Shifting Preservation and Access Landscape
Amy Kohn is a Senior Planner at Goody Clancy, an architecture, planning and preservation firm in Boston. In this presentation she outlines her work in the Shirley Avenue Neighborhood of Revere, MA.
Presentation for The Association of Research Ethics Committees' University Seminar on 17 February 2011, London, on 'Digitisation: Big Word, Big Impact'.
Presentation to Google EU, Chaussee d'Etterbeek 180, 1040 Brussels, Belgium, 11 April 2011, based on research supported by the Oxford Internet Survey, eHarmony, and the EC’s Socio-Economic Services for European Research Projects (SESERV).
Scott Edmunds talk at G3 (Great GigaScience & Galaxy) workshop: Open Data: th...GigaScience, BGI Hong Kong
Scott Edmunds talk at G3 (Great GigaScience & Galaxy) workshop: Open Data: the reproducibility crisis, and the need for transparency. Melbourne University 19th September 2014
"Leaders and Laggards in the preservation of raw biomedical research data" presented at NEDCC 2010, The Tectonics of Digital Curation
A Symposium on the Shifting Preservation and Access Landscape
Amy Kohn is a Senior Planner at Goody Clancy, an architecture, planning and preservation firm in Boston. In this presentation she outlines her work in the Shirley Avenue Neighborhood of Revere, MA.
Presentation for The Association of Research Ethics Committees' University Seminar on 17 February 2011, London, on 'Digitisation: Big Word, Big Impact'.
Presentation to Google EU, Chaussee d'Etterbeek 180, 1040 Brussels, Belgium, 11 April 2011, based on research supported by the Oxford Internet Survey, eHarmony, and the EC’s Socio-Economic Services for European Research Projects (SESERV).
Due Diligence for Domain Names - With Steve Jonesdomainsherpa
Watch the full show: http://domainsherpa.com/steve-jones/
In this show, Steve Jones walks us through the 11 steps of his process for domain name due diligence, which will keep you from buying a domain name that infringes on someone else's trademarks, that is stolen, or that was previously used for an unscrupulous purpose and might be on blacklists.
Phoenix Publishing & Book Promotion AccomplishmentsLaura Orsini
As we celebrate reaching 500 members in the Phoenix Publishing & Book Promotion Meetup, here's a look at some of the many accomplishments of our members.
Presentation to ISOC INET Qatar Conference, 27 November 2012, focusing on the Middle East and North African in a Global Perspective. Based on the Global Values Project at the OII, University of Oxford.
From Deadly E. coli to Endangered Polar Bear: GigaScience Provides First Cita...GigaScience, BGI Hong Kong
Slides from GigaScience press-conference at BGI's Bio-IT APAC meeting on the GigaScience website launch and release of first unpublished animal genomes released from database. Genomes include polar bear, penguin, pigeon and macaque. 6th July 2011
GigaScience Editor-in-Chief Laurie Goodman's talk at the International Conference on Genomics pre-conference press-session on the release of new unpublished datasets, and a new look beta version of their database: GigaDB.org
Reproducible method and benchmarking publishing for the data (and evidence) d...GigaScience, BGI Hong Kong
Scott Edmunds presentation on: Reproducible method and benchmarking publishing for the data (and evidence) driven era. The Silk Road Forensics Conference, Yantai, 18th September 2018
Online information 2010_track_two_final_correctedBasset Hervé
Must Libraries Fully Engage with Web 2.0 Without Discernment? The Science Business Case
According some professional magazines, Scientists are leader of the Web 2.0 pack. Many online services appeared on the market for a few years and these technologies would reshape the future of research and science communication. But, at the time being, it is not obvious whether Scientists have really embraced these new services on their daily routine, as the adoption seems to be low. The question for science libraries is to know f they have to invest on wikis and other blogs. How can they choose appropriate tools among dozens of web 2.0's applications? Is it so critical to maintain a presence on social networks? Libraries strategy must consider real impact of web 2.0 in their specific environment before to engage their energy and time.
Created as a podcast for the Dental Informatics Online Community [http://www.dentalinformatics.com/], this is a snapshot / overview of social technologies (web 2.0) used by and for science researchers, bioinformaticians and health informatics geeks. These include those used to build their communities, ways they have engaged with broader communities, examples of research opportunities, and crowdsourcing, as well as much more.
The Evolution of e-Research: Machines, Methods and MusicDavid De Roure
David De Roure's Inaugural Lecture on 28th October at Oxford e-Research Centre, University of Oxford, UK
10 years ago we saw a few early adopters of e-Science technology; now we see acceleration of research through broader adoption and sharing of tools, techniques and artefacts, both for 'big science' and the 'long tail scientist'.
