E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules
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E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules
Heinrich-Heine-Universität Düsseldorf - E-Norm Graduate School's Student Body page
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The Mathematics of Averting the Next Big Network Failure | Wired Science | Wired.com

The Mathematics of Averting the Next Big Network Failure | Wired Science | Wired.com | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
In an increasingly interconnected world, scientists are seeking safeguards against catastrophic cascades of failure like stock market crashes and widespread blackouts.
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Sandwalk: Ford Doolittle's Critique of ENCODE

Sandwalk: Ford Doolittle's Critique of ENCODE | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
E-Norm Graduate School's Student Body's insight:

Good commentary on a recent PNAS Perspective article critiquing ENCODE.

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Dr. Martin Nöllenburg [Algorithmik I - Karlsruher Institut für Technologie (KIT)]

Dr. Martin Nöllenburg [Algorithmik I - Karlsruher Institut für Technologie (KIT)] | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

Dr. Martin Nöllenburg
Institute of Theoretical Informatics, Karlsruhe Institute of Technology

 

EXTRA E-Norm lecture (31 Jan 2013): Algorithms for Network Visualization: Schematic Metro Maps

 

Graph Drawing is a research field in computer science that deals with all aspects of algorithms for the visualization of graphs or networks. Here a graph is a mathematical structure defined as a set of nodes V and a set of edges E connecting pairs of nodes. Graphs are frequent-ly used to model relational data in many applications from social net-works to metabolic pathways and from software engineering to car-tography. A wide range of topics are studied in Graph Drawing reach-ing from theoretical aspects like characterizations of graphs having certain layout types over design and analysis of efficient visualization algorithms to practical work involving algorithm engineering, experi-mental evaluations and user studies on layout readability.
After a general introduction to the field, I want to focus in this talk on schematic visualization using the example of public transport maps. I will first show how the popular force-based graph drawing method can be applied to this problem, and discuss its advantages and dis-advantages. Then I will show how a global optimization approach for the same problem using integer linear programming models the aes-thetic layout criteria as a set of linear (in)equalities. Implementing and solving this model with standard optimization software produces high-quality layouts including non-overlapping node labels and providing hard quality guarantees at the expense of higher running times.

E-Norm Graduate School's Student Body's insight:

This was a pretty great lecture!

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Open Source Software for Systems, Pathways, Interactions and Networks

Open Source Software for Systems, Pathways, Interactions and Networks | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
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Collection of talks (presentation and video) on different open source software for systems, pathways, interactions and networks.

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Universität Düsseldorf: Workshop Network Statistics

Universität Düsseldorf: Workshop Network Statistics | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
Die Heinrich-Heine-Universität Düsseldorf ist eine der jüngeren Hochschulen des Landes NRW – gegründet 1965. Seit 1988 trägt die Universität den Namen des großen Sohnes der Stadt
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E-Norm-Workshop Network Statistics

Location: Rechenzentrum Building 25.41 Level 00 Room 63 (Monday, 21st-Tuesday, 22nd of January, 2013)

 

Recommended pre-stuff:

The Small-World Problem by Stanley Milgram:
Network thinking in ecology and evolution by Stephen Proulx et al.
Network Biology: Understanding the cell´s functional organization by Barabási
The structure and function of comlex networks by M. E. J. Newman

e-Lecture by Newman: Strucure and Dynamics of Complex Networks

 

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Podcast #1: The 4.74 Degrees of Kevin Bacon

Podcast #1: The 4.74 Degrees of Kevin Bacon | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

Exploring the history and science behind the "six degrees of separation" theory. Who came up with the idea? Is six even the right number? Nicholas Arioli explores the history of Six Degrees of Separation in our first Facebook Stories Podcast.

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An update on the inaugural film within the E-Norm lecture series on October, 18 2012.

