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Without an after or a when.Papercut feat. Maiken Sundbycan you hear the rain?more quotes

a rat: exciting


Scientific graphical abstracts — design guidelines


Alex — Internet's Most Popular Rat

Poster Rat for Rat Genome Sequencing

The rat genome sequencing project at the Baylor College of Medicine Human Genome Sequencing Centre is complete. The genome has been analyzed and published.

I'd like to introduce you one of the faces of the project: Alex, the genomics rat idol.

Arguably, Alex is the most popular rat on the internet. For the justification of this strong statement, read on.

rat (Rattus norvegicus) on genome sequencer - alex on an abi 3700 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Alex, the rat. Rattus norvegicus on an ABI 3700 genome sequencer. (zoom)
rat (rattus norvegicus) on genome sequencer - alex on an abi 3700 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Alex, the rat. Rattus norvegicus on an ABI 3700 genome sequencer. (zoom)

Alex's Biography

Alex was born in May 2000. It's well known that a rat's cuteness reaches maximum at about 3-4 weeks. After this critical time, a pet store rat is less likely to be purchased and may be asked to act as snake food. In Alex's case, she was perilously close to her deadline. Luckily for her, we paid a ransom of $6.99 to the Noah's Ark pet shop in Vancouver. She was on her last cute leg.

Portrait of Alex, the genome rat (Rattus norvegicus). / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Portrait of Alex, the genome rat (Rattus norvegicus). Here, she is seen in a forced portrait position (zoom)

From May 2000 Alex spent most of her time hoarding food pellets and riding on shoulders.

Portrait of Alex, the genome rat (Rattus norvegicus). Riding on shoulder. / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Portrait of Alex, the genome rat (Rattus norvegicus). Riding on shoulder.

Alex liked to bite. And rats only bite hard — they don't nibble. Her contention for this unattractive behaviour was the uncanny similarity between a finger and a pellet of food.

Other than unpredictable bouts of biting (by far the most exciting aspect of her personality), Alex lacked other distinguishing characteristics.

Alex died of a seizure in late 2002. She was buried outside of the Museum of Anthropology. A ratty pair of underwear served as a burial shroud.

And I hope you got that last pun.

DOWNLOAD ALL PHOTOS.

Photos are for public use. Use, modification and distribution of these photos is unrestricted.

Alex's Popularity

Despite my best efforts at meaningful work, this web page continues to be the most popular of all my online offerings, making for a somewhat embarrassing achievement.

Alex's images consistently show up first in Google's web search for 'rat', 'rat image' and image search for 'rat'.

Portrait of Alex, the genome rat (Rattus norvegicus). / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Alex image is the first for Google's 'rat' search query (retrieved 16 Mar 2013). (rat Google search)
Portrait of Alex, the genome rat (Rattus norvegicus). / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Alex image is the first for Google's 'rat image' search query (retrieved 16 Mar 2013). (rat Google search)

Finally, Alex appears as the first entry in Google images for 'rat'.

Portrait of Alex, the genome rat (Rattus norvegicus). / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Alex image is the first for Google's 'rat image' search query (retrieved 16 Mar 2013). (rat Google search)

Alex's Public Appearances

Alex is neither without modesty nor public fame. Her first cover-ratgirl appearance was on the April 2004 issue of Genome Research.

Rat Issue of Genome Research, April 2004 / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Alex the rat appeared on the cover of Genome Research (April 2004). (zoom)

More recently, she's appeared on the cover of Ethnologie Francaise (Jan-Mar 2009 issue).

Alex the rat on the cover of Ethnologie Francaise (1/2009) / Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Alex the rat appeared on the cover of Ethnologie Francaise (1/2009). (zoom)

The topic of the issue was the relationship between animals and humans. It is fitting therefore to recount here the relationship I shared with Alex during her sojourn with us.

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news + thoughts

Music for the Moon: Flunk's 'Down Here / Moon Above'

Sat 29-05-2021

The Sanctuary Project is a Lunar vault of science and art. It includes two fully sequenced human genomes, sequenced and assembled by us at Canada's Michael Smith Genome Sciences Centre.

The first disc includes a song composed by Flunk for the (eventual) trip to the Moon.

But how do you send sound to space? I describe the inspiration, process and art behind the work.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
The song 'Down Here / Moon Above' from Flunk's new album History of Everything Ever is our song for space. It appears on the Sanctuary genome discs, which aim to send two fully sequenced human genomes to the Moon. (more)

Browse the genome discs.

Happy 2021 `\pi` Day—
A forest of digits

Sun 14-03-2021

Celebrate `\pi` Day (March 14th) and finally see the digits through the forest.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
The 26th tree in the digit forest of `\pi`. Why is there a flower on the ground?. (details)

This year is full of botanical whimsy. A Lindenmayer system forest – deterministic but always changing. Feel free to stop and pick the flowers from the ground.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
The first 46 digits of `\pi` in 8 trees. There are so many more. (details)

And things can get crazy in the forest.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
A forest of the digits of '\pi`, by ecosystem. (details)

Check out art from previous years: 2013 `\pi` Day and 2014 `\pi` Day, 2015 `\pi` Day, 2016 `\pi` Day, 2017 `\pi` Day, 2018 `\pi` Day and 2019 `\pi` Day.

Testing for rare conditions

Sun 30-05-2021

All that glitters is not gold. —W. Shakespeare

The sensitivity and specificity of a test do not necessarily correspond to its error rate. This becomes critically important when testing for a rare condition — a test with 99% sensitivity and specificity has an even chance of being wrong when the condition prevalence is 1%.

We discuss the positive predictive value (PPV) and how practices such as screen can increase it.

Martin Krzywinski @MKrzywinski mkweb.bcgsc.ca
Nature Methods Points of Significance column: Testing for rare conditions. (read)

Altman, N. & Krzywinski, M. (2021) Points of significance: Testing for rare conditions. Nature Methods 18:224–225.