alex ioannidis
@alexgioannidis.bsky.social
computational genomics, precision health, professing, kitesurfing, sailing
καὶ γνώσεσθε τὴν ἀλήθειαν, καὶ ἡ ἀλήθεια ἐλευθερώσει ὑμᾶς
https://ai-page.org
καὶ γνώσεσθε τὴν ἀλήθειαν, καὶ ἡ ἀλήθεια ἐλευθερώσει ὑμᾶς
https://ai-page.org
This matches my experience.
The implementation of this system has increased inequality in some cases.
Underrepresented groups are underrepresented in getting extra exam time in my classes, imposing an additional burden on those groups, as others shift their exam times forward, chasing the curve.
The implementation of this system has increased inequality in some cases.
Underrepresented groups are underrepresented in getting extra exam time in my classes, imposing an additional burden on those groups, as others shift their exam times forward, chasing the curve.
How redefining special needs rocked education on.ft.com/4iRbp22 | opinion
How redefining special needs rocked education
Broadened criteria are benefiting the better-off, harming those facing greatest difficulty and straining the system
on.ft.com
December 20, 2025 at 5:08 PM
This matches my experience.
The implementation of this system has increased inequality in some cases.
Underrepresented groups are underrepresented in getting extra exam time in my classes, imposing an additional burden on those groups, as others shift their exam times forward, chasing the curve.
The implementation of this system has increased inequality in some cases.
Underrepresented groups are underrepresented in getting extra exam time in my classes, imposing an additional burden on those groups, as others shift their exam times forward, chasing the curve.
Reposted by alex ioannidis
Life is what happens when you’re busy trying to get your paper published
December 16, 2025 at 5:25 PM
Life is what happens when you’re busy trying to get your paper published
Reposted by alex ioannidis
Student acceptance of violence to silence speakers is at a record high.
In 2020, 1 in 5 students said violence was acceptable to stop a speaker. In 2025, that number is 1 in 3.
That’s a 79% increase in just five years. And it’s chilling.
In 2020, 1 in 5 students said violence was acceptable to stop a speaker. In 2025, that number is 1 in 3.
That’s a 79% increase in just five years. And it’s chilling.
September 12, 2025 at 7:42 PM
Student acceptance of violence to silence speakers is at a record high.
In 2020, 1 in 5 students said violence was acceptable to stop a speaker. In 2025, that number is 1 in 3.
That’s a 79% increase in just five years. And it’s chilling.
In 2020, 1 in 5 students said violence was acceptable to stop a speaker. In 2025, that number is 1 in 3.
That’s a 79% increase in just five years. And it’s chilling.
Reposted by alex ioannidis
The attorney general would be wise to read the words of the Supreme Court, which has repeatedly held that the "proudest boast" of America's free speech tradition is "freedom for the thought that we hate."
September 16, 2025 at 1:04 PM
The attorney general would be wise to read the words of the Supreme Court, which has repeatedly held that the "proudest boast" of America's free speech tradition is "freedom for the thought that we hate."
"He retired from public performances in the 1970s and focused on teaching. He taught for many years at the University of California, Santa Cruz, splitting his time between there and Cambridge."
Tom Lehrer had it all figured out. RIP to one of my heroes.
www.npr.org/2025/07/27/8...
Tom Lehrer had it all figured out. RIP to one of my heroes.
www.npr.org/2025/07/27/8...
Tom Lehrer, influential musical satirist, dies at 97
The songwriter and math professor found a following with his satirical political songs.
www.npr.org
July 28, 2025 at 5:15 AM
"He retired from public performances in the 1970s and focused on teaching. He taught for many years at the University of California, Santa Cruz, splitting his time between there and Cambridge."
Tom Lehrer had it all figured out. RIP to one of my heroes.
www.npr.org/2025/07/27/8...
Tom Lehrer had it all figured out. RIP to one of my heroes.
www.npr.org/2025/07/27/8...