Will this incremental trend continue or are we seeing glimpses of a phase change ahead, where researchers harness these emerging digital capabilities to address research questions in ways that simply were not possible before?
This talk will describe three generations of e-Research, using the myExperiment social website as a lens to glimpse future research practice, and focusing on a web-scale computational musicology project as an illustration of 3rd generation thinking.
Also available from http://wiki.myexperiment.org/index.php/Presentations
Scott Edmunds: GigaScience - a journal or a database? Lessons learned from th...GigaScience, BGI Hong Kong
Scott Edmunds talk at the HUPO congress in Geneva, September 6th 2011 on GigaScience - a journal or a database? Lessons learned from the Genomics Tsunami.
Scott Edmunds talk on GigaScience Big-Data, Data Citation and future data handling at the International Conference of Genomics on the 15th November 2011.
The ContentMine system (Open Source) can search EuropePMC and download hundreds of articles in seconds. These can be indexed by AMI dictionaries allowing a rapid evaluations and refinement of the search
Keynote talk to LEARN (LERU/H2020 project) for research data management. Emphasizes that problems are cultural not technical. Promotes modern approaches such as Git / continuousIntegration, announces DAT. Asserts that the Right to Read in the Right to Mine. Calls for widespread development of contentmining (TDM)
Scott Edmunds Lightning talk: Experiences of NGOScott Edmunds
Scott Edmunds Lightning talk at "Unlocking the Value of Open Data"conference: "Experiences of NGO" (with thanks to Justice Centre Hong Kong). 9th June 2018 at HKU.
Scott Edmunds slides for class 8 from the HKU Data Curation (module MLIM7350 from the Faculty of Education) course covering open science and data publishing
Emblematic education to know thy DNA? TEDxEduHKScott Edmunds
Scott Edmunds TEDxEduHK slides on the Bauhinia Genome project: Emblematic education to know thy DNA? Presented on 8th March 2017 at EduHK https://www.ted.com/tedx/events/21414
Scott Edmunds slides for class 8 from the HKU Data Curation (module MLIM7350 from the Faculty of Education) course covering science data, medical data and ethics, and the FAIR data principles.
Scott Edmunds slides from class 7 from the HKU Data Curation (module MLIM7350 from the Faculty of Education) course covering open data policy and practice, and the Hong Kong context.
Introductory slides for the MakerBay/ODHK #ZikaHackathonScott Edmunds
Introductory slides for the #ZikaHackathon at MakerBay, outlining why this is an open data problem, and what we as makers and open data users can potentially do to help tackle the Zika crisis.
BauhinaGenome.hk slides used for a school visit to talk DNA, genomics and Bauhinia to year 6 (11-12 year old) science class at the CIS school in Hong Kong.
A brief sneak preview of Bauhinia Genome to the Community Genomics track at the 10th International cConference on Genomics in Shenzhen, 24th October 2015
Palestine last event orientationfvgnh .pptxRaedMohamed3
An EFL lesson about the current events in Palestine. It is intended to be for intermediate students who wish to increase their listening skills through a short lesson in power point.
This is a presentation by Dada Robert in a Your Skill Boost masterclass organised by the Excellence Foundation for South Sudan (EFSS) on Saturday, the 25th and Sunday, the 26th of May 2024.
He discussed the concept of quality improvement, emphasizing its applicability to various aspects of life, including personal, project, and program improvements. He defined quality as doing the right thing at the right time in the right way to achieve the best possible results and discussed the concept of the "gap" between what we know and what we do, and how this gap represents the areas we need to improve. He explained the scientific approach to quality improvement, which involves systematic performance analysis, testing and learning, and implementing change ideas. He also highlighted the importance of client focus and a team approach to quality improvement.
Synthetic Fiber Construction in lab .pptxPavel ( NSTU)
Synthetic fiber production is a fascinating and complex field that blends chemistry, engineering, and environmental science. By understanding these aspects, students can gain a comprehensive view of synthetic fiber production, its impact on society and the environment, and the potential for future innovations. Synthetic fibers play a crucial role in modern society, impacting various aspects of daily life, industry, and the environment. ynthetic fibers are integral to modern life, offering a range of benefits from cost-effectiveness and versatility to innovative applications and performance characteristics. While they pose environmental challenges, ongoing research and development aim to create more sustainable and eco-friendly alternatives. Understanding the importance of synthetic fibers helps in appreciating their role in the economy, industry, and daily life, while also emphasizing the need for sustainable practices and innovation.
