iiinova — where your digital self keeps evolving

Kamil Slowikowski @slowkow.com · 15/08/2026

Maryland Crashes from 2018-2026 Data from mdsp.maryland.gov run.cosmograph.app/public/e09a3...

Visualization of Maryland State Police crash data from 2018–2026 on a dark background. Thousands of color-coded points form dense, interconnected road networks across Maryland, with the greatest concentration in the Baltimore–Washington corridor. Labels identify prominent crash locations and roads.

Reposted by Kamil Slowikowski

Nikolai Slavov @slavov-n.bsky.social · 24/06/2026

Since the 1960s, the genetic code has been used to predict protein sequences from DNA and mRNA sequences. Our @nature.com article demonstrates that these predictions miss thousands of protein sequences present in human tissues. www.nature.com/articles/s41... 1/

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Reposted by Kamil Slowikowski

Reese Richardson @reeserichardson.bsky.social · 28/05/2026

TL;DR: We've identified more than 100 cases of apparent manipulation in Thermo Fisher Scientific's antibody verification data. @sholtodavid.bsky.social @johanduchene.bsky.social reeserichardson.blog/2026/05/28/h...

reeserichardson.blog

How much of Thermo Fisher’s antibody data has been manipulated?

We’ve documented more than 100 instances of apparent data manipulation in Thermo’s catalog

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Reposted by Kamil Slowikowski

Colette Delawalla, PhD @cdelawalla.bsky.social · 27/04/2026

The past 15 months have marked a dark chapter in US science; one that will require significant effort to repair. But I'm not interested in duct tape and bandaid solutions. Our system had problems before Jan 20th, 2025. So, @standupforscience.net is doing what we do best: TAKING ACTION. 1/7

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Mark Histed @markhisted.org · 04/04/2026

An example of the perils of presidential control over science agencies. This Budget Request is dictated by the White House, Vought, and the P2025 OMB, not NSF. We have an imperial presidency, the dream of John Roberts and Charles Koch since the 80s. And it is incompatible with successful science.

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Reposted by Kamil Slowikowski

JAMA @jama.com · 29/03/2026

#HepatitisB virus newborn vaccination rates in the US peaked at 83% in early 2023 but dropped to 73% by August 2025, coinciding with increased public discourse regarding childhood vaccination. ja.ma/47rCO6p

Line graph shows US newborn Hepatitis B virus vaccination rates, forecasting the ratio of HBV vaccinations within 30 days of birth to live births in the US. Actual, ARIMA forecast, and training data are plotted from 2017-2026.

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Reposted by Kamil Slowikowski

Roby Bhattacharyya @roby-b.bsky.social · 22/02/2026

The last part abt how measles disrupts immunity vs other infections is, imo, underappreciated (& mechanism was recently clarified). It's part of why measles vaccination was seen to help beyond just reducing measles complications - not getting measles reduces severity of subsequent infections too.

science.org

Measles virus infection diminishes preexisting antibodies that offer protection from other pathogens

Measles virus infection can cause long-term damage to the immune system.

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Reposted by Kamil Slowikowski

JAMA @jama.com · 16/12/2025

The incidence and prevalence of #melanoma, the fifth most common cancer in the US, have increased over the last 5 decades. This Review summarizes the epidemiology, pathophysiology, diagnosis, and treatment of cutaneous melanoma. ja.ma/4j1AhEC

Diagram of melanoma cell immunotherapy, detailing mechanisms of action of drugs like Ipilimumab, Nivolumab, and Vemurafenib. Highlights interactions between immune cells (T cells) and melanoma cells, targeting pathways like CTLA-4, PD-1, and MAPK signaling.