Reposted by alex ioannidis
After restrictions on aid imposed by Israel, medics in Gaza are fainting in hospitals and lack supplies to stop patients’ malnourishment. “The expression ‘skin and bones’ doesn’t do it justice.” nyti.ms/3J5WDXp
July 27, 2025 at 7:48 PM
After restrictions on aid imposed by Israel, medics in Gaza are fainting in hospitals and lack supplies to stop patients’ malnourishment. “The expression ‘skin and bones’ doesn’t do it justice.” nyti.ms/3J5WDXp
I'm disturbed by tenured faculty on here behaving like high school bullies.
I ask them to look up ad hominem and recognize that what Mamdani did was atrocious and newsworthy.
Why are we defending an uber-privileged applicant whose father was faculty at the Ivy League university he was applying to?
I ask them to look up ad hominem and recognize that what Mamdani did was atrocious and newsworthy.
Why are we defending an uber-privileged applicant whose father was faculty at the Ivy League university he was applying to?
July 5, 2025 at 6:45 PM
I'm disturbed by tenured faculty on here behaving like high school bullies.
I ask them to look up ad hominem and recognize that what Mamdani did was atrocious and newsworthy.
Why are we defending an uber-privileged applicant whose father was faculty at the Ivy League university he was applying to?
I ask them to look up ad hominem and recognize that what Mamdani did was atrocious and newsworthy.
Why are we defending an uber-privileged applicant whose father was faculty at the Ivy League university he was applying to?
Reposted by alex ioannidis
After a quarter of a century, the UCSC Genome Browser remains an essential tool for navigating the genome and understanding its structure, function and clinical impact
https://go.nature.com/40wPxkB
https://go.nature.com/40wPxkB
’We couldn’t live without it’: the UCSC Genome Browser turns 25
After a quarter of a century, the website remains an essential tool for navigating the genome and understanding its structure, function and clinical impact.
go.nature.com
June 30, 2025 at 11:49 AM
After a quarter of a century, the UCSC Genome Browser remains an essential tool for navigating the genome and understanding its structure, function and clinical impact
https://go.nature.com/40wPxkB
https://go.nature.com/40wPxkB
Reposted by alex ioannidis
It is with great sadness that we mourn the loss of our friend and colleague Dr. Atul Butte. A hui hou Atul. We will miss you.
June 14, 2025 at 2:31 AM
It is with great sadness that we mourn the loss of our friend and colleague Dr. Atul Butte. A hui hou Atul. We will miss you.
Reposted by alex ioannidis
I have an opportunity to hire a staff scientist for my lab. Looking for someone with outstanding skillset in ML/statistics, genomics applications; interest in mentoring, strong publication record, PD experience required.
Email CV to me+cc my assistant (see 'contact' on my website). Ad to follow.
Email CV to me+cc my assistant (see 'contact' on my website). Ad to follow.
June 1, 2025 at 3:33 PM
I have an opportunity to hire a staff scientist for my lab. Looking for someone with outstanding skillset in ML/statistics, genomics applications; interest in mentoring, strong publication record, PD experience required.
Email CV to me+cc my assistant (see 'contact' on my website). Ad to follow.
Email CV to me+cc my assistant (see 'contact' on my website). Ad to follow.
Reposted by alex ioannidis
Most proteins are left-handed, but scientists have found an ancient molecule that works in both mirror-image forms
https://go.nature.com/4mCImRm
https://go.nature.com/4mCImRm
Rare ‘ambidextrous’ protein breaks rules of handedness
Most proteins are left-handed, but scientists have found an ancient molecule that works in both mirror-image forms.
go.nature.com
May 29, 2025 at 3:48 PM
Most proteins are left-handed, but scientists have found an ancient molecule that works in both mirror-image forms
https://go.nature.com/4mCImRm
https://go.nature.com/4mCImRm
Very sad to see this.
