Thursday, February 07, 2008
Human Proteinpedia
Human Proteinpedia -- the wonders of the Web.

A researcher at the Johns Hopkins Institute of Genetic Medicine has led the effort to compile to date the largest free resource of experimental information about human proteins. Reporting in the February issue of Nature Biotechnology, the research team describes how all researchers around the world can access this data and speed their own research.

Zounds, eh?

No anonymous postings. Only experimental results. (i.e. no predictions) You must be registered and logged-in to add data, but anyone can query.

Human Proteinpedia is a community portal for sharing and integration of human protein data. It allows research laboratories to contribute and maintain protein annotations. Human Protein Reference Database (HPRD) integrates data, that is deposited in Human Proteinpedia along with the existing literature curated information in the context of an individual protein. All the public data contributed to Human Proteinpedia can be queried, viewed and downloaded.

Data pertaining to post-translational modifications, protein-protein interactions, tissue expression, expression in cell lines, subcellular localization and enzyme substrate relationships can be submitted to Human Proteinpedia.

Protein annotations present in Human Proteinpedia are derived from a number of platforms such as

  • Co-immunoprecipitation and mass spectrometry-based protein-protein interaction
  • Co-immunoprecipitation and Western blotting based protein-protein interaction
  • Fluorescence based experiments
  • Immunohistochemistry
  • Mass Spectrometric Analysis
  • Protein and peptide microarray
  • Western blotting
  • Yeast two-hybrid based protein-protein interaction


And if you understood all that, this site's for you.

So far 71 labs have contributed information on 2,695 experiments covering 15,231 protein entries.

Zounds.

THIS IS WHAT THE WEB IS FOR.

The Web wasn't created just to distribute pron and LOLcats (although it's very good at that too).

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Friday, October 26, 2007
Turn, Turn, Turn*
 
Note the difference between October's full moon (above)



Posted by Picasa

and September's.



Update: and October cropped. [for Asha]
There must be a science lesson here somewhere ...


Update2: and then, of course, there's always



That's 14Nov 2005. How weird is that?

Oh, wait. Daylight Savings Time ... clock falls back ...

* (Turn, Turn, Turn - Pete Seeger)

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Sunday, October 14, 2007
Right Brain v Left Brain
Right Brain v Left Brain

[via Adventures who plucked it from Bryce, who skinned it from Kottke]

Seems the direction you see her spinning determines whether you are left-brain or right-brain.

Right-brain here and I couldn't for the life of me get her to reverse her spin direction until I looked away and in my peripheral vision, she reversed direction! Then I couldn't get her to spin as I'd originally seen until ... I looked away and in my peripheral vision ...

from the original Herald Sun article:

"LEFT BRAIN FUNCTIONS
uses logic
detail oriented
facts rule
words and language
present and past
math and science
can comprehend
knowing
acknowledges
order/pattern perception
knows object name
reality based
forms strategies
practical
safe

RIGHT BRAIN FUNCTIONS
uses feeling
"big picture" oriented
imagination rules
symbols and images
present and future
philosophy & religion
can "get it" (i.e. meaning)
believes
appreciates
spatial perception
knows object function
fantasy based
presents possibilities
impetuous
risk taking"

Hmmm.

Parlor trick?

Eventually, as I was creating this post, I had all of her obscured except her feet and the shadow of her feet and she seemed to be reversing back and forth in a 180deg range.

I must be PERFECTLY BALANCED mind-wise.

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Tuesday, September 25, 2007
Page 3.14 : "What May Happen in the Next Hundred Years," circa 1900.
Entertaining blog entry over at Page 3.14:

Page 3.14 : "What May Happen in the Next Hundred Years," circa 1900.

Earlier today, a friend sent me a link to this old-ish post from the excellent history/art/cultural curiosity blog Paleo-Future. It's a document written by John Elfreth Watkins, Jr., for Ladies' Home Journal in 1900. It is entitled "What May Happen in the Next Hundred Years."

I couldn't resist reading the whole thing (see the big version here), and am compelled—as a person of the future—to log a few replies.


Entertaining snippets from the December 1900 LHJ article and replies from Katherine Sharpe.

Read the article yourself or just dip into Sharpe's blog entry.

[via science blogs from Seed Media]

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Tuesday, June 26, 2007
And as long as we're discussing pain and fashion
On Your Feet by January W. Payne (yes, no kidding, payne) Washington Post Staff Writer. Subtitled: How do shoes affect your feet? Is there a good way to walk in heels? Want to know about Morton's neuroma? How about hammertoe and pump bumps?

A quick snippet from the middle:

One of trendiest shoes this season is YSL's platform "Tribute" -- with a tottering 5 1/2 -inch heel. Often painstakingly selected to complete outfits, shoes like these put stress not just on feet, but on ankles, knees and backs, contributing to the approximately $3.5 billion spent annually in the United States for women's foot surgeries, which cause them to lose 15 million work days yearly.

Ouch.

