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25 Lectures on Virology from Columbia University

Columbia University undergraduate virology course from 2012. In this lecture we define viruses, explore their origins, and summarize their functions and components.

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Freeman Dyson to the Rescue: Life, the Universe, and Nothing

Invited talk at the Conference in Honour of the 90th Birthday of Freeman Dyson, Institute of Advanced Studies, Nanyang Technological University, Singapore
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Machine Learning Summer School [47 Video Lectures]

Machine Learning Summer School [47 Video Lectures] | Science-Videos | Scoop.it

Machine learning is typically classified into three broad categories, depending on the nature of the learning "signal" or "feedback" available to a learning system. These are[11]:

 

  • Supervised learning: The computer is presented with example inputs and their desired outputs, given by a "teacher", and the goal is to learn a general rule that maps inputs to outputs.
  • Unsupervised learning: No labels are given to the learning algorithm, leaving it on its own to find structure in its input. Unsupervised learning can be a goal in itself (discovering hidden patterns in data) or a means towards an end (feature learning).
  • Reinforcement learning: A computer program interacts with a dynamic environment in which it must perform a certain goal (such as driving a vehicle), without a teacher explicitly telling it whether it has come close to its goal. Another example is learning to play a game by playing against an opponent.[4]:3

 

Between supervised and unsupervised learning is semi-supervised learning, where the teacher gives an incomplete training signal: a training set with some (often many) of the target outputs missing. Transduction is a special case of this principle where the entire set of problem instances is known at learning time, except that part of the targets are missing.

 

A support vector machine is a classifier that divides its input space into two regions, separated by a linear boundary. Here, it has learned to distinguish black and white circles.

 

Among other categories of machine learning problems, learning to learn learns its own inductive bias based on previous experience. Developmental learning, elaborated for robot learning, generates its own sequences (also called curriculum) of learning situations to cumulatively acquire repertoires of novel skills through autonomous self-exploration and social interaction with human teachers and using guidance mechanisms such as active learning, maturation, motor synergies, and imitation.

Another categorization of machine learning tasks arises when one considers the desired output of a machine-learned system:[4]:3

 

  • In classification, inputs are divided into two or more classes, and the learner must produce a model that assigns unseen inputs to one or more (multi-label classification) of these classes. This is typically tackled in a supervised way. Spam filtering is an example of classification, where the inputs are email (or other) messages and the classes are "spam" and "not spam".
  • In regression, also a supervised problem, the outputs are continuous rather than discrete.
  • In clustering, a set of inputs is to be divided into groups. Unlike in classification, the groups are not known beforehand, making this typically an unsupervised task.
  • Density estimation finds the distribution of inputs in some space.
  • Dimensionality reduction simplifies inputs by mapping them into a lower-dimensional space. Topic modeling is a related problem, where a program is given a list of human language documents and is tasked to find out which documents cover similar topics.
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Miranda Cheng - K3 String Theory, the Largest Mathieu Group, and Holographic Moonshine

Talk at Strings 2011 held at the Uppsala University, July27-July2, 2011. Event website: http://www.physics.uu.se/external/strings2011/ Enjoy!

 

Related talk: Perimeter Institute

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A Deep Learning Framework For Visual Scene Understanding

Presented at TTI/Vanguard's Networks, Sensors, & Mobility May 3–4, 2016 San Francisco, CA Alex Kendall, Department of Engineering, University of Cambridge

 

We can now teach machines to recognize objects. However, in order to teach a machine to “see” we need to understand geometry as well as semantics. Given an image of a road scene, for example, an autonomous vehicle needs to determine where it is, what's around it, and what's going to happen next. This requires not only object recognition, but depth, motion and spatial perception, and instance-level identification. A deep learning architecture can achieve all these tasks at once, even when given a single monocular input image. Surprisingly, jointly learning these different tasks results in superior performance, because it causes the deep network to uncover a better deep representation by explicitly supervising more information about the scene. This method outperforms other approaches on a number of benchmark datasets, such as SUN RGB-D indoor scene understanding and CityScapes road scene understanding. Besides cars, potential applications include factory robotics and systems to help the blind.

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The Search for Intelligent Life Among the Stars: New Ideas and Strategies

A half-century ago, astronomers began trying to "eavesdrop" for radio messages from nearby star systems. They haven't found any intelligent messages yet, but many new ideas have come up to increase our chances. Seth Shostak (SETI Institute) summarizes them in this video.

