links for 2009-12-14
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"Cenosillicahobia – fear of an empty glass"
Hacking microscopes – DIYBio meetup 13dec09
We had another gathering at The Sprouts. Mac, Jason, Jason, Dave, Kay, and I (with my son) gathered and talked about moving forward with safety stuff (pages, FAQs, and questionnaires), logo stuff, and playing around webcams.
We were going to do some wet-work, but the webcam seemed more interesting and we played with them, building a set up to see if we can use them like the folks at Hackteria.org did. In the process, we ended up taking microscopes apart so that we could have more fine control over the height of the slide.
Kinda funny to break up microscopes to build one.
Here are some pics of the afternoon (no video this time):
Book review: The Manga Guide to Molecular Biology
I had the good fortune of being sent a book by No Starch Press called "The Manga Guide to Molecular Biology." The book is a great introductory molecular biology text book explained through a manga-style narrative.
On the story side, it is very funny. Two girls, have been sent to their professor's private island for summer school. Under his and his assistant's tutelage, the girls gradually learn about proteins, DNA, transcription, and molecular cellular processes. The girls use a virtual reality machine to see molecules and processes up close and their string of questions serve to make the reader think through the topics.
Of course, as part of the girls' growth through the book, tempers flare, jokes are made, and embarrassing situations crop up – all drawn in manga style.
The narrative serves well to walk the reader though the topics, especially since the girls themselves have an inkling about the subject but are discovering it more in depth. Also, the topics, to me, seemed quite compete. The drawings and explanations alternate with pages of expository text (sprinkled with dialogue) to move between a high-level view and some detail.
It may not be "Genes," which I used in grad school, but it's a very good introductory text. I handed it to my son, who is in high school, and it has been helpful to him in his biology projects (and I think he found the storyline quite engaging, too).
I recommend this book as a fun introductory molecular biology text book. Graphical narratives are a great way to explore science and math (check out this amazing one on Mathamatics and Logic). No Starch Press has other manga books on Stats, Databases, Physics, Electricity, and Calculus.
If you want to know more about the book, here's an excerpt. Also, below, is a video by Joanne Manaster (@sciencegoddess), reviewing the book in her own inimitable style.
The Manga Guide to Molecular Biology (Excerpt)
Book info, from the publisher, No Starch Press:
"The Manga Guide to Molecular Biology"
by Masaharu Takemura, Sakura, and Becom Co., Ltd.
August 2009, 240 pp. $19.95
ISBN-10 1-59327-202-2
ISBN-13 978-1-59327-202-9Rin and Ami have been skipping molecular biology class all semester, and Professor Moro has had enough—he's sentencing them to summer school on his private island. But they're in store for a special lesson. Using Dr. Moro's virtual reality machine to travel inside the human body, they'll get a close-up look at the fascinating world of molecular biology.
Join them in "The Manga Guide to Molecular Biology," and learn all about DNA, RNA, proteins, amino acids, and more. Along the way, you'll see chemical reactions first-hand and meet entertaining characters like Enzyme Man and Drinkzilla, who show how the liver metabolizes alcohol.
Together with Ami and Rin, you'll learn all about:
• The organelles and proteins inside cells, and how they support cellular functions
• The processes of transcription and translation, and your genes' role in synthesizing proteins
• The pieces that make up our genetic code, like nucleotides, codons, introns, and exons
• The processes of DNA replication, mitosis and cytokinesis
• Genetic technology like transduction and cloning, and the role of molecular biology in medicineWhether you need a molecular biology refresher or you're just fascinated by the science of life, "The Manga Guide to Molecular Biology" will give you a uniquely fun and informative introduction.
Masaharu Takemura is a Lecturer at the Tokyo University of Science in biology, molecular biology, and life sciences. A Doctor of Medical Science, Takemura has written several books about biology.
links for 2009-12-07
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"This editorial calling for action from world leaders on climate change is published today by 56 newspapers around the world in 20 languages"
The need for Plain English DIYbio Safety Guidelines
When we were setting up the wetspace over at The Sprouts, there was a lot of discussion about safety. We were all interested in safety, but Mac was clearly stressing that the future of DIYBio depends heavily on showing that DIYBio can be done safely.
At the set up we had three people, Kay (an active DIYBiologist), Manuel, and Charles, who have (recent) academic and corporate lab experience, and me with academic experience (if a bit hazy from years of inactivity). Together we (mostly them) were able to go over what was needed to make the wetspace safe for reagents, working, disposal, and so forth (especially for The Sprouts).
Highlighting these concerns, the iGEM competition was closed to non-main stream scientists, partly due to safety issues. And the DIYBio-NYC folks are inundated with media request, to see what they are up to, particularly to allay any community safety fears.
I've been doing some investigation and I can't really find a central place for "Plain English" Safety Guidelines that are relevant to DIYBiologists. I envision a wiki where links and info are collated and annotated, training videos, lists of where to get or how to make safety enclosures and equipment, links to downloadable material safety data sheets, lists of suppliers and agencies and safety companies (such as disposal), and so on. But the key thing is that it would be easily accessible and tailored for the DIYBiologist.
This is one aspect of ensuring safety among DIYBiologists, but there are a few more and I am still figuring out how to offer them.
I am not sure _where_ this wiki should be. A quick look at Open Wet ware shows that all the safety info is lab-specific or hidden behind firewalls (understandable, since it's about institutional rules and such).
So, my questions are:
1) Is this a good idea? (I know it is)
2) Where should this wiki be?
3) Who wants to be part of it? (I don't think it should be an open wiki, but curated by a few people. And, of course, since I mentioned it, I should be part of it.)
links for 2009-12-02
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"At one point, Eva Tanguay not only might have knocked Eminem off the charts, she might have simply knocked him out. Jody Rosen’s fabulous piece in Slate alleges that “from 1904 until the early 1920s, Eva Tanguay was the biggest rock star in the United States.”"
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"Sasha Frere-Jones unpacks Susan Boyle's hit record, emphasis mine: "One reason that Boyle’s success might not have much to do with popular music is that, compared with television, popular music isn’t that popular.""
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Brilliant.
links for 2009-12-01
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"We are putting together a workshop called FutureLabCamp in Boston in early 2010. The focus is building the future of science laboratories with open source hardware and software, low-cost and DIY instruments, cloud computing, and the internet of things. We’re bringing together hardware hackers, HCI wizards, standards builders, and forward-thinking researchers together for an amazingly productive weekend."
Increasing tinkerability – explaining DIYbio
I was with my father this Thanksgiving and he asked me about "that Biology thing" I've been getting involved in. He's known for some time that I've been increasingly focused on science in the past few years and that, with my move back to the Boston area, I've been meeting up with scientists and biohackers.
I explained to him what Synthetic Biology and DIYbiology were all about. I showed him my video of my last DIYbio activity, who were the characters involved, what the impact has been so far.
Being a biz guy, he kept asking me what was the "end goal," to help him wrap his head around what would motivate folks to tinker with Biology. He wanted to know if there was a scientific goal or if there were products folks wanted to build.
After a long circular discussion, he finally realized that the field was so nascent that, really, the goal was to "increase the tinkerability" of Biology.
Of course, that conclusion is filtered through my view of where these areas are at. Right now, engineers and non-institutional biologists are mostly focused on simplifying and domesticating Biology. Issues like science and products will arise naturally as the accessibility and malleability of biological systems increases.
What do you think? Do you think that's an appropriate assessment?
Image from Matt Biddulph
links for 2009-11-30
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Neat little map, but took me two seconds to find 3 defunct companies in the Boston area.