Can a Field in Which Physicists Think Like Economists Help Us Achieve Universal Knowledge?

Bookmarked Can a Field in Which Physicists Think Like Economists Help Us Achieve Universal Knowledge? by David Auerbach (Slate Magazine)
The Theory of Everything and Then Some: In complexity theory, physicists try to understand economics while sociologists think like biologists. Can they bring us any closer to universal knowledge?

A discussion of complexity and complexity theorist John H. Miller’s new book: A Crude Look at the Whole: The Science of Complex Systems in Business, Life, and Society.

The Hidden Algorithms Underlying Life | Quanta Magazine

Bookmarked Searching for the Algorithms Underlying Life by John Pavlus (Quanta Magazine)
The biological world is computational at its core, argues computer scientist Leslie Valiant.

I did expect something more entertaining from Google when I searched for “what will happen if I squeeze a paper cup full of hot coffee?”

What is Information? by Christoph Adami

Bookmarked What is Information? [1601.06176] by Christoph AdamiChristoph Adami (arxiv.org)

Information is a precise concept that can be defined mathematically, but its relationship to what we call "knowledge" is not always made clear. Furthermore, the concepts "entropy" and "information", while deeply related, are distinct and must be used with care, something that is not always achieved in the literature. In this elementary introduction, the concepts of entropy and information are laid out one by one, explained intuitively, but defined rigorously. I argue that a proper understanding of information in terms of prediction is key to a number of disciplines beyond engineering, such as physics and biology.

Comments: 19 pages, 2 figures. To appear in Philosophical Transaction of the Royal Society A
Subjects: Adaptation and Self-Organizing Systems (nlin.AO); Information Theory (cs.IT); Biological Physics (physics.bio-ph); Quantitative Methods (q-bio.QM)
Cite as:arXiv:1601.06176 [nlin.AO] (or arXiv:1601.06176v1 [nlin.AO] for this version)

From: Christoph Adami
[v1] Fri, 22 Jan 2016 21:35:44 GMT (151kb,D) [.pdf]

A proper understanding of information in terms of prediction is key to a number of disciplines beyond engineering, such as physics and biology.

The Information Theory of Life | Quanta Magazine

Bookmarked The Information Theory of Life (Quanta Magazine)
The Information Theory of Life: The polymath Christoph Adami is investigating life’s origins by reimagining living things as self-perpetuating information strings.

Why math? JHU mathematician on teaching, theory, and the value of math in a modern world | Hub

Bookmarked Why math? JHU mathematician on teaching, theory, and the value of math in a modern world (The Hub)
Great to see this interview with my friend and mathematician Richard Brown from Johns Hopkins Unviersity.  Psst: He’s got an interesting little blog, or you can follow some of his work on Facebook and Twitter.

Click through for the full interview: Q+A with Richard Brown, director of undergraduate studies in Johns Hopkins University’s Department of Mathematics

 

https://youtu.be/kg2mOl042ng

3 Rules of Academic Blogging

Bookmarked 3 Rules of Academic Blogging (The Chronicle of Higher Education)
Not only is the form alive and well, but one of its most vibrant subsections is in academe.

1. Pick the right platform.
2. Write whatever you want.
3. Write for the sake of writing.

Winter Q-BIO Quantitative Biology Meeting February 15-18, 2016

Bookmarked Winter Q-BIO Quantitative Biology Meeting February 15-18, 2016 (w-qbio.org)
The Winter Q-BIO Quantitative Biology Meeting is coming up at the Sheraton Waikiki in Oahu, HI, USA

A predictive understanding of living systems is a prerequisite for designed manipulation in bioengineering and informed intervention in medicine. Such an understanding requires quantitative measurements, mathematical analysis, and theoretical abstraction. The advent of powerful measurement technologies and computing capacity has positioned biology to drive the next scientific revolution. A defining goal of Quantitative Biology (qBIO) is the development of general principles that arise from networks of interacting elements that initially defy conceptual reasoning. The use of model organisms for the discovery of general principles has a rich tradition in biology, and at a fundamental level the philosophy of qBIO resonates with most molecular and cell biologists. New challenges arise from the complexity inherent in networks, which require mathematical modeling and computational simulation to develop conceptual “guideposts” that can be used to generate testable hypotheses, guide analyses, and organize “big data.”