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The Genes That Built You

From ancient single-celled organisms evolved multicellular animals whose immense numbers of specialized cell types—skin, muscle, nerve—allow division of labor. Each cell type forms in the right place, is suited to its task, and activates certain genes. Powerful cell-to-cell communication systems organize structured tissues such as lungs, limbs and brain. Dr. Scott will discuss half-billion-year-old genes that have been gradually modified to give rise to the vast diversity of animals.

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Nova: Alien Planets like Kepler-186f

Scientists say a world that's 490 light-years away qualifies as the first confirmed Earth-sized exoplanet that could sustain life as we know it — but in an environment like nothing we've ever seen. The planet, known as Kepler-186f, is "more of an Earth cousin than an Earth twin," Elisa Quintana, an astronomer at the SETI Institute at NASA Ames Research Center, told the journal Science. Quintana is the lead author of a report on the planet published by Science this week.

"This discovery does confirm that Earth-sized planets do exist in the habitable zones of other stars," Quintana said during a Thursday news briefing at NASA Headquarters.

Kepler-186f goes around an M-type dwarf star that's smaller and cooler than our sun. But it orbits much closer to its parent star than Earth does, within what would be Mercury's orbit in our own solar system. Those two factors combine to produce an environment that could allow for liquid water on the surface, assuming that the planet had a heat-trapping atmosphere.

"The star, to our eyes, would look slightly orange-y," about a third again as big as our sun but only a third as bright, said co-author Thomas Barclay, a staff scientist for NASA's Kepler mission who is also affiliated with NASA and the Bay Area Environmental Research Institute. At midday, Kepler-186f's landscape might look similar to what we see on Earth an hour before sunset, he told NBC News. Or it might not: If the planet lacked an atmosphere to retain and redistribute its sun's warmth, it would be a cold, dry, lifeless world.

Kepler-186f probably rates as the most potentially Earthlike planet discovered so far, said Jim Kasting, a geoscientist at Penn State University who did not play a role in the Science study. But he told NBC News that it's still "less likely to be habitable than planets around more sunlike stars." Even better prospects for alien habitability might well be identified in the months and years to come.

Kepler-186f is just the latest discovery to be pulled out of terabytes' worth of data collected by the Kepler mission. Before it went on the fritz last year, the Kepler space telescope stared at more than 150,000 stars in a patch of sky, looking for the telltale dimming of starlight as planets passed over the stars' disks. Nearly 1,000 exoplanets have been confirmed using Kepler data, and almost 3,000 more candidates are still awaiting confirmation.

It takes years of observation to confirm the pattern of dimming and brightening that's associated with alien planets, particularly if the planets are small and far from their parent stars. In February, astronomers reported that at least four worlds circled the dwarf star known as Kepler-186 or KOI-571. In this week's Science paper, Quintana and her colleagues confirm the existence of Kepler-186f as the fifth and outermost world.
They report that Kepler-186f is about 10 percent wider than Earth, tracing a 130-day orbit around its sun at a mean distance of 0.35 astronomical units. (An astronomical unit is the distance between Earth and our sun, which is 93 million miles or 150 million kilometers.) That would put Kepler-186f on the cooler, outer side of the star's habitable zone — the range of orbital distances where liquid water could exist on a planet's surface.

Astronomers have confirmed the existence of other planets in their stars' habitable zone, but those prospects are super-Earth-size. Smaller habitable-zone candidates also have been found, but they have yet to be confirmed as planets.

Barclay said Kepler-186f was particularly promising because it's less than 1.5 times the size of Earth. Planets in that size range are more likely to be rocky with a thinner atmosphere, like Earth, Mars and Venus. But worlds exceeding that size stand a better chance of retaining a thick atmosphere of hydrogen and helium, like the giant planet Neptune.

"While those planets also could be rocky, they don't remind us of home," Barclay said. Could we actually detect signs of life on Kepler-186f? That's a tough one. The astronomers behind the discovery acknowledge that the planet might be just too far away for follow-up studies. The SETI Institute has been searching for radio signals from the Kepler-186 system over a wide frequency range (1 to 10 GHz), but so far nothing has been detected.

Kasting, the author of "How to Find a Habitable Planet," said worlds around M-class dwarf stars faced several disadvantages in the habitability department. For one thing, such planets generally end up being tidally locked to their stars — meaning that one side of the planet is always facing its parent sun while the other is always turned away.

