Elizabeth McDaniel
@lizilla93.bsky.social
Scientist passionate about bioinformatics, microbes, and open science. She/her
elizabethmcdaniel.com
elizabethmcdaniel.com
Reposted by Elizabeth McDaniel
Now published: Systematic comparison of protein language models for transfer learning.
Key points:
- You don't need gigantic models. The two smaller ESM C variants work great.
- There is huge variability in performance across datasets. We have no idea why.
www.nature.com/articles/s41...
Key points:
- You don't need gigantic models. The two smaller ESM C variants work great.
- There is huge variability in performance across datasets. We have no idea why.
www.nature.com/articles/s41...
July 1, 2025 at 11:34 PM
Now published: Systematic comparison of protein language models for transfer learning.
Key points:
- You don't need gigantic models. The two smaller ESM C variants work great.
- There is huge variability in performance across datasets. We have no idea why.
www.nature.com/articles/s41...
Key points:
- You don't need gigantic models. The two smaller ESM C variants work great.
- There is huge variability in performance across datasets. We have no idea why.
www.nature.com/articles/s41...
Reposted by Elizabeth McDaniel
I started a personal #Substack to cultivate my creative writing skills. Let's see how it goes. Opinions are my own.
The first essay: why I think it's probably a bad idea to give 80-year-olds fecal transplants from 20-year-olds. gibbological.substack.com/p/what-the-m...
Subscribe if, you're into it
The first essay: why I think it's probably a bad idea to give 80-year-olds fecal transplants from 20-year-olds. gibbological.substack.com/p/what-the-m...
Subscribe if, you're into it
What the microbiome teaches us about aging gracefully...
...and why we shouldn't necessarily 'turn back the clock'
open.substack.com
July 1, 2025 at 11:51 PM
I started a personal #Substack to cultivate my creative writing skills. Let's see how it goes. Opinions are my own.
The first essay: why I think it's probably a bad idea to give 80-year-olds fecal transplants from 20-year-olds. gibbological.substack.com/p/what-the-m...
Subscribe if, you're into it
The first essay: why I think it's probably a bad idea to give 80-year-olds fecal transplants from 20-year-olds. gibbological.substack.com/p/what-the-m...
Subscribe if, you're into it
Reposted by Elizabeth McDaniel
The way people are talking about the current demolition of research funding and HE legitimacy reminds me of the early days of COVID when I (and others) said it would be at least six years before any normalcy. Rage, despondency, rejection…eventually voting for a dictator just to feel alive.
June 3, 2025 at 9:13 PM
The way people are talking about the current demolition of research funding and HE legitimacy reminds me of the early days of COVID when I (and others) said it would be at least six years before any normalcy. Rage, despondency, rejection…eventually voting for a dictator just to feel alive.
Reposted by Elizabeth McDaniel
My painting WISCONSIN FARM
May 26, 2025 at 5:35 PM
My painting WISCONSIN FARM
Reposted by Elizabeth McDaniel
I hate to be that guy, but this is the five-alarm fire, and every elected Democrat and frankly, every Washington reporter should be ringing the bell. If it can happen to him, it can happen to anyone. Nobody with a voice should give this administration a moment’s peace about it.
NEW: A second filing today from the DOJ tells Judge Xinis that in their view, since Mr. Abrego is in Bukele's custody, she can't order them to do anything further to bring him back since that's not what "facilitate" means.
They also say the deal with Bukele is classified and/or a state secret.
They also say the deal with Bukele is classified and/or a state secret.
April 13, 2025 at 11:43 PM
I hate to be that guy, but this is the five-alarm fire, and every elected Democrat and frankly, every Washington reporter should be ringing the bell. If it can happen to him, it can happen to anyone. Nobody with a voice should give this administration a moment’s peace about it.
Reposted by Elizabeth McDaniel
In his 1957 filibuster, Strom Thurmond said "Negroes ... are not so well qualified to vote as are the white people.”
A Black senator just broke the record Thurmond set with that speech.
talkingpointsmemo.com/news/cory-bo...
A Black senator just broke the record Thurmond set with that speech.
talkingpointsmemo.com/news/cory-bo...