Cemal Kafadar is a deep, evenhanded scholar, and had a formative influence on my understanding of Ottoman history as an undergraduate.
www.thecrimson.com/article/2025...
Cemal Kafadar is a deep, evenhanded scholar, and had a formative influence on my understanding of Ottoman history as an undergraduate.
www.thecrimson.com/article/2025...
March 29, 2025 at 5:43 PM
Very sad to see this.
Cemal Kafadar is a deep, evenhanded scholar, and had a formative influence on my understanding of Ottoman history as an undergraduate.
www.thecrimson.com/article/2025...
Cemal Kafadar is a deep, evenhanded scholar, and had a formative influence on my understanding of Ottoman history as an undergraduate.
www.thecrimson.com/article/2025...
Reposted by alex ioannidis
Imagine getting this text
![Nearly simultaneously, at approximately 7:02 p.m., Ms. Chung received a text
message from a number previously unknown to her, saying: "Hi, Yunseo. This is Audrey from the
police. My job is to reach out to you and see if you have any questions about your recent arrest
and the process going forward. When are [sic] available for a phone call?"](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:qrllvid7s54k4hnwtqxwetrf/bafkreih4efjchfebza6qjktkedhrsponybzoedwx4xvajvhvb4onu6q5jy@jpeg)
March 24, 2025 at 9:17 PM
Imagine getting this text
Reposted by alex ioannidis
We Were Badly Misled About the Event That Changed Our Lives @zey.bsky.social
Opinion | We Were Badly Misled About Covid
The same dangerous mistakes. The same lack of candor.
www.nytimes.com
March 16, 2025 at 2:59 PM
We Were Badly Misled About the Event That Changed Our Lives @zey.bsky.social
"The secret history of Syria’s new leader, Ahmed al-Sharaa"
Financial Times
on.ft.com/3FepkzK
The new jihadist leader of Syria went to fight for Saddam Hussein & fought for al-Baghdadi of ISIS, but now being a religious minority resisting him makes you bad (Assad remnant) according to NYT (below).
Financial Times
on.ft.com/3FepkzK
The new jihadist leader of Syria went to fight for Saddam Hussein & fought for al-Baghdadi of ISIS, but now being a religious minority resisting him makes you bad (Assad remnant) according to NYT (below).
March 8, 2025 at 9:18 PM
"The secret history of Syria’s new leader, Ahmed al-Sharaa"
Financial Times
on.ft.com/3FepkzK
The new jihadist leader of Syria went to fight for Saddam Hussein & fought for al-Baghdadi of ISIS, but now being a religious minority resisting him makes you bad (Assad remnant) according to NYT (below).
Financial Times
on.ft.com/3FepkzK
The new jihadist leader of Syria went to fight for Saddam Hussein & fought for al-Baghdadi of ISIS, but now being a religious minority resisting him makes you bad (Assad remnant) according to NYT (below).
Reposted by alex ioannidis
If you live in San Francisco, you should punish whoever is behind your city suing the EPA.
SCOTUS holds that the EPA *cannot* order cities to maintain acceptable water quality standards by limiting the discharge—usually sewage—that they dump into nearby bodies of water (like oceans and bays). The four women justices, dissenting, say that's ridiculous. www.supremecourt.gov/opinions/24p...
March 4, 2025 at 3:28 PM
If you live in San Francisco, you should punish whoever is behind your city suing the EPA.
Reposted by alex ioannidis
The CIA has said for years that it did not have enough information to conclude how the Covid pandemic originated. The agency has issued a new assessment this week, with analysts saying they now favor the theory that it emerged from an accidental leak at a research lab in Wuhan, China.
C.I.A. Now Favors Lab Leak Theory to Explain Covid’s Origins
A new analysis that began under the Biden administration is released by the C.I.A.’s new director, John Ratcliffe, who wants the agency to get “off the sidelines” in the debate.
nyti.ms
January 25, 2025 at 7:55 PM
The CIA has said for years that it did not have enough information to conclude how the Covid pandemic originated. The agency has issued a new assessment this week, with analysts saying they now favor the theory that it emerged from an accidental leak at a research lab in Wuhan, China.