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The Science and Religion Dialogue: Past and Future

The Science and Religion Dialogue: Past and Future | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

The Science and Religion Dialogue: Past and Future

 

The University of Heidelberg (Germany) and the John Templeton Foundation will host a major conference on “The Science and Religion Dialogue: Past and Future” from October 25th to 29th, 2012. The opening ceremony, which can be viewed via livestream on this website, will feature renowned keynote speakers in the area of science and religion. It will commemorate the 100th anniversary of the birth of Sir John Templeton and the 25th anniversary of the establishment of the John Templeton Foundation.

 

In addition, you will be able to watch a livestream of 12 academic sessions, which will focus on numerous scientific disciplines and various aspects of the science and religion dialogue. Furthermore, at a Live Q&A, the general public is invited to submit questions to experts in the area of science and religion.

 

And as Martin Nowak is a keynote speaker this evens things out with the previous Richard Dawkins entry!

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Richard Dawkins - Darwin's Five Bridges

Richard Dawkins - Darwin's Five Bridges | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

Professor Dawkins will also give another lecture during his visit. His topic, “Darwin’s Five Bridges,” is about exactly what Darwin discovered, and why evolution is important to scientists today.

The scheduled venue is too small to invite those not associated with the sponsoring department, but we have arranged a special open URL so that anyone anywhere can watch the talk and the question period live at http://www.ummentalhealth.net/calendar/dawkins/ The lecture will begin at 10:30 AM on Wednesday October 24th.

If link fails check: http://evolutionandmedicine.com/

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NIH VideoCasting - Engineering Gene Networks: Integrating Synthetic Biology & Systems Biology


*Contributor: Reine.
*Type: Lecture.
*About: Synthetic & Systems Biology, James Collins, http://videocast.nih.gov/summary.asp?Live=7046
*Extra: Do you want to see/do this together? Send me an email. Thanks!

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Free Online Course Materials | Part II: Differential Equations | MIT OpenCourseWare

Free Online Course Materials | Part II: Differential Equations | MIT OpenCourseWare | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

*Contributor: Reine.
*Type: Lecture.
*About: Differential Equations
*Extra: Do you want to see/do this together? Send me an email. Thanks!

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Free Online Course Materials | Part III: Linear Algebra | MIT OpenCourseWare

Free Online Course Materials | Part III: Linear Algebra | MIT OpenCourseWare | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

*Contributor: Reine.
*Type: Lecture.
*About: Linear Algebra
*Extra: Do you want to see/do this together? Send me an email. Thanks!

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Systems Biology Lecture 1 by Uri Alon.

*Contributor: Reine.

*Type: Lecture.
*About: Lecture given by Uri Alon based on his book "An introduction to Systems Biology". The lectures that follow can be found on YouTube.
*Extra: Do you want to see/do this together? Send me an email. Thanks!

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NIH chooses University of Oregon for vital 'systems biology' center ...

NIH chooses University of Oregon for vital 'systems biology' center ... | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
The UO's Microbial Ecology and Theory of Animals Center for Systems Biology (META CSB) will be devoted to understanding how animal-associated microbial communities assemble, interact, evolve and influence human ...
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Network Science Book

Network Science Book | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
The power of network science, the beauty of network visualization.
E-Norm Graduate School's Student Body's insight:

PDF and iPad version versions available too!

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stouffer lab - university of canterbury - school of biological sciences

Website of the Stouffer Lab at the University of Canterbury, led by Dr. Daniel B. Stouffer
E-Norm Graduate School's Student Body's insight:

This guys does some pretty neat work on food webs, complexity, ecology, networks and biodiversity.

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Darwin’s extra sense: How mathematics is revolutionizing biology | Santa Fe Institute

Darwin’s extra sense: How mathematics is revolutionizing biology | Santa Fe Institute | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
E-Norm Graduate School's Student Body's insight:

“Darwin’s Extra Sense,” a new video produced by SFI External Professor Dan Rockmore and collaborators, explores the ways applied mathematics is opening doors to astonishing insights in the life sciences – from evolutionary biology to protein folding and brain science.