Cory Booker Just Gave The Longest Speech In The History of The US Senate
Only two men have spoken on the floor of the U.S. Senate...
talkingpointsmemo.com
April 1, 2025 at 11:31 PM
In his 1957 filibuster, Strom Thurmond said "Negroes ... are not so well qualified to vote as are the white people.”
A Black senator just broke the record Thurmond set with that speech.
talkingpointsmemo.com/news/cory-bo...
A Black senator just broke the record Thurmond set with that speech.
talkingpointsmemo.com/news/cory-bo...
Reposted by Elizabeth McDaniel
Right now, there’s an important race happening that will shape the Wisconsin Supreme Court for the next 10 years. Judge Susan Crawford is ready to protect the fundamental rights and freedoms of all Wisconsinites.
Make a plan to vote early today — don’t wait until April 1st: wisdems.org/vote
Make a plan to vote early today — don’t wait until April 1st: wisdems.org/vote
Find Your Voting Locations | WISDEMS Voter Protection Team
This searchable map shows you early voting and dropbox info for hundreds of villages, towns, and cities across Wisconsin. Enter the address you're registered at and your options will pop up!
wisdems.org
March 25, 2025 at 8:06 PM
Right now, there’s an important race happening that will shape the Wisconsin Supreme Court for the next 10 years. Judge Susan Crawford is ready to protect the fundamental rights and freedoms of all Wisconsinites.
Make a plan to vote early today — don’t wait until April 1st: wisdems.org/vote
Make a plan to vote early today — don’t wait until April 1st: wisdems.org/vote
Reposted by Elizabeth McDaniel
This is so evil that it defies understanding. A transplant surgeon on an H1B visa was deported, despite a court injunction. She had committed no crimes.
This must stop. We must stand together to protect immigrants and visitors against state terrorism.
www.providencejournal.com/story/news/l...
This must stop. We must stand together to protect immigrants and visitors against state terrorism.
www.providencejournal.com/story/news/l...
Brown Medicine doctor deported despite federal court order. What we know.
A court order that would have delayed the deportation of Dr. Rasha Alawieh was issued while her plane was on the tarmac, but it took off anyway.
www.providencejournal.com
March 16, 2025 at 12:26 PM
This is so evil that it defies understanding. A transplant surgeon on an H1B visa was deported, despite a court injunction. She had committed no crimes.
This must stop. We must stand together to protect immigrants and visitors against state terrorism.
www.providencejournal.com/story/news/l...
This must stop. We must stand together to protect immigrants and visitors against state terrorism.
www.providencejournal.com/story/news/l...
Reposted by Elizabeth McDaniel
Today @natmedicine.bsky.social published our study showing the older individuals born prior to 1968 have more antibodies that cross-react to #H5N1 relative to younger individuals. If H5N1 causes a pandemic, children will likely be the most susceptible. 1/2
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Immune history shapes human antibody responses to H5N1 influenza viruses - Nature Medicine
H5N1 strain-specific antibodies are higher in older individuals and correlate more with birth year than with age, suggesting that younger individuals are potentially more likely to benefit from H5N1 v...
www.nature.com
March 13, 2025 at 5:39 PM
Today @natmedicine.bsky.social published our study showing the older individuals born prior to 1968 have more antibodies that cross-react to #H5N1 relative to younger individuals. If H5N1 causes a pandemic, children will likely be the most susceptible. 1/2
www.nature.com/articles/s41...
www.nature.com/articles/s41...
My college symphony orchestra director Dr. Robert Mueller passed away last week, and he was an incredibly passionate musician and teacher. Some of my most cherished memories were very small acts of kindness on his behalf. He will be incredibly missed.
news.uark.edu/articles/769...
news.uark.edu/articles/769...
Department of Music Mourns Passing of Robert Mueller; Memorial Scheduled for March 12
Professor Robert Kent Mueller, a beloved member of the U of A community for 37 years, died March 6. A visitation will be held today at Good Shepherd Lutheran Church with a memorial on Wednesday.
news.uark.edu
March 13, 2025 at 1:24 AM
My college symphony orchestra director Dr. Robert Mueller passed away last week, and he was an incredibly passionate musician and teacher. Some of my most cherished memories were very small acts of kindness on his behalf. He will be incredibly missed.
news.uark.edu/articles/769...
news.uark.edu/articles/769...