Reposted by alex ioannidis
More U.S. eighth graders are getting low scores on a federal reading test now than at any time in the exam’s three-decade history, according to the latest test scores.
American Children’s Reading Skills Reach New Lows
With little post-pandemic recovery, experts wonder if screen time and school absence are among the causes.
www.nytimes.com
January 29, 2025 at 2:51 PM
More U.S. eighth graders are getting low scores on a federal reading test now than at any time in the exam’s three-decade history, according to the latest test scores.
Reposted by alex ioannidis
Researchers paid $9 billion over 5 years for their findings to be freely accessible.
This is based on a study of the global expenditure on article processing charges (APCs) paid to six publishers for open access between 2019 and 2023. arxiv.org/abs/2407.16551
This is based on a study of the global expenditure on article processing charges (APCs) paid to six publishers for open access between 2019 and 2023. arxiv.org/abs/2407.16551
Estimating global article processing charges paid to six publishers for open access between 2019 and 2023
This study presents estimates of the global expenditure on article processing charges (APCs) paid to six publishers for open access between 2019 and 2023. APCs are fees charged for publishing in some ...
arxiv.org
January 26, 2025 at 5:12 PM
Researchers paid $9 billion over 5 years for their findings to be freely accessible.
This is based on a study of the global expenditure on article processing charges (APCs) paid to six publishers for open access between 2019 and 2023. arxiv.org/abs/2407.16551
This is based on a study of the global expenditure on article processing charges (APCs) paid to six publishers for open access between 2019 and 2023. arxiv.org/abs/2407.16551
Reposted by alex ioannidis
It’s a wrap! Another successful @pacsym.bio session on “Overcoming health disparities.” Great papers and panel/discussion session. Thanks to authors and co-organizers.
January 6, 2025 at 8:16 AM
It’s a wrap! Another successful @pacsym.bio session on “Overcoming health disparities.” Great papers and panel/discussion session. Thanks to authors and co-organizers.
Reposted by alex ioannidis
Our work w/ two co-first authors Drew DeHaas and Ziqing Pan is now published. GRG allows large amounts of WGS polymorphism data to be analyzed in RAM via graph traversal & algebra operations & has some intrinsic connection w/ popgen data generating process & is different from ARG
December 5, 2024 at 5:09 PM
Our work w/ two co-first authors Drew DeHaas and Ziqing Pan is now published. GRG allows large amounts of WGS polymorphism data to be analyzed in RAM via graph traversal & algebra operations & has some intrinsic connection w/ popgen data generating process & is different from ARG
Reposted by alex ioannidis
A new era of genomics is here 🧬 Complete human genome sequences have filled gaps in genomes, while pangenomes capture genetic diversity across populations.
Check out "Beyond the Human Genome Project" review: www.annualreviews.org/content/jour...
@khmiga.bsky.social @benedictpaten.bsky.social
Check out "Beyond the Human Genome Project" review: www.annualreviews.org/content/jour...
@khmiga.bsky.social @benedictpaten.bsky.social
Beyond the Human Genome Project: The Age of Complete Human Genome Sequences and Pangenome References | Annual Reviews
The Human Genome Project was an enormous accomplishment, providing a foundation for countless explorations into the genetics and genomics of the human species. Yet for many years, the human genome ref...
www.annualreviews.org
April 30, 2024 at 3:30 PM
A new era of genomics is here 🧬 Complete human genome sequences have filled gaps in genomes, while pangenomes capture genetic diversity across populations.
Check out "Beyond the Human Genome Project" review: www.annualreviews.org/content/jour...
@khmiga.bsky.social @benedictpaten.bsky.social
Check out "Beyond the Human Genome Project" review: www.annualreviews.org/content/jour...
@khmiga.bsky.social @benedictpaten.bsky.social