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The EyeWire Games Begin Feb 13

The EyeWire Games Begin Feb 13 | SynBioFromLeukipposInstitute | Scoop.it
Socrates Logos's insight:

How can we use the collaborative power found on the internet to solve scientific problems? Gamification of science is a potential solution.

*The EyeWire Games begin on Feb 13th*


"The EyeWire Games are 7 days of team competition between Facebook, Reddit, Twitter, Google+ and Team X (Veterans). The team that maps the most 3D neuron volume in one week receives the ultimate reward: neuron naming rights. Your team is the social network where you discovered EyeWire."


http://blog.eyewire.org/the-eyewire-games-begin-feb-13/

"EyeWire is an online, Citizen science, human-based computation game about tracing neurons in the retina. The game is a project developed by MIT and the Max Planck Institute for Medical Research, led by Dr. Sebastian Seung

The goals of the EyeWire project are to identify specific cell types within the known broad classes of retinal cells, and to map the connections between neurons in the retina, which will help to determine how vision works.[2][3] EyeWire is part of a larger effort called WiredDifferently, whose goal is to show that the uniqueness of a person lies in the pattern of connections between their neurons, or their connectome.[4][5]The first immediate goal is to reconstruct the three-dimensional shapes of retinal neurons from two-dimensional images.[6] The second goal is to identify the synapses to determine what the connections between the mapped neurons are. The final goal is to relate the connectivity with the known activity of the neurons." 

http://en.wikipedia.org/wiki/EyeWire

This game is an interesting contribution to the solution of an important question for contemporary science:


*How to use and benefit from collaborative intelligence found in the Cloud for research*? "An important trend is that many people participate in social networks. These platforms provide the potential option of planetary scale connectivity among researchers and the ability to organize research projects solely in the cloud. The availability of high-performing computing resources, such as online cloud computing and storage platforms, grid-enabled platforms and communication channels, provides the context necessary for important innovations in modern science.  As a consequence, social networks provide a context for the enormous amount of data. This dramatically expands our combined brain power, because a group of people is more likely to solve a complex problem (Nielsen).  Moreover, collaboration becomes independent of our physical location, reducing the transaction costs to zero (Treuille).  This new kind of research collaboration has different names such as crowdsourcing or crowdfunding, depending on the type of collaboration. A good example to that effect is the FoldIT and EteRNA games (Cooper, Treuille)." http://bit.ly/TtuNOP


See also these interesting references about *collaborative science*:

Solve for X: Adrien Treuille on collaborative sciencehttp://bit.ly/ziK0YJ  and Michael Nielsen, Reinventing Discovery, TheNew Era of Networked Science, Princeton University Press 2012.“Michael Nielsen argues that we are living at the dawn of the mostdramatic change in science in more than 300 years. This is beingdriven by powerful new cognitive tools, enabled by the internet, whichare greatly accelerating scientific discovery....this is the firstbook about something much more fundamental how the internet istransforming the nature of our collective intelligence and how weunderstand the world” (cover text)http://amzn.to/H74pZS
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Searching big data faster

Searching big data faster | SynBioFromLeukipposInstitute | Scoop.it
Searching big data faster
Socrates Logos's insight:

"Theoretical analysis could expand applications of accelerated searching in biology, other fields."

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So You Think You Can Synthesise - Series Finale

The Macquarie_Australia iGEM Team uses the popular reality format to inform and engage the public with our project The Solar Synthesisers. Our Project aims ...
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Researchers Want to Inject 3D Printed Microfish Into Your System

Researchers have developed a 3D printing technology that can produce microfish (fish-shaped microrobots) to be used for medical purposes.
Socrates Logos's insight:

Is this the future of medicine?

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Generation of a synthetic GlcNAcylated nucleosome reveals regulation of stability by H2A-Thr101 GlcNAcylation

Nature Communications | doi:10.1038/ncomms8978
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Principles of Synthetic Biology

Principles of Synthetic Biology | SynBioFromLeukipposInstitute | Scoop.it
Learn how to engineer biological systems and program organisms to perform novel tasks.
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The emergence of commodity-scale genetic manipulation.