How to Create Map Views in the Odoo 17 ERPCeline George
The map views are useful for providing a geographical representation of data. They allow users to visualize and analyze the data in a more intuitive manner.
Unit 8 - Information and Communication Technology (Paper I).pdfThiyagu K
This slides describes the basic concepts of ICT, basics of Email, Emerging Technology and Digital Initiatives in Education. This presentations aligns with the UGC Paper I syllabus.
MARUTI SUZUKI- A Successful Joint Venture in India.pptx
BGI training lecture: Scott Edmunds - Science 2.0, why new developments on the web will make you a better scientist!
1. Scott Edmunds Science 2.0 and beyond: how new developments on the web will make you a better scientist! ? (“Everything you wanted to know about social networks but were too afraid to ask…”)
2. What is? “Science 2.0 uses the technologies of web 2.0 to conversations between researchers, let them discuss the data and connect it with other data that might be relevant. Blogs, wikis and such permit users to make information available in ways that create a conversation. Web 2.0 permits scientists to create digitized conversations that provide context for the data.” (+ Semantic Web)
4. Open-Science For Against Allows crowdsourcing. Better for Science. Fairer (public money). More use (=citations) Scooping? Patents/publications? Time/effort. Data deluge?
5. Open-Science Sharing Detailed Research Data Is Associated with Increased Citation Rate. Piwowar HA, Day RS, Fridsma DB (2007) PLoSONE 2(3): e308. doi:10.1371/journal.pone.0000308
6. Daphnia Genome Consortium wFleabase: Mar 2006 Genome release: July 2007 Genome Published: Feb 2011 >58 companion papers https://daphnia.cgb.indiana.edu/Publications
13. Online sources of scientific information Databases/portals of traditional media Blogs (networks/aggregators) Social Networks: Open Notebook Science Wikis Forums/Other
16. Science Blogs Blog Aggregators: Science Blogging: http://scienceblogging.org/ Research Blogging: http://researchblogging.org/ Honorable Mention: NCBI ROFL: http://blogs.discovermagazine.com/discoblog/category/ncbi-rofl/ Urologe A. 2005 Dec;44(12):1473-5. Inappropriate use of a titanium penile ring. An interdisciplinary challenge for urologists, jewelers, and locksmiths. Wiedemann A, Müller H, Rabs U. Psychol Rep. 2011 Feb;108(1):43-4. National anthems and suicide rates. Lester D, Gunn JF 3rd.
18. Using Twitter for Science James Darcy: “Researchers need to get themselves onto Twitter pronto because it is fast becoming the place to find out the breakthroughs in your research field.” Jonathan Eisen:“To do science, you have to know what’s going on…I found Twitter…most useful for becoming informed of what other people are doing in science.” “Twitter and other social networks such as FriendFeedenable real-time highlighting and ranking and tracking of what’s going on in the world of science.” “Twitter is also useful for networking and finding collaborators.” http://deepseanews.com/2010/08/what-is-twitter-and-why-scientists-need-to-use-it/
19. Using Twitter for Science Twitter is: Microblog: max 140 characters (“The SMS of the Internet”) Global: 200m users, 190m tweets (1.6b searches)/day. Fast: 2,200 new tweets/s! (can fluctuate 3-4x) Instant: view global trends/keywords with hashtags #
20. Using Twitter for Science Twitter is good for: Eavesdropping: follow informative people to get information and learn Dialogue: exchange, discuss, and debate information Broadcast: used by news organizations and businesses to inform audience about news or products/services Data collection: e.g. using Tweeting fishermen to monitor fish populations. Accidental journalism: e.g. landing on Hudson river, Michael Jackson death, Japan Earthquake Mindcasting: following a single story or topic, with links, for a period of time, e.g. like my ongoing coverage of the #Ecoliat @BGI_Events
22. Using Twitter for Science How it works (‘twetiquette’): People will only read your messages if you have followers or RT’s (re-tweets), so: Keep it interesting. Keep it short (<140 characters) Use links and link-shorteners (bit.ly/t.co/owl.ly) Keep it interactive (2-way). Use hashtags and twitter ID’s (@xxx) Have regular content (RT’s). Intersperse tweets. Think about timezones (Europe=late afternoon, US=night).
