Author: Jonny Hankins

Jonathan's Author Bio: Co Editor of the International Handbook on Responsible Innovation, and author of Responsible Innovation, A Narrative Approach, Jonny works for the Bassetti Foundation in Milan publishing articles on innovation and responsibility on their website and in academic and trade journals and also blogging about his interests. He is on the editorial board of the Journal of Responsible Innovation and member of the the Virtual Institute of Responsible Innovation

What is Synthetic Biology?

4 Replies Jonny Hankins

In my work I write about nanotechnology and synthetic biology and over the next couple of weeks I would like to describe what is happening in these high technology fields. I start with synthetic biology. I am not a scientist and cannot give any form of technical description of how they do what they do. I can present a kind of sketch though of what they are doing and their aims.

The first question then must be what is synthetic biology? Well it is something that can be described as engineering, biology, genetics or nanotechnology, the most common description is that of applying the concept of engineering to biological organisms. But what does that actually mean?

Well, synthetic biology aims to design and engineer biologically based parts, novel devices and systems as well as redesigning existing, natural biological systems. Practitioners use a systems approach, an organism is seen as a whole, or a system, and can therefore be engineered, very much like a machine.

you see, kid's stuff

The system is reduced to biological parts (bioparts) whose function is expressed in terms of input/output characteristics. Once these parts have been described in terms of their function, isolated, standardised and syntheticaly reproduced, they can then be combined to from new organisms, very much in the way that an engineer would build a machine using standard devices built from standard parts. It is just that they are parts of a living organism.

These standard parts are defined by their DNA, and this can be manipulated in order to make the perfect part for the perfect device. Parts of the DNA can be removed and synthetic pieces used to replace them. Create the right part that does the right job, put in it a carrier cell (known as chassis) and Bob’s your Uncle, you can start to construct your organism.

The Biobricks Foundation is a not for profit organization that aims to keep a register of these standard parts, maintaining open access and promoting technical standardization, something that is seen as holding the key to the further development of synthetic biology.

Obviously to do all of the above you require technical expertise, the process requires computational modeling in order to analyze the complexities of biological entities and to predict system performance. You require DNA sequencing in order to describe the genome and then of course DNA synthesis, to re-produce either part of or the entire genome itself.

But what are the potential areas of application for this technology, and what can they actually do now?

One of the main fields is undoubtedly medicine. Drugs can be produced that are more effective or have fewer or even no side effects, as the genomes of their active components can be adjusted and synthesized. An example is the development of a synthetic version of the anti-malarial drug Artermisinin that could be industrially and cheaply mass produced, and in the near future antibiotics could become much more efficient.

Another existing application is water that changes colour when in contact with different polluting agents making them instantly recognizable. Switches already exist that react to certain types of input. An example could be a cell that is part of a person’s body that reacts to the stimulus of a certain chemical that in turn stimulates the production of another. Imagine for example a device that reacts to a chemical produced by a cancerous cell. This input causes a reaction that produces another chemical to counteract this presence. All working naturally using the body’s energy to function.

Other developments involve the energy sector, the production of plants for bio mass that are not as wasteful as those used today and even the development of synthetic aviation fuels.

In other fields a synthetic form of the silk produced by the Golden Orb spider is under development. This is an extremely strong, fine and lightweight material that could lead the way towards new specialist engineering materials.

They are even working on living computer memory, and  this article describes breakthroughs and results in DNA computing.

Well this is nothing but reasonable, my memory lives in my brain and the memory of my ancestors in my DNA, and now they have the technology to read it and even change it, so why not use it in a computer?

I have written several articles on this and other related topics on the Bassetti Foundation website, and as I said I am no scientist, so all comments and criticism invited and accepted.

A Bad Memory Erasing Pill

6 Replies Jonny Hankins

The February issue of Wired magazine contained an article about an interesting medical breakthrough related to memory. Scientists working on the development of a pill that can erase bad memories have achieved success in laboratory rats.

memory erasing pill

Bad memories, a thing of the past?