Reposted by Elizabeth McDaniel
geneviewer - Gene Cluster Visualizations in R. Imports data from GenBank, FASTA, and GFF files, performs BlastP and MUMmer alignments, and displays results on gene arrow maps. github.com/nvelden/gene... #Rstats
March 7, 2025 at 7:30 PM
geneviewer - Gene Cluster Visualizations in R. Imports data from GenBank, FASTA, and GFF files, performs BlastP and MUMmer alignments, and displays results on gene arrow maps. github.com/nvelden/gene... #Rstats
Reposted by Elizabeth McDaniel
I'm on the new episode of Tyler Cowen's podcast talking about AIR-BORNE, plus some of my other books. Listen here: conversationswithtyler.com/episodes/car...
Carl Zimmer on the Hidden Life in the Air We Breathe (Ep. 235)
From the mysteries of airborne disease to the search for extraterrestrial life, what are we missing about the unseen world around us?
conversationswithtyler.com
March 5, 2025 at 3:14 PM
I'm on the new episode of Tyler Cowen's podcast talking about AIR-BORNE, plus some of my other books. Listen here: conversationswithtyler.com/episodes/car...
Reposted by Elizabeth McDaniel
Breaking: FDA's March meeting to select flu shot strains for 2025-2026 season has been canceled per email sent to committee members, a VRBPAC member told me. drug companies need about 6 months leeway to make shots in time for fall vax campaigns. #healthpolicy
February 26, 2025 at 11:17 PM
Breaking: FDA's March meeting to select flu shot strains for 2025-2026 season has been canceled per email sent to committee members, a VRBPAC member told me. drug companies need about 6 months leeway to make shots in time for fall vax campaigns. #healthpolicy
Reposted by Elizabeth McDaniel
Last October, we took a trip to the World Forestry Center in Portland, Oregon, for a daylong exploration of lichen—the fuzzy growths often found on trees, roofs, and gravestones. Two experts joined us to discuss the fascinating world of lichen and their role in a changing climate.
What Lichen Tell Us About Ecology, Air Quality, And More
Ira is joined on stage by experts in Portland, Oregon, to talk about the amazing world of lichen and their role in a changing climate.
buff.ly
February 23, 2025 at 4:17 PM
Last October, we took a trip to the World Forestry Center in Portland, Oregon, for a daylong exploration of lichen—the fuzzy growths often found on trees, roofs, and gravestones. Two experts joined us to discuss the fascinating world of lichen and their role in a changing climate.
Reposted by Elizabeth McDaniel
Legitmately thrilled to share our latest work, in which @fernpizza.bsky.social solved an experimental challenge in plasmid biology as old as the field: measuring how plasmids compete and evolve within individual cells!
February 21, 2025 at 8:42 PM
Legitmately thrilled to share our latest work, in which @fernpizza.bsky.social solved an experimental challenge in plasmid biology as old as the field: measuring how plasmids compete and evolve within individual cells!
Reposted by Elizabeth McDaniel
I had the pleasure of being interviewed by @markowenmartin.bsky.social on his Fantastic "Microbial Matters" podcast about my group's work on the #drinkingwatermicrobiome. You can watch it here. www.youtube.com/watch?v=JDAU...
www.youtube.com
January 6, 2025 at 7:01 PM
I had the pleasure of being interviewed by @markowenmartin.bsky.social on his Fantastic "Microbial Matters" podcast about my group's work on the #drinkingwatermicrobiome. You can watch it here. www.youtube.com/watch?v=JDAU...
Reposted by Elizabeth McDaniel
In winter through early spring, you can sometimes find unspoiled, still-bright groundcherries sitting in the latticed remnants of their husks, like hearts suspended in paper ribcages
January 6, 2025 at 7:37 PM
In winter through early spring, you can sometimes find unspoiled, still-bright groundcherries sitting in the latticed remnants of their husks, like hearts suspended in paper ribcages
Reposted by Elizabeth McDaniel
Ten species comprise half of the bacteriology literature, leaving most species unstudied
@biorxiv-microbiol.bsky.social by Paul A Jensen
www.biorxiv.org/content/10.1...