The Winter q-bio meeting welcomes scientists and engineers who are interested in all areas of q-bio. For 2016, the meeting will be hosted at the Sheraton Waikiki, which is located in Honolulu, on the island of Oahu. The resort is known for its breathtaking oceanfront views, a first-of-its-kind recently opened “Superpool” and many award-winning dining venues. Registration and accommodation information can be found via the links at the top of the page.

Source: Winter Q-BIO Quantitative Biology Meeting

Shinichi Mochizuki and the impenetrable proof of the abc conjecture

Read The biggest mystery in mathematics: Shinichi Mochizuki and the impenetrable proof of the ABC Conjecture (Nature News & Comment)
A Japanese mathematician claims to have solved one of the most important problems in his field. The trouble is, hardly anyone can work out whether he's right.

The biggest mystery in mathematics

This article in Nature is just wonderful. Everyone will find it interesting, but those in the Algebraic Number Theory class this fall will be particularly interested in the topic – by the way, it’s not too late to join the class. After spending some time over the summer looking at Category Theory, I’m tempted to tackle Mochizuki’s proof as I’m intrigued at new methods in mathematical thinking (and explaining.)

The abc conjecture refers to numerical expressions of the type a + b = c. The statement, which comes in several slightly different versions, concerns the prime numbers that divide each of the quantities a, b and c. Every whole number, or integer, can be expressed in an essentially unique way as a product of prime numbers — those that cannot be further factored out into smaller whole numbers: for example, 15 = 3 × 5 or 84 = 2 × 2 × 3 × 7. In principle, the prime factors of a and b have no connection to those of their sum, c. But the abc conjecture links them together. It presumes, roughly, that if a lot of small primes divide a and b then only a few, large ones divide c.

Thanks to Rama for bringing this to my attention!

The Mathematics Literature Project

Bookmarked The Mathematics Literature Project (tqft.net)

“The Mathematics Literature Project intends to survey the state of the freely accessible mathematics literature. In particular, it will index freely accessible URLs for mathematics articles. These are legitimately hosted copies of the article (i.e. at publishers, the arXiv, institutional repositories, or authors’ homepages), which are freely available in any browser, anywhere in the world.”

Obituary: Wes Craven

Bookmarked Wes Craven Dead: Movies 'Scream', 'Nightmare on Elm Street' Horrified Viewers (The Hollywood Reporter)
Wes Craven, the famed maestro of horror known for the Nightmare on Elm Street and Scream franchises, died Sunday after a battle with brain cancer. He was 76.
Saddened to  hear that filmmaker and fellow Johns Hopkins University alum Wes Craven has passed away this afternoon. He was certainly a scholar and a gentleman and will be missed terribly.

Obituary: Wes Craven, Horror Maestro, Dies at 76 – Hollywood Reporter 

Wes Craven
Wes Craven

Stephen Hawking says he’s solved a black hole mystery, but physicists await the proof

Bookmarked Stephen Hawking says he's solved a black hole mystery, but physicists await the proof by Eryn BrownEryn Brown (latimes.com)
Physicist Stephen Hawking made a splash this week when he announced that he had solved a vexing conundrum that had puzzled generations of leading physicists -- including the 73-year-old scientific superstar himself -- for the better part of a half-century.

Breaking the code | The Economist

Bookmarked Breaking the code (The Economist)
Brief book overview of Matthew Cobb's "Life’s Greatest Secret" from The Economist.
For those interested in some of the history behind genetics, evolution, biology and information theory, the following book, which I just saw the attached review in The Economist, is likely to be of interest:

Life’s Greatest Secret: The Story of the Race to Crack the Genetic Code. By Matthew Cobb. Basic Books; 434 pages; $29.99. Profile Books; £25.

In 1953 James Watson and Francis Crick, with the help of Rosalind Franklin and Maurice Wilkins, described the structure of the molecule at the heart of life. Deoxyribonucleic acid, better known as DNA, was, they said, a double helix, two spirals joined across the middle by pairs of four chemical bases, like a twisted ladder. That work earned Messrs Crick, Watson and Wilkins a Nobel prize and a place in the history books. The image of the double helix now often stands for biology, or even science, itself.

But this was merely the most visible breakthrough in a long struggle to understand the engine of life—how traits are inherited, mutated and weeded out by natural selection, and how the whole mysterious process works at the biochemical level. It is that lesser-known history that Matthew Cobb, a professor of animal behaviour at the University of Manchester, aims to sketch in his book, which has been shortlisted for the Royal Society’s Winton prize for science writing.