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Reposted by Kamil Slowikowski

Caleb Lareau @caleblareau.bsky.social · 14/12/2025

We are very excited to share the first preprint of a new direction for our group. Led by the fearless duo of @arthurwchow.bsky.social and @hoyinchu.bsky.social, our foray into computational protein design—

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Kamil Slowikowski @slowkow.com · 04/12/2025

You run a new command in #rlang #python #bash, and you don’t really know how long it should take. Will it be done in 30 seconds? 5 minutes? 45 minutes? Longer? 😫 An automatic notification might help to stay focused on #programming Let me introduce you to ntfy.sh slowkow.com/notes/ntfy/

slowkow.com

Get notifications on desktop and mobile from long-running jobs in your terminal sessions

If you’re like me, you get tired of waiting for long-running jobs in the terminal. You run a new command, and you don’t really know how long it should take to finish. Will it be done in 30 seconds? 5 ...

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Kamil Slowikowski @slowkow.com · 01/12/2025

Cruz Godar shares stunning Javascript and webGL applets that demonstrate the beauty of mathematics. cruzgodar.com

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Reposted by Kamil Slowikowski

Mark Histed @markhisted.org · 13/11/2025

A bad thing is unfolding at NIH this week: It looks like the Trump administration is trying to replace key civil servant scientific leaders, the Institute Directors, with political hires. These directors control the NIH budget, tens of billions. A bit of a video explainer here: 1/ 🧪

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Reposted by Kamil Slowikowski

Nicole E. Basta @nicolebasta.bsky.social · 31/10/2025

Check out our new paper @nejm.org. RSV, COVID-19 & Influenza vaccines continue to show consistent effectiveness & safety based on a review & synthesis of 500+ research studies👇! We worked hard to evaluate the evidence so you can be confident about getting vaccinated this fall!

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Reposted by Kamil Slowikowski

ProPublica @propublica.org · 26/10/2025

South Carolina schools recently sent home unvaccinated kids to stem a growing measles outbreak. It turned out 5 of them were infected and, if they'd been at school, could've unwittingly spread it to their classmates for days. That kind of precaution is now illegal in Idaho.

propublica.org

Idaho Banned Vaccine Mandates. Activists Want to Make It a Model for the Country.

The Idaho Medical Freedom Act makes it illegal to require anyone to take a vaccine or receive “medical intervention.” Leslie Manookian, the activist behind the law, hopes to make it a “societal norm” ...

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Kamil Slowikowski @slowkow.com · 28/10/2025

Your work is very inspiring, thank you for sharing!!

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Kristoffer Magnusson @rpsychologist.com · 28/10/2025

New release of PowerLMM.js! Browser-based power analysis for longitudinal models with dropout. Now includes: - Power analysis summary report - Reproducible & shareable configs (URL/JSON) - Calculations validated against R - Hypothesis region visualization powerlmmjs.rpsychologist.com

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Rolling Stone @rollingstone.com · 16/10/2025

Long Covid Is Real — And It’s Changing an Entire Generation Hundreds of thousands of kids in America are struggling with an illness that many doctors and schools refuse to recognize.e Feature: www.rollingstone.com/culture/cult...

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Kamil Slowikowski @slowkow.com · 02/10/2025

A visualization of average resting heart rate in Germany from 2020 through 2022. Link: corona-datenspende.github.io/en/vitaldata... Data: zenodo.org/records/8229...

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Kamil Slowikowski @slowkow.com · 23/09/2025

A huge thank you to my coauthor Pritha Sen, mentor Chloe Villani, colleague Chris Cosgriff, and the whole COVID-19 Severity team for making this study possible and supporting me all these years. I am very grateful to the hundreds of people who created this opportunity to study disease severity.

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Kamil Slowikowski @slowkow.com · 23/09/2025

While many immunologic abnormalities in acute severe COVID-19 resolve during convalescence 3-months post-infection, we observed persistently high ICOS expression in regulatory T cells, potentially linking acute infection to chronic post-COVID syndromes.

**M.** Volcano plot for convalescent CD4 T cell subset 6 (Treg).
Dots indicate genes, x-axis indicates fold-change, y-axis indicates negative log10 p-value from multivariate linear regression.
Red color indicates FDR < 5%.

**N.** Box plot of *ICOS* gene expression in CD4 T cell subset 6 (Treg) in the convalescent data.
Fold-change and p-value is shown.
Dots represent patients, box plots indicate median and interquartile range, x-axis and hue represent convalescent COVID infection.