(mentioned in the comments tail of the previously mentioned aetiology post)

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The things women do for beauty--or, beware the bikini wax
The things women do for beauty--or, beware the bikini wax

Tara C. Smith, an Assistant Professor of Epidemiology, University of Iowa, creates a post with serious ewww factor.

Here's the background: A woman with untreated Type 1 diabetes (making her susceptible to infections) gets a bikini wax. ... She comes down with a fever, swelling and pain where the bikini wax works its magic, waited another week to find a doctor. ... and ...

She presented to the ER with not only "grossly swollen" external genitalia, and pain so extreme that she had to be put under general anesthetic just so her physician could perform a gynecologic exam. She was so swollen that, according to the legend to Figure 1 (which you can find online, as the article is freely available), "she was unable to pass urine, and the vaginal space was obliterated by edema."

Ouch.

The patient also had a rash over her chest and neck. From these clinical signs and the subsequent isolation of S. pyogenes from a urine culture and sample of the vaginal discharge, she was diagnosed with streptococcal cellulitis and toxic shock syndrome, and was also found to have an active herpes simplex virus type 1 infection.


[...]

Ow ow ow ow ow ow ow ....

[via pharyngula. Thanks for the intro to Dr. Smith and aetiology, a blog that discusses "causes, origins, evolution, and implications of disease and other phenomena."]

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Wednesday, June 13, 2007
RIP Mr. Wizard
RIP Mr. Wizard.

During the 1960s and 1970s, about half the applicants to Rockefeller University in New York, where students work toward doctorates in science and medicine, cited Mr. Wizard when asked how they first became interested in science. [ref: International Herald Tribune]

more articles

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Symptoms Found for Early Check on Ovary Cancer
Symptoms Found for Early Check on Ovary Cancer - New York Times

By DENISE GRADY
Published: June 13, 2007

Cancer experts have identified a set of health problems that may be symptoms of ovarian cancer, and they are urging women who have the symptoms for more than a few weeks to see their doctors.

The new advice is the first official recognition that ovarian cancer, long believed to give no warning until it was far advanced, does cause symptoms at earlier stages in many women.

The symptoms to watch out for are bloating, pelvic or abdominal pain, difficulty eating or feeling full quickly and feeling a frequent or urgent need to urinate. A woman who has any of those problems nearly every day for more than two or three weeks is advised to see a gynecologist, especially if the symptoms are new and quite different from her usual state of health.


[...]

Take note. Read the rest of the article too.

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Robot Scans Ancient Manuscript in 3-D
The amazing world of the Web.

Robot Scans Ancient Manuscript in 3-D by Amy Hackney Blackwell

[Action takes place in Venice at the Public Library of St. Mark.]

After a thousand years stuck on a dusty library shelf, the oldest copy of Homer's Iliad is about to go into digital circulation.

[...]

To store the data, the team used a 1-terabyte redundant-disk storage system on a high-speed network. The classicists on duty backed up the data every evening on two 750-GB drives and on digital tape. Blackwell carried the hard drives home with him every night, rather than leave the data in the library.

The next step is making the images readable. The Venetus A is handwritten and contains ligatures and abbreviations that boggle most text-recognition software. So, this summer a group of graduate and undergraduate students of Greek will gather at the Center for Hellenic Studies in Washington, D.C., to produce XML transcriptions of the text. Eventually, their work will be posted online for anyone to search, as part of the Homer Multitext Project.


Brilliant use of technology.

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Tuesday, June 05, 2007
[URL] www.arachnoid.com: a playground for thinkers
OK. This site is just plain mind-stretching. I came to it from the discussion of Olbers' paradox.

Subtitled "a playground for thinkers," this site has articles ranging from science to philosophy to bumperstickers to programming. The index is a breeze to use. The site is full of fascinating stuff.

Dip in: www.arachnoid.com

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Olbers' Paradox: Why is the Sky Dark at Night?
Why is the Sky Dark at Night?

In 1826, the astronomer Heinrich Olbers asked, "Why is the sky dark at night?" By his time, physicists had learned enough to realize that, in a stable, infinite universe with an even distribution of stars, the entire universe should gradually heat up. Think about it — if there are stars generating energy throughout the universe (energy sources), and if there is no way ultimately to dispose of that energy (energy sinks), then all the objects in the universe must rise in temperature, in time achieving the temperature of the stars themselves.

Scientists and physicists had to learn quite a lot about the behavior of energy before they were even prepared to ask Olbers' question. In fact, for millennia the dark night sky provided an answer to a question no one thought to ask.

In these pages you will learn the simple physics behind Olbers' question, some of the answers that have been proposed, and the currently accepted answer. You will also discover the connection between a rubber band, your refrigerator, and the universe.


(Found while looking for information on Olbers' Paradox, natch.)

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[URL] HyperPhysics
HyperPhysics, "a continually developing base of instructional material in physics."

Amazing collection of physics-related information.