The result is a fascinating reminder of just how hard-won are the seemingly obvious facts of modern biology. The development of genetics was a tale of confusion, accident, frustration and the occasional flash of insight. It was, says Dr Cobb, as important as the Manhattan or Apollo projects, but with no government support and little money, carried out by scientists interested in the question for its own sake.

The researchers started from almost total ignorance. William Harvey, better known for describing the circulation of the blood, wondered in the 17th century what could explain why children’s skin colour was often a blend of their parents’, whereas they share a sex with only one, and can have an eye colour different from either.

In the late 19th century a monk, Gregor Mendel, established, through experiments on pea plants, the basic rules of inherited traits. A Danish biologist, Wilhelm Johannsen, coined the term “gene” in 1909 to describe whatever it was that Mendel had found. But as late as 1933 scientists were still debating whether genes were physical things or just useful abstractions, and how they could transmit traits. Scientists knew that DNA existed, but many considered it a boring bit of scaffolding in the cell. Proteins, which come in zillions of different varieties, were seen by many as the only things exciting enough to account for all the diversity seen in life.

After the second world war, ideas from information theory, arising out of wartime work on computers and automation, percolated into biology. Once the structure of DNA had been established, those ideas helped crack the problem of how the four chemical bases do their job. Proteins are built by stringing together 20 different sorts of amino acid. Strings of three bases within a DNA molecule represent these amino acids, but with 64 such triplets, there is much redundancy which information theory alone could not fully explain. Years of painstaking lab-work were needed to reconcile theory with reality.

Dr Cobb is good on the human side of the story, showing science as fuelled by rivalry, jealousy, competitiveness and wonder. The only downside is that he must marshal hundreds of scientists across several disciplines into around 300 pages of narrative. The results can sometimes be dense, and readers without a command of biological jargon will frequently find themselves consulting the glossary for guidance. But the cracking of the code of life is a great story, of which this is an accomplished telling.

Source: Breaking the code | The Economist, 

 

Life’s Greatest Secret

No, It’s Not Your Opinion. You’re Just Wrong. | Houston Press

This has to be the best article of the entire year: “No, It’s Not Your Opinion. You’re Just Wrong.”

It also not coincidentally is the root of the vast majority of the problems the world is currently facing. There are so many great quotes here, I can’t pick a favorite, so I’ll highlight the same one Kimb Quark did that brought my attention to it:

“There’s nothing wrong with an opinion on those things. The problem comes from people whose opinions are actually misconceptions. If you think vaccines cause autism you are expressing something factually wrong, not an opinion. The fact that you may still believe that vaccines cause autism does not move your misconception into the realm of valid opinion. Nor does the fact that many other share this opinion give it any more validity.”

Jef Rouner
in No, It’s Not Your Opinion. You’re Just Wrong | Houston Press

 

Pictured: A bunch of people who were murdered regardless of someone's opinion on the subject
Pictured: A bunch of people who were murdered regardless of someone’s opinion on the subject

The Math That Connects Pluto to DNA — NOVA Next | PBS

Bookmarked The Math That Connects Pluto to DNA by Alex RileyAlex Riley (NOVA Next | PBS)
How a mathematical breakthrough from the 1960s now powers everything from spacecraft to cell phones.
Concurrent with the recent Pluto fly by, Alex Riley has a great popular science article on PBS that helps put the application of information theory and biology into perspective for the common person. Like a science version of “The Princess Bride”, this story has a little bit of everything that could be good and entertaining: information theory, biology, DNA, Reed-Solomon codes, fossils, interplanetary exploration, mathematics, music, genetics, computers, and even paleontology. Fans of Big History are sure to love the interconnections presented here.

Reed-Solomon codes correct for common transmission errors, including missing pixels (white), false signals (black), and paused transmissions (the white stripe).
Reed-Solomon codes correct for common transmission errors, including missing pixels (white), false signals (black), and paused transmissions (the white stripe).

Microscopic view of glass DNA storage beads

Molecular Programming Project

Bookmarked Molecular Programming Project (Molecular Programming Project)
 

“The Molecular Programming Project aims to develop computer science principles for programming information-bearing molecules like DNA and RNA to create artificial biomolecular programs of similar complexity. Our long-term vision is to establish molecular programming as a subdiscipline of computer science — one that will enable a yet-to-be imagined array of applications from chemical circuitry for interacting with biological molecules to nanoscale computing and molecular robotics.”

Source: MPP: Home