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Molecular pathways in fragile X syndrome

Molecular pathways in fragile X syndrome | Science-Videos | Scoop.it

Claudia Bagni discusses molecular pathways that are impaired in fragile X syndrome and other conditions, including autism.

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Painted Stone: Asteroids in the Sloan Digital Sky Survey

Over 100,000 asteroids and their colors, as seen by a single remarkable survey telescope. This animation shows the orbital motions of over 100,000 of the asteroids observed by the Sloan Digital Sky Survey (SDSS), with colors illustrating the compositional diversity measured by the SDSS five-color camera.

 

The relative sizes of each asteroid are also illustrated. All main-belt asteroids and Trojan asteroids with orbits known to high precision are shown. The animation is rendered with a time-step of 3 days. The compositional gradient of the asteroid belt is clearly visible, with green Vesta-family members in the inner belt fading through the blue C-class asteroids in the outer belt, and the deep red Trojan swarms beyond that. Occasional diagonal slashes that appear in the animation are the SDSS survey beams; these appear because the animation is rendered at near the survey epoch.

 

The average orbital distances of Mercury, Venus, Earth, Mars, and Jupiter are illustrated with rings.Colors represented with the same scheme as Parker et al. (2008):
adsabs.harvard.edu/cgi-bin/bib_query?arXiv:0807.3762

 

Concept and rendering by Alex H. Parker: alexharrisonparker.com/

 

The SDSS is managed by the Astrophysical Research Consortium (ARC) for the Participating Institutions.


Via David McConville
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We live in a time when it is really difficult to say: "This is impossible!"

Dr. Gabor Forgacs is a theoretical physicist turned tissue-engineer turned entrepreneur. His companies are pioneering 3D bio-printing technologies that will produce tissues for medical and pharmaceutical uses, as well as for consumption, in the form of meat and leather.


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Engineering human evolution

Cyborgs, brain uploads and immortality - How far should science go in helping humans exceed their biological limitations? These ideas might sound like science fiction, but proponents of a movement known as transhumanism believe they are inevitable.

 

In this episode of The Stream, we talk to bioethicist George Dvorsky; Robin Hanson, a research associate with Oxford’s Future of Humanity Institute; and Ari N. Schulman, senior editor of The New Atlantis, about the ethical implications of transhumanism.


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Gene Drives and CRISPR: Editing the Genome of Mosquitoes

How should we balance the benefits of limiting or possibly eliminating a disease that kills 1000 people a day against the possible disruption of an ecosystem? Valentino Gantz, and Ethan Bier recently published a Science paper describing a new mechanism of "gene drive."

 

This is not just a matter of editing the genes of a single individual, but an opportunity to make a change that will drive that change into all descendants of the original individual. Their publication resulted in international interest because of the broad potential applications of this new technology, which could rapidly produce beneficial genetic changes.

 

Others have argued that because of the risks and implications of such research the work should not even have been published. Series: "Exploring Ethics" [1/2016] [Science] [Show ID: 30009] (Visit: http://www.uctv.tv/

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New techniques boost understanding of how fish fins became fingers

New techniques boost understanding of how fish fins became fingers | Science-Videos | Scoop.it

After three years of painstaking experiments using novel gene-editing techniques and sensitive fate mapping to label and track developing cells in fish, the researchers describe how the small flexible bones found at the ends of fins are related to fingers and toes, which are more suitable for life on land.

 

"When I first saw these results you could have knocked me over with a feather," said the study's senior author, Neil Shubin, PhD, the Robert R. Bensley Distinguished Service Professor of Organismal Biology and Anatomy at the University of Chicago. Shubin is an authority on the transition from fins to limbs.

 

"For years," he said, "scientists have thought that fin rays were completely unrelated to fingers and toes, utterly dissimilar because one kind of bone is initially formed out of cartilage and the other is formed in simple connective tissue. Our results change that whole idea. We now have a lot of things to rethink."

To unravel how fins might have transformed into wrists and fingers, the researchers worked mostly with a standard fish model: the zebrafish.

 

Tetsuya Nakamura, PhD, a postdoctoral scholar in Shubin's lab, used a gene-editing technique, CRISPR/Cas, in zebrafish to delete important genes linked to limb-building, and then selectively bred zebrafish with multiple targeted deletions. He spent more than two years building and cross breeding the fish mutants, a project that began at the Marine Biological Laboratories in Woods Hole, Massachusetts.