Since the 1970s technological advancements in the fields of synthetic biology and metabolic engineering have led to a dramatic reduction in both time and cost required for generating genomic mutations in a variety of organisms. The union of genomic editing machinery, DNA inkjet printers, and bioinformatics algorithms allows engineers to design a library of thousands of unique oligos as well as build and test these designs on a ∼2 months time-scale and at a cost of roughly ∼0.3 cents per base pair. The implications of these capabilities for a variety of fields are far-reaching, with potential impacts in defense, agricultural, human health, and environmental research. The explosion of synthetic biology applications over the past two decades have led many to draw parallels between biological engineering and the computer sciences. In this review, we highlight some important parallels between these fields and emphasize the importance of engineering design strategies.
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12 Months in Synthetic Biology — PLOS Synbio Field Reports

12 Months in Synthetic Biology — PLOS Synbio Field Reports | SynBioFromLeukipposInstitute | Scoop.it
A brief review, a thank you, and an opportunity
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Here's why DNA could eventually replace hard drives

Here's why DNA could eventually replace hard drives
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Synthetic Biology an Engineering Perspective of Learning From Nature.

This work was done by members of the lab, The NanoBiotechnology Research Group, as an effort to generally explain some of the research proyects currently ...
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Synthetic biology: a new tool for the trade

Protein-protein interactions are fundamental to many biological processes. Yet the weak and transient non-covalent bonds that characterize most protein-protein interactions found in nature impose limits on many bioengineering experiments. Here a new class of genetically encodable peptide-protein pairs—isopeptag-N/pilin-N, isopeptag/pilin-C, and SpyTag-SpyCatcher—that interact via autocatalytic intermolecular isopeptide bond formation is described. Reactions between peptide-protein pairs are specific, robust, orthogonal, and able to proceed under most biologically relevant conditions both in vitro and in vivo. As fusion constructs they provide a handle on molecules of interest, both organic and inorganic, that can be grasped with an iron grip. Such stable interactions provide robust post-translational control over biological processes, and open new opportunities in synthetic biology for engineering programmable and self-assembling protein nanoarchitectures.
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Bioinformatics Methods and Tools to Advance Clinical Care. Findings from the Yearbook 2015 Section on Bioinformatics and Translational Informatics.

Bioinformatics Methods and Tools to Advance Clinical Care
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Minority rules: Scientists discover tipping point for the spread of ideas

Minority rules: Scientists discover tipping point for the spread of ideas | SynBioFromLeukipposInstitute | Scoop.it
Minority rules: Scientists discover tipping point for the spread of ideas
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Harnessing Synthetic Biology to Combat Bacterial Pathogens - DVIDS (press release)

Harnessing Synthetic Biology to Combat Bacterial Pathogens - DVIDS (press release) | SynBioFromLeukipposInstitute | Scoop.it
Developed in the 1940s, antibiotics are powerful medicines used in the treatment and prevention of bacterial infection to save lives.
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Accurate DNA Assembly and Genome Engineering with
Optimized Uracil Excision Cloning | CodonOps

Accurate DNA Assembly and Genome Engineering with<br/>Optimized Uracil Excision Cloning | CodonOps | SynBioFromLeukipposInstitute | Scoop.it
Ana Mafalda Cavaleiro, Se Hyeuk Kim, Susanna Seppälä, Morten T. Nielsen and Morten H. H. Nørholm
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Biohackers gear up for genome editing

Biohackers gear up for genome editing | SynBioFromLeukipposInstitute | Scoop.it
Amateurs are ready and able to try the CRISPR technique for rewriting genes.
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Synthetic Biology Could Let Us Recycle Human Waste For Space Travel - The Escapist

The Escapist
Synthetic Biology Could Let Us Recycle Human Waste For Space Travel
The Escapist
One day, astronauts might recycle urine and carbon dioxide into highly necessary food and medicines for space missions.
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Virginia Tech-developed synthetic biology tool transitions to private sector

Virginia Tech-developed synthetic biology tool transitions to private sector | SynBioFromLeukipposInstitute | Scoop.it
GenoCAD, a computer-assisted design environment for synthetic biology developed at Virginia Tech, has transitioned to GenoFAB LLC to engage new users and create new opportunities for innovation.
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Jamie Metzl discusses human genetic engineering

Jamie Metzl discusses human genetic engineering
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Cambridge Synthetic Biology Meetup

Café Synthetique

Monday, Aug 24, 2015, 6:00 PM

Location details are available to members only.

