Cell Graphs

by Mary Martialay on February 2, 2017

Could the same approach that mapped the Internet be used to identify tumor cells? Bulent Yener, who has devoted more than a decade of research to the idea, recently reviewed how his work and that of other researchers contributed to biomedical research in “Cell-Graphs: Image-Driven Modeling of Structure-Function Relationships,” published in the January edition of Communications of the Association of Computing Machinery. The above video, which accompanies the article, explains how Yener and other researchers used an unorthodox analysis of the interactions between cells to determine their function.

In the video, Yener, a Rensselaer professor of computer science and director of the Data Science Research Center, explains how he transferred the techniques he applied in working on a map of the Internet produced by Bell Labs in 1999 to systems biology:

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(In this guest post, Devin Jones, a graduate student in the lab of Rensselaer biologist and Jefferson Project at Lake George Director Rick Relyea, discusses research results recently published in the journal Environmental Pollution. The research tests the effects of road salt and road salt alternatives alone and in combination with natural stressors on vernal pond communities. This research is part of the Jefferson Project – a collaboration between Rensselaer, IBM Research, and The FUND for Lake George – founded to develop a new model for technologically enabled environmental monitoring and prediction to better understand and protect the Lake George ecosystem and freshwater ecosystems around the world.)

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(In this guest post, Aaron Stoler, a postdoctoral researcher in the lab of Rensselaer biologist and Jefferson Project at Lake George Director Rick Relyea, discusses how the Relyea lab investigates the impact of stressors on stream communities. This research is part of the Jefferson Project – a collaboration between Rensselaer, IBM Research, and The FUND for Lake George – founded to develop a new model for technologically enabled environmental monitoring and prediction to better understand and protect the Lake George ecosystem and freshwater ecosystems around the world.)

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(For some 2016 is the 25th anniversary of the World Wide Web (more about the veracity of that milestone below). In this post, Rensselaer professor James Hendler answers some questions about the evolution of the web in its first 25 years, and what we can expect in the next quarter century. Hendler, one of the originators of the Semantic Web, is the director of the Rensselaer Institute for Data Exploration and Applications (IDEA) — a campus wide institute that supports data-centric, interdisciplinary activities — and the Tetherless World Professor of Computer, Web and Cognitive Sciences at Rensselaer.)

How has the World Wide Web changed since it was first conceived?

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(In this guest post, Aaron Stoler, a postdoctoral researcher in the lab of Rensselaer biologist and Jefferson Project at Lake George director Rick Relyea, discusses research results recently published in the journal Environmental Toxicology and Chemistry. The research tests the effects of road salt alone and in combination with a common insecticide on wetland communities. This research is part of the Jefferson Project – a collaboration between Rensselaer, IBM Research, and The FUND for Lake George – founded to develop a new model for technologically enabled environmental monitoring and prediction to better understand and protect the Lake George ecosystem and freshwater ecosystems around the world.)

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Zooplankton, the smallest animals in the food chain, are critical to the ecology of lakes like Lake George. But studying them in the wild – by measuring biomass, species composition, behavior, and diet – is a challenge. How do you track a borderline microscopic animal in the vast volume of water (an estimated 550 billion gallons) that fills the Lake George basin?

Typically, a researcher like Alex Pezzuoli relies on data that he collects by hand – visiting five different sites on Lake George twice a week, and using a fine net to collect samples of zooplankton and water for analysis. For each sampling event, he gets about 20 data points across the whole lake.

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This summer, on July 4, all eyes were up in space as Juno successfully entered into orbit around Jupiter, where it was scheduled to perform measurements and transmit the data back to Earth. The environment there has very high levels of radiation, and thus the instruments on Jupiter were designed to withstand these radiation levels, thanks in part to the role that Rensselaer researchers played in the flight that has made history.

 

Mission to Jupiter

Juno is only the second spacecraft to orbit Jupiter and the first solar-powered craft to do so, following behind the nuclear powered Galileo probe, which orbited from 1995 to 2003.

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The Winning Algorithm

by Mary Martialay on October 17, 2016

(In this post, Rensselaer graduate student Salles Viana Gomes de Magalhães talks about his First Place Overall Award in the 2016 TripAdvisor programming challenge, held September 17. Graduate and undergraduate students from 18 select universities in the United States and Canada were invited to compete in the event, with cash prizes awarded to top two students from each school, and additional prizes to the top three students overall.

Prior to this win, Gomes de Magalhães had already racked up an impressive trophy case within his field. His wins include: second place in GISCUP 2015, and fourth place at GISCUP 2014 – the Geographic Information Systems (GIS) focused algorithm competition, a programming competition co-located with the Association for Computing Machinery SIGSPATIAL GIS conference; three first place and one second place win in Upsilon Pi Epsilon honor society contests hosted at Rensselaer; first place as part of a two-person team competing in the Microsoft College Code Competition, and a recent first place win in the Bloomberg CodeCon competition, both of which were held at Rensselaer.)

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[Curt Breneman, dean of the School of Science, recently sat down with News Channel 13 reporter Benita Zhan for a report on the safety of personal care products. The topic has been in the news as Congress considers legislation that would authorize Food and Drug Administration oversight of cosmetics, against a backdrop of recent accounts of cosmetic and hair care products with adverse effects. Breneman is a chemist. He earned his doctorate from the University of California at Santa Barbara in chemistry, with an emphasis on physical organic and computational chemistry. His research is in the field of computational chemistry and predictive cheminformatics, with emphasis on computational drug discovery methodology and materials informatics methods. This guest post summarizes the key points Breneman made in his interview, and some of the advice he has for consumers.]

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(The challenge: Create a mechanism that makes it possible for instructors to track students and for student to earn credit for their attendance or participation in activities like theatrical events, concerts, exhibitions, or lectures, regardless of whether they are on or off campus. The answer: “Venue,” an attendance validation app and web platform being developed by the Rensselaer Center for Open Source (RCOS). In this post, Severin Ibarluzea, an RCOS mentor, core Venue developer, and senior in computer systems engineering, discusses the process of building Venue.)

First a word from our sponsor, the Rensselaer School of Science, which is supporting the development of Venue. Curt Breneman, dean of the School of Science, came up with the idea, and here’s what he said about his original vision, and how he hopes the Institute will use the platform.

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