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In part two, Professor Al-Khalili looks at the 19th century chemists who struggled to impose an order on the apparently random world of the elements. From working out how many there were to discovering their unique relationships with each other, the early scientists' bid to decode the hidden order of the elements was driven by false starts and bitter disputes. But ultimately the quest would lead to one of chemistry's most beautiful intellectual creations - the periodic table.

In the second stop in his exploration of the wonders of the universe, Professor Brian Cox goes in search of humanity's very essence to answer the biggest questions of all: what are we? And where do we come from? This film is the story of matter - the stuff of which we are all made. Brian reveals how our origins are entwined with the life cycle of the stars. But he begins his journey here on Earth. In Nepal, he observes a Hindu cremation. Hindu philosophy is based on an eternal cycle of creation and destruction, where the physical elements of the body are recycled on to the next stage. Brian draws a parallel with the life cycle of the stars that led to our own creation. Next, he explains how the Earth's resources have been recycled through the ages. How every atom that makes up everything we see, was at some time a part of something else. Our world is made up of just 92 elements, and these same 92 elements are found throughout the entire universe. We are part of the universe because we are made of the same stuff as the universe.

In the final part, Professor Al-Khalili uncovers tales of success and heartache in the story of chemists' battle to control and combine the elements, and build our modern world. He reveals the dramatic breakthroughs which harnessed their might to release almost unimaginable power, and he journeys to the centre of modern day alchemy, where scientists are attempting to command the extreme forces of nature and create brand new elements.

The simple act of making an apple pie is extrapolated into the atoms and subatomic particles (electrons, protons, and neutrons) necessary. Many of the ingredients necessary are formed of chemical elements formed in the life and deaths of stars (such as our own Sun), resulting in massive red giants and supernovae or collapsing into white dwarfs, neutron stars, pulsars, and even black holes. These produce all sorts of phenomena, such as radioactivity, cosmic rays, and even the curving of spacetime by gravity. Cosmos Update mentions the supernova SN 1987A and neutrino astronomy.

To survive, animals need somewhere to live, a place that provides the necessities of life, shelter from the elements and a refuge from enemies. Good homes are rare and competition can be intense – finding a home is one thing, but defending it is quite another.

In this episode, Michael demonstrates how our society is built on our search to find the answer to what makes up everything in the material world. This is a story that moves from the secret labs of the alchemists and their search for gold by the stone of the philosophers to the creation of the world's first synthetic dye - Purple - and onto the invention of the transistor. This quest may seem abstract and highly theoretical. Yet it has delivered the greatest impact on humanity. By trying to answer this question, scientists have created theories from elements to atoms, and the strange concepts of quantum physics that underpin our modern, technological world.