Archive for genomics
July 27, 2007 at 9:47 PM · Filed under genomics, making it public, visualization
Mostly these are notes to myself.
http://www.bootstrap.org/dkr/discussion/1316.html
…. Because documents are simply points on the map, it is possible for
ThemeScape to show thousands of documents at once without overwhelming
the user. Zooming into the map reveals greater detail. For any region on
the map, a click of the mouse pops up a list of documents with related
content. Pointing to any document title displays a short text summary.
A mouse click links the user directly to the original document…..
http://www.pnl.gov/news/1995/nws95-07.htm
In Themescape, themes in the documents are layered and appear on the computer screen as a relief map of natural terrain. The mountains in Themescape indicate where themes are concentrated in the underlying documents; and their shapes — a broad butte or a high pinnacle — reflect how the thematic information is distributed and related across documents.
http://availabletechnologies.pnl.gov/technology.asp?id=129
July 24, 2007 at 10:56 PM · Filed under art, biology, complex systems, critical theory, genomics, interdisciplinary, metaphors
Gabriel A. Harp
Leonardo. August 2007, Vol. 40, No. 4, Pages 376-381
Evidence from language, history and form suggest an analogy between the cinema and the genome. The author describes some of the relationships between cinema and the genome and points to opportunities for discovering unmarked categories within the genome and new methods of representation. This is accomplished by evaluating existing metaphors presented for the understanding of genetics and revealing how current scientific understanding and social concerns suggest a cinematic alternative. The formal principles of function, difference and development mediate discussion and serve as heuristics for investigating creative opportunities.
June 3, 2007 at 7:46 AM · Filed under genomics, maps
Zack Denfeld and I had the opportunity to make a visit to The Institute for Transgeneography* in Troy, NY as part of (very brief) residency in association with our former advisor Rich Pell.
It was a valuable experience–if even just for the two days of freedom form dstraction to cognitively focus on the design and implementation of a visual analysis of the identity and distribution of patents on the Y chromosome.
One of the visual precedents we’ve started to develop relates to traditional Japanese woodblock prints and the ways that this approach organizes information. Here are some sketches.
The Institute for Transgeneography is a project whose primary objective is to create the world’s first comprehensive map of engineered transgenic flora and fauna. The project will consist of a database of transgenic organisms and the web interface that will make the information available to the public at large.
March 26, 2007 at 8:45 PM · Filed under art, bioinformatics, genes, genomics, interdisciplinary, visual culture
As part of the Penny Stamps Lecture Series at the University of Michigan School of Art & Design, the Liz Lerman Dance Exchange will perform excerpts from Ferocious Beauty: Genome on April 5th at 5pm in the Michigan Theatre, Ann Arbor, MI.
Liz Lerman, founder and artistic director of the Liz Lerman Dance Exchange, recently completed a four-year collaboration between scientists and choreographers culminating in Ferocious Beauty: Genome, a multi media dance/theater work that explores the human implications of discoveries in genetic science. Created with geneticists from organizations including The Institute for Genomic Research, Wesleyan University, Stanford University, Princeton University and Howard University, Ferocious Beauty has toured from Connecticut to California, deepening dialogue between science and the arts. Lerman will be joined by two dancers who will perform excerpts from Ferocious Beauty: Genome.
more…
http://www.art-design.umich.edu/ev_lectures.php?aud=e&menucat=ne#lerman
http://www.danceexchange.org/performance/ferociousbeautygenome.html#ff
March 10, 2007 at 9:26 PM · Filed under bioinformatics, boundary objects, Design, digital design, evolution, genes, genomics, making it public, maps, molecular biology, network entrepreneurship, visualization, yeast
The collaborative work of graduate student Gabriel Harp and Chris Landau (MFA ’06) on the Organelle View project was published in the January issue of Nucleic Acids Research.
“The project makes a gigantic leap in the distribution of biological data–moving it beyond the conventional representations of names and numbers to embrace the visual and organismal aspects of cellular and molecular forms”, says Harp.
“Organelle View is a scientific visualization application allowing users to dynamically generate a visual interpretation of data from Organelle DB. Organelle View presents a searchable interface with a three-dimensional representation of an archetypical cell. Rather than representing organelles and subcellular structures by text, Organelle View offers an artist’s rendering of a cell and its major organelles. At present, we have chosen a budding yeast cell (S.cerevisiae) as the model for Organelle View, largely because protein localization has been studied quite extensively in yeast; future versions of Organelle View will incorporate additional cell types from other organisms.”
(Wiwatwattana, N., Landau, C.M., Cope, G.J., Harp, G.A., & Kumar, A. (2007). Organelle DB: an updated resource of eukaryotic protein localization and function. Nucleic Acids Research, 35, D810-D814.)
full text via PubMed
February 23, 2007 at 9:42 AM · Filed under genes, genomics, visualization
February 20, 2007 at 10:33 AM · Filed under biology, biotechnology, genes, genomics, teaching and learning, visualization
I recently had the opportunity to visit the exhibit GENOME: The Secret of How Life Works at the New York Hall of Science. Because part of my strategy for interacting with the world and the designs of culturally-embedded objects is to make their implicit sets of meanings explicit, I paid close and careful attention to the dominant metaphors employed in this exhibit. I was particularly interested in how the metaphors did or did not support the mission of the exhibit’s main sponsor, Pfizer.
Here is a summary list of those metaphors:
>Genome: Cracking the code
>Secrets(“this is the secret of you”)
>Gene switches shown with electric light switches that, when switched on, revealed concepts with text
>recipes with secrets
>recipes made in a factory
DNA=zippers
DNA=stuff
double helix=ideal shape
genes=DNA
DNA is a copy cat
proteins=origami
choreography in cells
cutting and pasting
cellular “community”
cell “world”
junk dna was, interestingly, deemphasized and implicated in the process of recombination
genes on chromosomes are like pairs of shoes
“the frontier” of research presented as a techno/ambient soundtrack with digital visualizations
“staying ahead of the flood” (of information, I hope)
time traveling
Information about applied careers and technology was presented after watson, crick, and franklin. Topics included:
gene therapy
bioinformatics
counseling
chemistry
treatments
newborn testing
drugs
stem cells = supercells
heredity slot machine (with the phrasing, “genes allow“)
The Reality Checks! (irony that reality is presented in a theatre)
-genetic engineering
-swapping genes from different animals
-cloning
-stem cells
February 11, 2007 at 9:22 AM · Filed under boundary objects, genomics, maps, sketches, yeast
January 13, 2007 at 12:09 PM · Filed under cinema, critical theory, genomics
Chromosoma
mixed media
2006
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