26 Members Attending

Beer and Biosensors: join us for a fun and informative evening exploring sensors both genetic and electronic. • "A (very) brief introduction to sensors" • Beer Sensors (hands-on activity for everyone) • "Sensors, beer and brewing: what do the results mean?" Paul Grant and James Godman,  University of Cambridge and Hop Back Brewery Discussion throug...

Check out this Meetup →

Beer and Biosensors: join us for a fun and informative evening exploring sensors both genetic and electronic.
• "A (very) brief introduction to sensors"
• "Designing and prototyping gen
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New DNA code makes synthetic proteins

New DNA code makes synthetic proteins | SynBioFromLeukipposInstitute | Scoop.it
The world's first functioning organism with an expanded DNA alphabet has now met another milestone in artificial life: making proteins that don't exist in nature.

The organism, a bacterium created by scientists at The Scripps Research Institute, incorporates two synthetic DNA letters, called X and Y, along with the four natural ones, A, T, C and G. A team led by Floyd Romesberg published a study last year demonstrating that the organism, an engineered strain of E. coli, can function and replicate with the synthetic DNA.

Synthorx, a biotech startup that licensed the technology from Scripps, has now used the bacterium to produce proteins incorporating artificial amino acids, the building blocks of proteins. These are placed at precisely specified intervals along the protein sequence, obeying the code of the expanded DNA alphabet.
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Translational synthetic biology

Translational synthetic biology | SynBioFromLeukipposInstitute | Scoop.it
Synthetic biology is a recent scientific approach towards engineering biological systems from both pre-existing and novel parts. The aim is to introduce computational aided design approach in biology leading to rapid delivery of useful applications. Though the term reprogramming has been frequently used in the synthetic biology community, currently the technological sophistication only allows for a probabilistic approach instead of a precise engineering approach. Recently, several human health applications have emerged that suggest increased usage of synthetic biology approach in developing novel drugs. This mini review discusses recent translational developments in the field and tries to identify some of the upcoming future developments.
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Transforming exoelectrogens for biotechnology using synthetic biology

Transforming exoelectrogens for biotechnology using synthetic biology | SynBioFromLeukipposInstitute | Scoop.it
Extracellular electron transfer pathways allow certain bacteria to transfer energy between intracellular chemical energy stores and extracellular solids through redox reactions. Microorganisms containing these pathways, exoelectrogens, are a critical part of microbial electrochemical technologies that aim to impact applications in bioenergy, biosensing, and biocomputing. However, there are not yet any examples of economically viable microbial electrochemical technologies due to the limitations of naturally-occurring exoelectrogens. Here we first briefly summarize recent discoveries in understanding extracellular electron transfer pathways, then review in-depth the creation of customized and novel exoelectrogens for biotechnological applications. We analyze engineering efforts to increase current production in native exoelectrogens, which reveals that modulating certain processes within extracellular electron transfer are more effective than others. We also review efforts to create new exoelectrogens and highlight common challenges in this work. Lastly, we summarize work utilizing engineered exoelectrogens for biotechnological applications and the key obstacles to their future development. Fueled by the development of genetic tools, these approaches will continue to expand and genetically modified organisms will continue to improve the outlook for microbial electrochemical technologies.
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New Vaccine For Chlamydia to Use Synthetic Biology

New Vaccine For Chlamydia to Use Synthetic Biology | SynBioFromLeukipposInstitute | Scoop.it
SynbiCITE funds Prokarium to complete pre-clinical development
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