(Found whilst looking for information on The Michelson-Morley experiment, which drove a stake into the heart of the theory of a luminiferous aether|ether back in 1887.)

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SparkMuseum
John Jenkins' SparkMuseum

Welcome to my "virtual" radio and scientific instruments museum where I display the radios and other items I have collected over the past 35+ years. I hope you enjoy them as much as I do. I'm always interested in early wireless, radio, scientific and other electrical items up to about 1920 (including books and other publications)

Highlights of Jenkins' collection.

This site is amazing. A prime example of Web sites offering up a treasure trove of information simply because someone (in this case Jenkins) has a passion for a subject.

(Found whilst searching for information on Geissler tubes.)

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Saturday, June 02, 2007
[URL] Gernot Katzer's Spice Pages
Web wandering brought me to Gernot Katzer's Spice Pages.

I'd had the brilliant idea two days ago of creating a Web site called wherecanifind.com/ where, f'rex, if I wanted to know where I could find Long Life Tea in San Francisco, I would go to wherecanifind.com/sanfrancisco and type in my request.

Handy helpful w2.0 folks would swarm the site, providing searchers with solutions.

Alas. I went to godaddy.com and every single wherecanifind.* has been snapped up, except .mobi and ...

Well, another brill idea up in smoke.

But I still wanted to know where I could find Long Life Tea in San Francisco, so I searched and came across the San Francisco Herb Company down on 14th St. which had not only a HUGE inventory but also a small retail operation. (A later post.)

Rambling through the SFHCo site, I came across a reference to Nigella sativa, which I used to have growing in our old front yard. SFHCo was selling it as a cooking spice. Who knew you could use the seeds for cooking? (I always saved them to scatter the next spring ...)

But was the Nigella sativa really the one I'd been growing in my front yard?

Check Google images!

No. Turns out I'd been growing Nigella damascena AKA Love in a Mist.

Ah, well. Still curious, though, a further search took me to Gernot Katzer's Spice Pages where he gave me the lowdown on N.s. in great and gory detail.

What a site. Depth and breadth about spices.

solid information on (currently) 117 different spice plants. Emphasis is on their usage in ethnic cuisines, particularly in Asia; furthermore, I discuss their history, chemical constituents, and the etymology of their names. Last but not least, there are numerous photos featuring the live plants or the dried spices.

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Tuesday, May 29, 2007
[URL] Darwin Correspondence Project
Darwin Correspondence Project

Welcome to the Darwin Correspondence Project’s new web site. The main feature of the site is an online database with the complete, searchable, texts of around 5,000 letters written by and to Charles Darwin up to the year 1865. This includes all the surviving letters from the Beagle voyage - online for the first time - and all the letters from the years around the publication of Origin of species in 1859.

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Monday, May 28, 2007
Do-it-yourself highway repairs
News in ABC [abc.net.au] Science Online - 28/05/2007:

Marching ants fix their own roads

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Thursday, May 03, 2007
[URL] John Woram's Galápagos History & Cartography
The Encantadas: Galápagos History & Cartography

Wide-ranging collection of materials on the Galápagos Islands, Ecuador, collected by the author of CHARLES DARWIN SLEPT HERE.

Ephemera, maps, texts, factoids. Darwin's Journal. Darwin's Diary. H.M.S. Beagle logs. Eleanor Roosevelt "My Day" (her description of her trip to the Galápagos in 1944).

More.

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Tuesday, May 01, 2007
Renzo Piano Building Workshop - Official Site
The official site for Renzo Piano's Renzo Piano Building Workshop.

Nice use of Flash.

RPBW are the architects for the new California Academy of Sciences which is going up in Golden Gate Park, across the Concourse from the DeYoung Museum. The new Academy will open late 2008. 370K sq ft -- of which 95K sq ft are public space. Living roof. Zounds.

We almost stopped into the Academy's temporary digs on Howard Street yesterday, but I was tuckered out, having walked down to SFMOMA to meet up with his nibs and visit, among other exhibits, the Picasso and American Art exhibit. Get there if thee can. Exhibit closes Monday, May 28, 2007.

Philistine that I are, I did not get Brice Marden, especially his monochrome work.

Where were we? Ah, yes: Renzo Piano Building Workshop. The RPBW site covers projects, bio, history, &c. An interactive map gives access to projects worldwide.

Interesting.

(Walked back home again, too, even though it was a free transit day: RT was 4mi+ and then there was all the walking around inside SFMOMA)

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Saturday, April 28, 2007
Are you ocean people?
http://www.ocean.com

It is the mission of The Ocean Channel to provide 'ocean people' from around the world with a comprehensive and centralized source of ocean news, education, conservation, and entertainment.

[...]

Focus is the aggregation, production and distribution of premium ocean content for an array of media--specifically, broadband Internet, television, and DVD home video

Deep resource. Conservation issues. Film.

It is only through knowledge and education that we can expect our audience to recognize the challenges the sea faces now and in the future.

Wander through this one.

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