A second podcast interview resulting from the publication of Amber's book Python for the Life Sciences has been released. This time Leanpub co-founder Len Epp talked with Amber Principal, Alex Lancaster, discussing Alex's career, funding in science, evolutionary biology and the state of the book publishing industry.
A recent excellent article in PLOS Biology by Florian Markowetz with the provocative title "All Biology is Computational Biology" makes an passionate case that computational biologists contribute crucial conceptual tools and approaches to biology, allowing biologists to see the big picture and turning fuzzy ideas into concrete hypotheses far beyond a mere "service provider". Hear, hear!
Amber Biology is proud to announce that our book Python for the Life Sciences is now available in print. This is a 322 page full color softback edition and is available for purchase online via Blurb Books which handles all payment and shipping. We have also launched a new dedicated site: pythonforthelifesciences.com as a one-stop shop for all editions.
Many life scientists want to add computation to their research, but programming is often not taught with the biologist's intuition in mind. Amber Biology is presenting at the Boston Python Meetup on Monday January 23 at 7pm on using modeling of biological pattern formation as a gateway to Python. We will also be raffling off two copies of our new book Python for the Life Sciences.
Python for the Life Sciences has been updated and improved, and is now available in EPUB, PDF and MOBI digital formats. Now you can read it on your Kindle, iPad, and Android devices, and of course as always - your computer! Head on over to Leanpub for your copy.
Those interested in joining the movement to build new models for doing research and scholarship outside traditional institutions in biology and beyond won't want to miss the first Ronin Institute Unconference to be held on November 5, 2016. The meeting will be hosted at The Democracy Center in Harvard Square and you will have the chance to meet and network with an eclectic and forward-thinking group of people from a range of different research areas. Amber Biology is proud to sponsor this important event.
The great majority of life scientists working in academia or in the typical biotechnology or pharmaceutical company laboratory, still often use calculators or spreadsheets, for handling their research data. More emphasis on computational skills, both in college and in training of life scientists, would benefit not only the researcher, but also the academic field and life science industries for which it is the foundation.
Amber Biology is proud to announce that our book Python For The Life Sciences is now available via Leanpub. Python for the Life Sciences is an intuitive and easy-to-follow introduction to computer programming, written specifically for biologists with no prior experience of writing code. The 20 chapters cover a wide range of biology from structural biology to ecology and evolution.
There’s hardly a life science lab you can walk into these days, without seeing a ton of 96-well plates and instruments that read and handle them. That’s why we’ve dedicated an entire chapter of our forthcoming book Python For The Life Sciences, to the humble 96-well plate.
A little while back on The Digital Biologist, we published a 2-part introduction to Bayes’ Theorem. Part 1 of this series has now been made into a video that offers an intuitive introduction to Bayes’ Theorem, and features biomarkers as an example of a life science application of the Bayesian approach.
Amber Biology together with the University of Sydney and the Sydney University Graduates Union of North America is proud to co-sponsor an informal meetup for Sydney Uni alumni and friends at the John Harvard Brew Pub in Harvard Square on May 18th, 2016 from 6:30pm-8:30 pm. Registration and more details at Eventbrite.
With warm New England weather finally kicking in, it's nice to get a Spring surprise in the form of a new paper involving Amber Biology consultants. Amongst other things, it illustrates the power of bioinformatics to find intriguing features in proteomes, especially when backed-up by lab work, in this case, potentially finding prions in plants.
Much of the life science Big Data scene is Big Hype. Modeling can provide frameworks needed to transform data into knowledge, and there has arguably never been a better time for life scientists to embrace modeling as a core component of their experimental R&D programs.
Our book Python For The Life Sciences is now nearing publication – we anticipate sometime in the summer of 2016 for the publication date. As requested by many folks we are releasing the first draft of the table of contents.
In this chapter from our forthcoming book, Python for the Life Sciences, we show you how to parse and analyze data generated from cellular interaction networks, sometimes affectionately known as “hairball” data. We’ll show you an example of reading in data on transcription factor networks from yeast....
By facilitating a cognitive connection between the user and an object, a device or a piece of software, effective UX design makes the interaction easier, more intuitive and more meaningful. Insofar as a computational model is being used to develop a conceptual framework that explains data, effective UX design similarly facilitates the cognitive leap from data to knowledge.
Cheap “computing as a utility” has the potential to bring scientific large-scale analyses within reach of smaller organizations that may lack the means to run a traditional HPC. But beyond the industry enthusiasm, how much can cloud computing really help enable low-cost scientific analyses?
After enduring years of steady erosion of their funding, pay, career opportunities and work/life balance, it’s great to see researchers taking things into their own hands and getting behind a truly grassroots organization like Future Of Research (FOR) that was founded in October 2014 to address these issues. I was fortunate enough to be able to attend ...
The consideration of potential immunogenicity is an essential component in the development work flow of any protein molecule destined for use as a therapeutic in a clinical setting. If a patient develops an immune response to the molecule, in the best case scenario, the patient's own antibodies can neutralize the drug, blunting or even completely ablating its therapeutic activity ...