It is a long and detailed article, but I will try to summarize it in a few sentences. Memories are stored in different parts of the brian, emotions in one part, visuals in another etc. In order to remember something a sort of chain must be formed that link the separate parts of the memory, a chain formed by protein. If you can block the protein you can block access to the memory.

Scientists have been experimenting for decades to try and find a compound that can do this, and recently seem to have found one that works on rats. The experiment is relatively simple, the rats are exposed to series that they learn to recognize, an example might be a series of musical notes followed by a painful electric shock. As soon as the rats hear the first note in the series they get scared and agitated. Administer the compound and the association is lost, you can play the series and the rats no longer remember the consequences until BANG, the shock arrives.

Cruel but bearing important consequences, if the links in the chain can be broken then the memory is not cancelled but the individual no longer has access to it.

As I said above different parts of the memory are stored in different places, so the hope is that different compounds will be able to delete different aspects of painful memories. One might close access to the memory of the scent of an ex girlfriend who left you for your best mate, or the pain experienced in an accident, or the vision of your dog jumping out of your third floor bedroom window while chasing a ball that you accidentally threw too hard for him to catch, or other such traumas.

Talk is of selected memory loss by pill, but of course this is far in the future if ever at all, but the very prospect raises some interesting ethical dilemmas. We are who we are by experience. I don’t play with knives; I have a scar with 7 stitches in my hand to remind me why, but even without it the memory of a Christmas Eve trip to Wythenshawe Hospital lingers on.

And having seen various governments conduct more than questionable research on their own populations (and others) and I am not just talking about despot regimes but the very birth states of democracy themselves as this apology given by President Obama demonstrates, I sincerely question the ethics behind such a development.

So the question is this, are we seeing a great medical and technological breakthrough, a leap in human advancement, or the creation of another dangerous tool once it gets into the wrong hands?

How to proceed in the age of big data?

4 Replies Jonny Hankins

A couple of weeks ago I read an article in the New York Times about the age of big data, and today at a science and technology conference I got into a conversation about the same thing with a US public health official.

Much has been written (and I am a guilty party) about Google’s quest for information, including allegations of infringements of privacy etc, but not all of this capability should be seen in a negative light. I would like to give you a few examples of why.

A wealth of data

Google collect all of the search terms used by every user and categorize them. Let’s take a hypothetical situation. You are director of a large hospital inManchester. What can Google tell you about your job? Well probably a lot, let’s say that this week there is an enormous peak in the search terms “Flu symptoms” used across the Greater Manchester area, or “rash on back and neck”. Indirectly the knowledge of these search trends tells you that you should prepare your hospital, because late next week you will have a massive influx of patients with the Flu or some other contagious disease as it takes hold of the population.

This information is potentially lifesaving, as one of the main problems with epidemics is they come out of nowhere and so health centres are not properly prepared.

Search terms can also give an indication of how the housing market will behave too, with a rise in searches for houses in a certain area being reflected 6 months later in new sales. The type of house searched could also improve planning, as developers would see what people were looking for and where.

Analysts and programmers are currently working on how to expand on the simple examples above using search terms as wider indicators, a system called ‘sentiment analysis’ looks particularly promising.

This form of analysis looks at terms used during on line communication and categorizes them in terms of their sentiments. The logic is that in an area that is prospering terms will be generally positive, but in an area that is threatened by demise, such as the closure of industry or other societal problems, the terms will differ. This is not dissimilar to the conversation analysis sociologists use to obtain a person’s own sentiments about their position in life, with their true feelings reflected in the terms they use without thought. The hope is that an accurate analysis of this type might signal unfolding problems before they become a reality so that action can be taken in specific areas to avoid social breakdown.

I have addressed these issues in more depth on the Bassetti Foundation website, but want to conclude by saying the following; in my posts I have often raised the issue of data collection as a problem, and collection of personal data for advertising or any other purpose for that matter does raise serious ethical issues, but here Google et al could be sitting on a mine of extremely useful and possibly globally important data if the technology and political will is developed to use it correctly.