protein visualization

A presentation by Janice Stanger arguing that protein is overhyped and that excess or the wrong kinds of protein are harmful. It promotes a whole-foods, plant-based diet.

Christopher Domas presents his Cantor Dust tool at Derbycon 2012, a 3D visual approach to reverse engineering binaries by visualizing their structure dynamically.

Christopher Domas's REcon 2013 talk on dynamic binary visualization for reverse engineering. He shows how rendering binary data as interactive visual maps and trigraphs reveals structure that hex dumps hide, leading to his Cantor.dust tool.

Bret Victor's talk on Drawing Dynamic Visualizations. It argues that visualization tools offer either the directness of hand drawing or the dynamics of programmed graphics, and shows a tool that combines both.

The American Museum of Natural History's film flies from the Himalayas out through the atmosphere and solar system to the afterglow of the Big Bang, using its Digital Universe Atlas four-dimensional map.

A Foresight Institute workshop video with two talks: Shawn Douglas on nanoscale instruments for visualizing small proteins, and Bret Victor on Dynamicland. Victor's part shows biomolecular design built in his Realtalk system with physical objects.

A short demo of the Deep Visualization Toolbox, which shows the activations inside a convolutional neural network as it processes live camera input. Viewers see individual units responding to edges, faces and text.

Ron Vale of UCSF and HHMI gives an introductory lecture on kinesin, dynein and myosin motor proteins. He covers their roles in cells and how they turn ATP hydrolysis into directed motion and force.

A very short animation of a kinesin motor protein walking along a microtubule inside a cell, carrying cargo.

A short animation from the DNA Learning Center showing how mRNA carries a gene's message to the ribosome, where tRNA and codons are used to assemble amino acids into a protein.

A Veritasium video on AlphaFold, DeepMind's protein structure prediction system, and the protein design work it enabled. It features interviews with John Jumper and with David Baker's protein design group and explains why predicting protein folding matters.

A short NASA Goddard visualization from the GEOS-5 model showing a year of atmospheric carbon dioxide moving around the globe. It shows plumes from sources, hemispheric differences and seasonal swings as plants grow and die back.

A six-minute journey through the layers of a neural network using Deep Dream, with each frame fed back into the network starting from random noise and the targeted layer changing every four seconds. It is set to downtempo music.

A three-minute capture of SORTDEMO.BAS, the sorting visualization that shipped with QBasic. It animates insertion, bubble, heap, exchange, shell and quick sort with chiptune-like sound.

A Gource visualization of 826 days of Minecraft development, from alpha 1.2 to release 1.5, condensed into eight minutes. Each dot is a file, folders are links, and developers fly around zapping files as they work on them.

A short explainer showing what walking through walls would look like with movement in a fourth spatial dimension, using the 4D puzzle game Miegakure.

Drew Berry shows scientifically accurate animations of molecular processes inside cells, such as DNA replication, at TEDxSydney.

ScienceClic explains why the rubber sheet analogy for general relativity is misleading and offers a new visualization that includes the curvature of time and shows gravity as motion through curved spacetime.

An animated visualization of basic quantum mechanics using a free particle, with simulations based on the actual equations. It covers waves, particles, and how measurement collapses the wavefunction.

The first of an eight-part ScienceClic series building general relativity, covering worldlines, proper time and coordinate systems with animated visualizations.

Philip Roberts explains the JavaScript event loop, call stack, callbacks and asynchronous behavior with live visualizations using a tool he built. It demystifies terms like non-blocking and single-threaded.

Roy Beck's short gumball presentation using World Bank and Census data to argue that letting people immigrate to the US cannot solve world poverty because the numbers are so large. It is made by NumbersUSA, an immigration-restriction advocacy group.

3Blue1Brown visualizes high-dimensional spheres to explain a surprising puzzle about how a sphere fits in a box as dimensions grow. It builds geometric intuition for counterintuitive properties of high-dimensional space.

3Blue1Brown visualizes the Riemann zeta function and the analytic continuation that extends it beyond where its series converges, building toward the Riemann hypothesis.

Gary Garrett's stop-motion animation of his song Flying Dream, with notes arranged on a lattice of fifths and major thirds. It shows how harmony looks in just intonation, inspired by Harmonic Experience.

A visualization and sonification of 15 sorting algorithms, from selection sort to bogo sort, run on shuffled integers in six minutes. Each algorithm gets a size and speed scaled to its complexity.

2swap explains how he solved the Klotski sliding-block puzzle by mapping its full state space as a graph and visualizing it. The video includes footage of the Guinness world-record solve and links to an interactive graph.

Bach's Toccata and Fugue in D minor on organ, shown with a Music Animation Machine bar-graph score instead of traditional notation.

An artist describes discovering she has aphantasia, the inability to form mental images, and how it affects her work. She asks viewers about their own visualization.

Isao Hashimoto's time-lapse map shows all 2053 nuclear explosions between 1945 and 1998, with each nation getting a blip and a running tally. Each second represents one month.

ScienceClic gives a 15-minute animated introduction to quantum field theory, covering fields, spin, conserved quantities, the standard model and interactions.

Physicist Angela Collier rants for 42 minutes about why violin plots are a poor way to show data, citing papers on violin and bean plots. It is part lecture on how to read distributions and part opinionated critique.

Anna Rosling Rönnlund presents Dollar Street, a project photographing homes in dozens of countries, from stoves to beds to toilets, and sorting them by income. She shows how data visualization can change how we see the world.

The Thought Emporium shows how easily bacteria can be genetically modified to produce fluorescent proteins and even bioluminesce, with techniques doable at home. It links to companion videos on incubators, DNA extraction and gels.

A compilation of the hacking scenes from the 1995 film Hackers, featuring flashy visualizations of computer intrusion.

A Google Tech Talk by Laurens van der Maaten, co-creator of t-SNE, on visualizing high-dimensional data by mapping it to two dimensions. It explains how the technique works and how it compares with other visualization approaches.

A spectrogram visualization of the sounds in a dial-up modem handshake, with an annotated image explaining each noise. It shows how the handshake's tones map to the negotiation steps.

An animation presenting a non-standard helical or vortex model of the solar system, in which the planets trail the Sun through space instead of orbiting in flat circles. The model is a non-conventional view that the author says differs from standard diagrams.

A timeline visualization plotting the 2053 nuclear tests and detonations from 1945 to 1998 on a world map, with sound marking each blast. It conveys the pace of the nuclear arms race.

A 21-minute animation showing how a sphere can be turned inside out without creases or tears, known as sphere eversion.