B. subtilis is #6 😍, anyhow, the literature is biased to models
Would publications on plants or animals be similarly biased?
@biorxiv-microbiol.bsky.social by Paul A Jensen
www.biorxiv.org/content/10.1...
B. subtilis is #6 😍, anyhow, the literature is biased to models
Would publications on plants or animals be similarly biased?
January 5, 2025 at 3:05 PM
Ten species comprise half of the bacteriology literature, leaving most species unstudied
@biorxiv-microbiol.bsky.social by Paul A Jensen
www.biorxiv.org/content/10.1...
B. subtilis is #6 😍, anyhow, the literature is biased to models
Would publications on plants or animals be similarly biased?
@biorxiv-microbiol.bsky.social by Paul A Jensen
www.biorxiv.org/content/10.1...
B. subtilis is #6 😍, anyhow, the literature is biased to models
Would publications on plants or animals be similarly biased?
Reposted by Elizabeth McDaniel
There are really only two "mystery box" shows that I felt were worth my time last year and this coming year (for "mystery box shows," think LOST): FROM and SILO. As always, your mileage may differ.
January 1, 2025 at 9:29 PM
There are really only two "mystery box" shows that I felt were worth my time last year and this coming year (for "mystery box shows," think LOST): FROM and SILO. As always, your mileage may differ.
Reposted by Elizabeth McDaniel
We're doing an *emergency* Bookstore and Chocolate Crawl on Saturday Jan. 11.
We'll visit Medicine For Nightmares and Adobe, which suffered massive flood damage recently.
Then we'll hit East Bay Booksellers, recovering from a fire. Plus Pegasus!
Details/RSVP: www.eventbrite.com/e/emergency-...
We'll visit Medicine For Nightmares and Adobe, which suffered massive flood damage recently.
Then we'll hit East Bay Booksellers, recovering from a fire. Plus Pegasus!
Details/RSVP: www.eventbrite.com/e/emergency-...
EMERGENCY Bookstore and Chocolate Crawl!
We're calling on you to help two bookstores that were flooded in recent storms, plus another bookstore that just reopened after a nasty fire
www.eventbrite.com
December 30, 2024 at 2:01 AM
We're doing an *emergency* Bookstore and Chocolate Crawl on Saturday Jan. 11.
We'll visit Medicine For Nightmares and Adobe, which suffered massive flood damage recently.
Then we'll hit East Bay Booksellers, recovering from a fire. Plus Pegasus!
Details/RSVP: www.eventbrite.com/e/emergency-...
We'll visit Medicine For Nightmares and Adobe, which suffered massive flood damage recently.
Then we'll hit East Bay Booksellers, recovering from a fire. Plus Pegasus!
Details/RSVP: www.eventbrite.com/e/emergency-...
Reposted by Elizabeth McDaniel
Our latest issue is now out!
- Animals as chemical factories
- How housing shortages cause homelessness
- Where the glamour of progress went
- How big data created the modern dairy cow
- Urbanist cruise ships
- Functionalism
- How Madrid built its Metro
- Animals as chemical factories
- How housing shortages cause homelessness
- Where the glamour of progress went
- How big data created the modern dairy cow
- Urbanist cruise ships
- Functionalism
- How Madrid built its Metro
Home - Works in Progress
Works in Progress is an online magazine dedicated to sharing new and underrated ideas to improve the world, and features original writing from some of the most interesting thinkers in the world.
worksinprogress.co
December 5, 2024 at 4:40 PM
Our latest issue is now out!
- Animals as chemical factories
- How housing shortages cause homelessness
- Where the glamour of progress went
- How big data created the modern dairy cow
- Urbanist cruise ships
- Functionalism
- How Madrid built its Metro
- Animals as chemical factories
- How housing shortages cause homelessness
- Where the glamour of progress went
- How big data created the modern dairy cow
- Urbanist cruise ships
- Functionalism
- How Madrid built its Metro