Watch “Darwin’s Extra Sense” here (45 minutes)

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Your Brain, the Internet and the Universe Have Something Fascinating in Common | TIME.com

Your Brain, the Internet and the Universe Have Something Fascinating in Common | TIME.com | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
What if it turned out that what we've become, over the course of evolutionary eons, was about more than just an elemental relationship to the stuff that stars and planets and nebulae are made of?
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Comb the Hairball with BioFabric

Comb the Hairball with BioFabric | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it
BioFabric is an interactive tool for visualizing and exploring large networks.
E-Norm Graduate School's Student Body's insight:

Description: BioFabric uses a novel network presentation method that represents nodes as horizontal line segments, one per row.

BMC Bioinformatics paper:
http://www.biomedcentral.com/1471-2105/13/275/abstract

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E-Norm Graduate School's Student Body's comment, December 20, 2012 9:48 AM
The Genome Sciences Center, Vancouver, BC have two other great looking visualization tools (and a great tutorial on Visualization Principles too) which can be found at:

http://circos.ca
http://www.hiveplot.com
http://mkweb.bcgsc.ca/vizbi/2012

Cheers to Robin for the reminder!
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Announcing the Santa Fe Institute’s Massive Open On-Line Courses

Announcing the Santa Fe Institute’s Massive Open On-Line Courses | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

Announcing the Santa Fe Institute’s Massive Open On-Line Courses:

Santa Fe Institute will be launching a series of MOOCs (Massive Open On-line Courses), covering the field of complex systems science. Our first course, Introduction to Complexity, will be an accessible introduction to the field, with no pre-requisites. You don't need a science or math background to take this introductory course; it simply requires an interest in the field and the willingness to participate in a hands-on approach to the subject.

 

In this ten-week course, you'll learn about the tools used by complex systems scientists to understand, and sometimes to control, complex systems. The topics you'll learn about include dynamics, chaos, fractals, information theory, computation theory, evolution and adaptation, agent-based modeling, and networks. You’ll also get a sense of how these topics fit together to help explain how complexity arises and evolves in nature, society, and technology.

Introduction to Complexity will be free and open to anyone. The instructor is Melanie Mitchell, External Professor at SFI, Professor of Computer Science at Portland State University, and author of the award-winning book, Complexity: A Guided Tour. The course will begin in early 2013.

 

If you’d like to receive e-mail updates about how to register for this course, please submit your contact information below, and we’ll be in touch soon.

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Structure and Dynamics in Complex Networks - videolectures.net

Structure and Dynamics in Complex Networks - videolectures.net | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

Mark Newman (University of Michigan) talk: Structure and Dynamics in Complex Networks. This is part of the "pre reading" material for the workshop on network statistics (January 21-22, 2013 at the HHU Düsseldorf) to be given by Prof. Kollmann.

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Six degrees of separation - Film

1st E-Norm - Lecture series (18-10-12):

 

Documentary unfolding the science behind the idea of six degrees of separation.

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Special Lecture PhD Luis Serrano - Systems biology analysis of a small bacterium

*Contributor: Reine.
*Type: Lecture.
*About: Systems Biology, Luis Serrano
*Extra: Do you want to see/do this together? Send me an email. Thanks!

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Differential Equations, Fall 2011

Differential Equations, Fall 2011 | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

*Contributor: Reine.
*Type: Lecture.
*About: Differential Equations
*Extra: Do you want to see/do this together? Send me an email. Thanks!

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Linear Algebra, Fall 2011

Linear Algebra, Fall 2011 | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

*Contributor: Reine.
*Type: Lecture.
*About: Linear Algebra: This course covers matrix theory and linear algebra, emphasizing topics useful in other disciplines such as physics, economics and social sciences, natural sciences, and engineering.
*Extra: Do you want to see/do this together? Send me an email. Thanks!

 

 

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Cascades in Common: biological network function in evolution

Cascades in Common: biological network function in evolution | E-Norm: Evolutionary Networks, Organisms, Reactions, Molecules | Scoop.it

*Contributor: JD.
*Type: Webpage.
*About: What is a network cascade? And what is their relevance to biological evolution? The answer, while not definitive in this post, is that they contribute to both adaptive variation and variation between species.
*Extra: Nothing.

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