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Modeling in the Search for New Drugs—G-Protein-Coupled Receptors (GPCRs)

Explore the contents of this article with a free Wolfram SystemModeler trial. Yesterday, the Nobel Prize in Chemistry was awarded to Robert J. Lefkowitz and Brian K. Kobilka for having mapped how a family of cellular receptors called G-protein-coupled receptors (GPCRs) work. The Nobel Prize winners' research has proven to be very important in the development of novel therapeutic drugs—about 40–50% of all therapeutic drugs in use today are centered on GPCRs. The real beauty of GPCR-based response systems is that they include components that are used over and over again for the response to external signals in many kinds of cellular functions throughout our bodies. Sight, smell, and the adrenaline response are examples of these GPCR-mediated responses with physiologically important functions. Identifying new targets for therapeutic drug intervention includes analysis of the complex webs of signaling pathways and feedback systems in our cells, extending beyond the first event of a signal connecting with the GPCR on the cell surface, which is non-trivial. Lately the cost-effective practice of using mathematical models as an initial step for finding those elusive new targets, and also as a tool for understanding how other reactions of a cell might be affected by a new drug, has been growing. In this blog post we are going to use modeling and simulation in order to illustrate how the GPCR-based cellular response to an external signal can be modified. And by performing this analysis, I thought we should also see how we can find promising targets for therapeutic drug design, which are then aimed at either increasing or decreasing the response. Since the first two steps in the pathways are identical in most of the GPCR-based signal responses in a cell, we can freely choose a representative model. One such well understood signal response pathway that uses GPCR is the mating pheromone response in yeast, which we are here going to explore using Mathematica and Wolfram SystemModeler.
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“What Are You Going to Do Next?”
Introducing the Predictive Interface

There aren’t very many qualitatively different types of computer interfaces in use in the world today. But with the release of Mathematica 9 I think we have the first truly practical example of a new kind—the computed predictive interface. If one’s dealing with a system that has a small fixed set of possible actions or […]

Announcements & Events

Mathematica Experts Live: New in Mathematica 9

Curious about Mathematica 9? You can see it in action in three free online events. Our experts will introduce you to new features in usability, computation, data manipulation, and visualization. Live Q&A sessions during each event will give you a chance to ask questions. Topics covered: Predictive Interface and Units: December 10, 1–2pm EST Get a look at the new interface paradigm and systemwide units support. Our experts will demonstrate the next-computation Suggestions Bar, context-sensitive Input Assistant, and units features, from unit conversion to dimensional analysis.   Social Networks and Data Science: December 12, 1–2:30pm EST Learn about Mathematica 9's new social network analysis capabilities with built-in access to social media data, plus other graphs and networks enhancements and new computational features in data science, such as reliability, survival analysis, and random processes.   Data Manipulation and Visualization: December 14, 1–2:30pm EST Get the scoop on new features for image and signal processing, interactive gauges, legends for plots and charts, and integrating with R directly from our experts.  
Announcements & Events

Mathematica 9 Is Released Today!

I’m excited to be able to announce that today we’re releasing Mathematica 9—and it’s big! A whole array of new ideas and new application areas… and major advances along a great many algorithmic frontiers. Next year Mathematica will be 25 years old (and all sorts of festivities are planned!). And in that quarter century we’ve […]

Announcements & Events

Now Playing: Wolfram Technology Conference 2012 Videos

Wolfram technology users from around the world gathered in our headquarter city last month for another successful Wolfram Technology Conference. Attendees got exclusive access to the latest information about our emerging technologies and gained insights from colleagues who shared innovative ways of using Wolfram products. A selection of videos from the conference is now available on YouTube. Check them out to see some of the creative applications our users have developed, including a high-level interface to MIDI sound, an innovative way to solve a Rubik's Cube from pictures, and a route finding system... just to name a few.
Announcements & Events

Wolfram Innovator Awards 2012

Stephen Wolfram presented the second annual Wolfram Innovator Awards at the 2012 Wolfram Technology Conference to honor individuals who have made significant contributions to their industry or field of science. Nominated by Wolfram employees and selected by a panel of Wolfram technology experts, this year’s winners are: Craig W. Carter, Professor of Materials Science and Engineering at MIT Robert B. Nachbar, Mathematician, Chemist, and Biologist at Merck Research Laboratories Thomas Roux, Financial Risk Manager at BRED Banque Populaire Rubén Berrocal and Marisa Talavera, National Secretary for Science and Technology and Director of Innovation in Learning (respectively), Panama Government Richard Anderson, Computer Scientist Fred Szabo, Mathematics and Statistics Professor, Concordia University
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Code Length Measured in 14 Languages

Update: See our latest post on How the Wolfram Language Measures Up. I stumbled upon a nice project called Rosetta Code. Their stated aim is "to present solutions to the same task in as many different languages as possible, to demonstrate how languages are similar and different, and to aid a person with a grounding in one approach to a problem in learning another." After amusing myself by contributing a few solutions (Flood filling, Mean angle, and Sum digits of an integer being some of mine), I realized that the data hidden in the site provided an opportunity to quantify a claim that I have often made over the years—that Mathematica code tends to be shorter than equivalent code in other languages. This is due to both its high-level nature and built-in computational knowledge. Here is what I found. Mathematica code is typically less than a third of the length of the same tasks written in other languages, and often much better.
Education & Academic

Wolfram Research and American Education Week

This week is American Education Week (November 11–17), and in a very fundamental way, our goal as a company is to improve educational standards and accessibility around the world with our technology. For over 20 years, Wolfram Research has been at the forefront of combining technology with education. It started with Mathematica and grew with Wolfram|Alpha, mobile apps, the Wolfram Demonstrations Project, Wolfram SystemModeler, and much more. From simple elementary math to highly complex physics, Wolfram's tools are used not only around the nation, but around the whole world. Next year marks the 25th anniversary of Mathematica. Today, Mathematica is a staple at both research universities and smaller liberal arts colleges. In fact, Mathematica has been adopted by many school systems throughout the country, including SUNY, CUNY, and the Minnesota State Colleges and Universities System (MnSCU). We've partnered with MnSCU to make Mathematica available to Minnesota public high schools through an outreach program. And the government of Panama, having recognized the importance of investing in its future, has recently focused on teaching Mathematica to professors, researchers, and students in all computer-accessible high schools and universities countrywide.
Education & Academic

Join The Computer-Based Math™ Education Forum

The computerbasedmath.org community has been growing steadily since the project first started in 2010. Several thousand of you have signed up to show your support, share your ideas, and help spread the word. The Computer-Based Math™ Education Summit has been a great tool for bringing the community together, but we wanted a central hub where the community can gather more than just once a year. So we've launched the The Computer-Based Math Education Forum. Whatever your background, join the conversation and share your experiences.