 

At the same time, Andrew Gehrke, PhD, a former graduate student in Shubin's lab, refined cell-labelling techniques to map out when and where specific embryonic cells migrated as the animals grew and developed. "It was one of those eureka moments," Gehrke said. "We found that the cells that mark the wrists and fingers of mice and people were exclusively in the fin rays of fish."

 

The team focused on Hox genes, which control the body plan of a growing embryo along the head-to-tail, or shoulder-to-fingertip, axis. Many of these genes are crucial for limb development.

 

They studied the development of cells, beginning, in some experiments, soon after fertilization, and followed them as they became part of an adult fin. Previous work has shown that when Hox genes, specifically those related to the wrists and digits of mice (HoxD and HoxA), were deleted, the mice did not develop those structures. When Nakamura deleted those same genes in zebrafish, the long fins rays were greatly reduced. "What matters is not what happens when you knock out a single gene but when you do it in combination," Nakamura explained. "That's where the magic happens."

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Sir Roger Penrose Lecture: Aeons before the Big Bang

The second Copernicus Center Lecture was delivered by Professor Roger Penrose, a famous physicist and philosopher of science.

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The solution to the sphere packing problem in 24 dimensions (April, 2016)

Geometric Structures on 3-manifolds Topic: The solution to the sphere packing problem in 24 dimensions via modular forms

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Will Genetics Allow Us to Revive Extinct Species?

Will Genetics Allow Us to Revive Extinct Species?

 

A bird that once darkened the skies of the 19th-century U.S. no longer exists, except as well-preserved museum specimens bearing bits of DNA. An ambitious new effort aims to use the latest techniques of genetic manipulation to bring the passenger pigeon back, as North Dakotan Ben Novak, a would-be de-extinction scientist working on the Revive & Restore project at the Long Now Foundation, told the crowd at the TEDxDeExtinction event here on March 15.

"This pigeon flock was a biological storm that was rejuvenating resources and allowing other animals to thrive," Novak said of the storms of Ectopistes migratorius feces that used to fall like rain on the landscape of eastern North America. Plus, with the regrowth of forest on the east coast "there is more passenger pigeon habitat every year."

But if a bird looks like an extinct passenger pigeon, has some of the genetic code of the passenger pigeon, but does not act like a passenger pigeon because it is raised by other breeds and few in number: is it a true passenger pigeon? That is just one of the questions posed by the idea of de-extinction—deliberately resurrecting species killed off by human activity or inactivity. And that question may just challenge one of the fundamental concepts of biology: what determines a distinct species.

Welcome to the new era of the hybrid. Species have always been promiscuous and enjoyed porous boundaries, but synthetic biologists and other scientists seem set to blur those boundaries out of existence.

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GraduatePhysics - From String Theory To Black Holes To Holographic Universe (>650 videos)

GraduatePhysics - From String Theory To Black Holes To Holographic Universe (>650 videos) | Science-Videos | Scoop.it

All you ever wanted to know about modern physics (graduate level only!).

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Planetary Frontiers: The Latest from New Horizons at Pluto

On July 14, 2015, the New Horizons spacecraft flew 7,800 mi above the surface of Pluto and sent back fascinating images of the dwarf planet and its large (and intriguing) moon Charon. Many of the images show unexpected beauty and complexity on Pluto’s surface. While the data are still coming in from the encounter, Dr. Moore shows the latest photos and fills us in on the current thinking among the New Horizons team members about Pluto, its moons, and the unexplored frontier that lies beyond.

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Mock-modular forms and Physics

Talk at Strings 2014 held at Princeton University and the Institute for Advanced Study, Princeton, June23-27, 2014.

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Design of a Superconducting Quantum Computer

John Martinis visited Google LA to give a tech talk: "Design of a Superconducting Quantum Computer." This talk took place on October 15, 2013


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Andreas Pappas's curator insight, March 28, 2014 12:42 AM

Although the video is quite long, it manages to thoroughly address the concepts and difficulties behind developing a quantum super computer. Nevertheless, the language used though-out the video is somewhat complex and without an understanding of the metalanguage used it is difficult to follow. Therefore, this a good resource for those with an advanced knowledge and understanding of quantum computers.