24. Using Twitter for Science Conferences ISMB2010 twitter activity Tweets at the ISMB 2010 meeting ISMB2010 comments July 9-13
25. Using Twitter for Science Conferences Follow the meeting from home: Conference: Twitter Feed: Hashtag: ASHG @geneticssociety #ICHG2011 Society for Neuroscience @SfNtweets #SfN10/#SfN11 Plant and Animal Genomes @PAGmeeting #PAG ISMB @iscb #ISMB ICSB @ICSB_2011 #ICSB2011HD AACR @AACR #AACR
26. Using Twitter for Science Conferences http://www.slideshare.net/GigaScience/rick-stevens-prospects-for-a-systematic-exploration-of-earths-microbial-diversity
27. Using Twitter for Science Conferences http://www.youtube.com/watch?v=AlYFa83aCWA
31. Further reading: Twitter: A gentle introduction to Twitter for the apprehensive academic http://deevybee.blogspot.com/2011/06/gentle-introduction-to-twitter-for.html What is Twitter and Why Scientists Need To Use It. http://deepseanews.com/2010/08/what-is-twitter-and-why-scientists-need-to-use-it/ Science journalism: Breaking the convention? http://www.nature.com/news/2009/090624/full/4591050a.html Analysing the ISMB 2010 meeting using R http://nsaunders.wordpress.com/2010/07/20/analysing-the-ismb-2010-meeting-using-r/ Sharing slides from a presentation plus how to do this w/ Slideshare http://www.microbe.net/2011/06/15/sharing-slides-from-a-presentation-plus-how-to-do-this-w-slideshare/ Slideshare:
32. Why is this important to BGI? Flickr cc: opensourceway
33. We produce data. (LOTS) 1 IlluminaHiSeq 2000 (+Truseq upgrade) = 600Gb/run (12 days) X 128 Hiseq= 6Tb/day = >2Pb/year = ~ 2000 Human Genomes/day
34. Coming soon… Large-Scale Data Journal/Database In conjunction with: Editor-in-Chief: Laurie Goodman, PhD Editor: Scott Edmunds, PhD Assistant Editor: Alexandra Basford, PhD www.gigasciencejournal.com
35. Our first DOI: To maximize its utility to the research community and aid those fighting the current epidemic, genomic data is released here into the public domain under a CC0 license. Until the publication of research papers on the assembly and whole-genome analysis of this isolate we would ask you to cite this dataset as: Li, D; Xi, F; Zhao, M; Liang, Y; Chen, W; Cao, S; Xu, R; Wang, G; Wang, J; Zhang, Z; Li, Y; Cui, Y; Chang, C; Cui, C; Luo, Y; Qin, J; Li, S; Li, J; Peng, Y; Pu, F; Sun, Y; Chen,Y; Zong, Y; Ma, X; Yang, X; Cen, Z; Zhao, X; Chen, F; Yin, X; Song,Y ; Rohde, H; Li, Y; Wang, J; Wang, J and the Escherichia coli O104:H4 TY-2482 isolate genome sequencing consortium (2011) Genomic data from Escherichia coli O104:H4 isolate TY-2482. BGI Shenzhen. doi:10.5524/100001 http://dx.doi.org/10.5524/100001 To the extent possible under law, BGI Shenzhen has waived all copyright and related or neighboring rights to Genomic Data from the 2011 E. coli outbreak. This work is published from: China.
36. E. Coli #crowdsourcing: the first tweenome? “On 2 June, Chinese scientists announced that they had deciphered the microbe's entire 5.2-million-base-pair genome and immediately made the DNA sequence available for researchers to download. Scores of scientists all over the world started poring over the data, assembling sequence fragments generated by BGI into a coherent genome, and comparing it to reference genomes for E. coli and other bacteria.” “The two announcements came on the second day of a U.K. meeting on applied bioinformatics and public health microbiology. Speakers and other attendees immediately started working on annotating the bacterial sequence provided by BGI. “In less than 24 hours we got the reads, the assembly, and the annotation. A good case study,” blogged Marina Manrique of era7 bioinformatics, a Spanish company that quickly did an automated analysis of the E. coli's genome.“
40. E. Coli #crowdsourcing: the first tweenome? “The way that the genetic data of the 2011 E. coli strain were disseminated globally suggests a more effective approach for tackling public health problems. Both groups put their sequencing data on the Internet, so scientists the world over could immediately begin their own analysis of the bug's makeup. BGI scientists also are using Twitter to communicate their latest findings.” “German scientists and their colleagues at the Beijing Genomics Institute in China have been working on uncovering secrets of the outbreak. BGI scientists revised their draft genetic sequence of the E. coli strain and have been sharing their data with dozens of scientists around the world as a way to "crowdsource" this data. By publishing their data publicy and freely, these other scientists can have a look at the genetic structure, and try to sort it out for themselves.”