Looking into spaced repetition for learning new things and revisiting old topics - languages, specific math/physics/CS, etc. Anyone have favorite Web sites, apps, approaches, blog posts, tips/tricks to share? Thank you!
MDCompress: better, faster compression of molecular dynamics simulation trajectories Marek Kokot , Amitava Roy , Travis J Wheeler , Sebastian Deorowicz
Product of a terrific collaboration with @sdeorowicz.bsky.social, Marek Kokot, and Amit Roy:
doi.org/10.1093/bioi...
MDCompress produces compressed trajectory files that are up to 37% smaller than in the widely-used XTC format. Nice software library interfaces for fast (de-)compression.
A good day to remember not to judge all
members of a religion by the actions of a political leader affiliated with that religion. Equally true of US, Afghanistan, Israel, or others. The corollary is that criticism of the politician or country is not criticism of an entire religion or ethnicity.
Phage receptor prediction from genome sequencing alone. Bacterial receptor (blue) interacting with phage proteins (purple) is shown here
๐ฃHuge preprint ๐
Today we share something our group has been working toward for a long time, led by @lucasmoriniere.bsky.social We asked can we predict which receptor a phage targets from its genome sequence alone? For most phages, we couldnโt. So Lucas set out to do something I had only dreamed of.
Have you considered using Gemini? I've been told repeatedly that this is the search engine I should be using.
๐ฅ๏ธ ๐งฌ โ๏ธ ๐ฌ
2-week computational biology workshop in Singapore. No registration fee or expenses for US citizens. Protein annotation, function, structural modeling, and simulation. compbioasia.net
Due to an error on the website, application deadline is extended to March 30, so apply quickly.
Biotics Pro, LLC
๐ฃ๐ผ๐๐๐ฑ๐ผ๐ฐ ๐ฎ๐ป๐ฑ ๐ฃ๐ต๐ ๐ฝ๐ผ๐๐ถ๐๐ถ๐ผ๐ป๐ ๐ถ๐ป ๐๐ผ๐บ๐ฝ๐๐๐ฎ๐๐ถ๐ผ๐ป๐ฎ๐น ๐๐ฒ๐ป๐ผ๐บ๐ถ๐ฐ๐ / ๐๐น๐ด๐ผ๐ฟ๐ถ๐๐ต๐บ๐ถ๐ฐ ๐๐ถ๐ผ๐ถ๐ป๐ณ๐ผ๐ฟ๐บ๐ฎ๐๐ถ๐ฐ๐
I am currently recruiting for both:
๐น Postdoc position
su.varbi.com/what:job/job...
๐น PhD position
su.varbi.com/en/what:job/...
Please share with anyone who might be interested!
We are looking for a Postdoc to join our lab at @oxfordbiochemistry.bsky.social. This is a dry-lab focused post on the computational analysis of long read single-cell sequencing data to understand the role of transposable elements (TEs) in early development. my.corehr.com/pls/uoxrecru... #TEsky
๐ฅ๏ธ ๐งฌ โ๏ธ ๐ฌ Plz spread the word. 2-week computational biology workshop in Singapore. No registration fee or expenses for US citizens. Protein annotation, function, structural modeling, and simulation. ~35 attendees. Lectures and hands-on tutorials with intensive instructor interaction. compbioasia.net
New neuroscience job at Wilfrid Laurier University. You may not know the name, but science has been growing fast. It is also down the street from Canada's top tech university (Waterloo) and a world class physics institute (Perimeter). I feel happy and lucky to be here careers.wlu.ca/job/Waterloo...
The FM-index LF mapping is just an LSB radix sort step!
๐ฅ๏ธ ๐งฌ โ๏ธ ๐ฌ Plz spread the word. 2-week computational biology workshop in Singapore. No registration fee. No expenses for US citizens. Protein annotation, function, structural modeling, and simulation. ~35 attendees. Lectures and hands-on tutorials with intensive instructor interaction. compbioasia.net
๐ฅ๏ธ ๐งฌ โ๏ธ ๐ฌ Plz spread the word. 2-week computational biology workshop in Singapore. No registration fee. No expenses for US citizens. Protein annotation, function, structural modeling, and simulation. ~35 attendees. Lectures and hands-on tutorials with intensive instructor interaction. compbioasia.net
Someone held a clandestine birthday party in your office last night, and forgot to clean up after themselves?
Organized by faculty from University of Montana and University of Arizona, with National University of Singapore and A*STAR. Lecturers and project mentors from the USA, Europe, and Asia.
Requirements: Grad-level research experience in at least one stream (genomics, computational structural biology, MD, or AI), interest in learning the others, comfort with UNIX command line, and some programming proficiency.
Topics span (light) genomics โ molecular modeling โ molecular dynamics, all through the lens of protein function. Emphasis on modern computational methods (AI & simulation). Mix of lectures + hands-on small-group project work.
Please spread the word:
We invite applications to a two-week Computational Biology workshop in Singapore, June 14-27.
This NSF-funded workshop brings together 16-20 US grad students with international peers.
Apply by March 21: compbioasia.net
๐งต Details below:
22-year-old me would have been all-in on this advice. Pretty sure I did it once or twice.
53-year-old me is like: "Could I pull it off? I think I could do it ... honey, should I try it?!"
One might say that your social media influence is saaging
Xfinity for the win!
Reminiscent of the copy of Procrastinator's Handbook sitting on our bookshelf.
Anyone who has ever had the joy of using Google tech support will know that ... ugh.
So it's completely on-brand that, when I tried to submit a bug report today, this happened:
(1) Push buttons to raise "Bug Report" window
(2) Click "Bug Report" button
(3) nothing ...
(Support couldn't help)
For I was hungry, and you gave me foodโฆ whatever you did for one of the least of these brothers and sisters of mine, you did for me.
- Some woke schmuck
Exciting symposium on AI and Biology at EMBO | EMBL in Heidelberg on 10-13 March 2026!
Excellent lineup of invited speakers across various scales of biology!
Deadline for abstract submission is coming up โ Dec 2.
๐ www.embl.org/about/info/c...
#EESAIBio @EMBLEvents
A new release of RepeatMasker is available. This version fixes a bug introduced in 4.2.1 that impacted the handling of poly-A tails and the naming of LINE annotations. See repeatmasker.org for more release details.
I just asked my dogs, and they were pretty clear on the concept: just after 5PM *is* dinner time.
The allotetraploid lycophyte Selaginella rupincola growing among the boulders at Cochise Stronghold in the Dragoon Mountains southeast of Tucson, Arizona.
Xanthisma spinulosum growing outside a gym in Tucson, Arizona.
Selaginella arizonica X eremophila hybrid zone at Alamo Canyon in Organ Pipe National Monument.
A Dieteria sp. being visited by a skipper in the White Mountains of Arizona.
I'm recruiting PhD students for the Barker Lab @uofa-eeb.bsky.social We study plant evolutionary genomics - polyploidy, hybridization & machine learning for genome evolution. Work with Selaginella, Xanthisma, Brassica & more. Funding available via CAMBIUM Fellowships. Reach out if interested! ๐งฌ๐ต๐ค
Please pass along - Our CAMBIUM NSF NRT provides fellowships to support new PhD students at @uarizona.bsky.social To train & prepare a new generation of scientists to harness the revolution in biodiversity big data to adapt to & mitigate the impacts of climate change. cambium.arizona.edu ๐งช๐๐พ