**O.** Box plot of *ICOS* gene expression in CD4 T cell subset 13 (Treg) in the acute data.
Dots represent patients, box plots indicate median and interquartile range, x-axis represents time point, and hue represents COVID infection.

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Kamil Slowikowski @slowkow.com · 23/09/2025

We also identify HLA-DQB1 amino acid positions associated with: - COVID-19 disease severity - specific TCRs in CD8 T cells - viral load - neutralization capacity of serum

**E.** Amino acid position associations with COVID severity for HLA-DQB1.
x-axis indicates position along the gene.
y-axis indicates negative log10 p-value from multivariate linear regression.
Black color indicates FDR < 5%.

**F.** Coefficients from the multivariate linear regression for the effect size of each amino acid position on COVID severity.
Amino acid positions D57 and V57 are highlighted.
Error bars indicate 95% CI.

**G.** Bar plots of the number of patients with each genotype.
Facets indicate genotype (0, 1, 2) for amino acid position D57 (top) and V57 (bottom).
x-axis indicates number of patients.
Hue indicates COVID severity.

**H.** Box plot of abundance of CD8 T cells with TRBV28, x-axis indicates time point and hue indicates genotype of HLA-DQB1 V57 (0, 1, 2).
P-value from multivariate linear regression.

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Kamil Slowikowski @slowkow.com · 23/09/2025

We found that tocilizumab eliminates CLU-expressing MDSCs and ISG-positive myeloid subsets, restores antigen presentation, and reactivates productive adaptive immunity. In myeloid cells, the mRNA signature of tocilizumab treatment appears inverse to the signature of disease severity.

A scatter plot where each point represents a gene. The x-axis represents the fold-change of the gene in acute patients who received tocilizumab treatment, where genes induced after treatment are seen on the right and genes repressed after treatment are seen on the left. The y-axis represents the fold-change of the gene in acute patients, where genes associated with worse severity are seen on the top, and genes associated with lesser severity are seeon on the bottom. Some genes are labeled.

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Kamil Slowikowski @slowkow.com · 23/09/2025

Severe disease is also linked to autoantibodies targeting type I interferons, influenced by specific HLA-DQB1 allelic variants, and strongly correlated with serum IL-6 levels. Here is a schematic representation of our findings:

A schematic that shows some factors associated with the severity of COVID-19. Starting with SARS-CoV-2 infection, the adaptive immune response should lead to successful elimination and convalescence. In some patients, various factors such as viral titer, age, autoantibodies, lymphopenia, serum IL-6 levels, TCR and BCR clones, and HLA genotypes can increase risk for severe disease. This leads to a feedback loop wherein lack of viral clearance leads to increased tissue damage. This is associated with myeloid cell dysfunction marked by impaired antigen presentation, which drives a non-productive adaptive immune response, as reflected by reduced expression of B and T cell gene programs involved in antigen recognition, immune synapse formation, and cytotoxicity. The anti-IL-6R antibody, tocilizumab, appears to reverse the mRNA signature of disease severity in myeloid cells.

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Kamil Slowikowski @slowkow.com · 23/09/2025

Our findings show that myeloid dysfunction, which is marked by impaired antigen presentation, drives a non-productive adaptive immune response, as reflected by reduced expression of B and T cell gene programs involved in antigen recognition, immune synapse formation, and cytotoxicity.

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Kamil Slowikowski @slowkow.com · 23/09/2025

We analyzed 2.5 million immune cells from 428 patients in three contemporaneous SARS-CoV-2 cohorts: (1) acutely infected patients across severity levels and time points (2) patients from a trial to study tocilizumab for COVID-19 (3) convalescent patients three months after infection

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Kamil Slowikowski @slowkow.com · 23/09/2025

I'd like to announce the medRxiv preprint of our latest work: A multimodal atlas of COVID-19 severity identifies hallmarks of dysregulated immunity. www.medrxiv.org/content/10.1...

Overview of a research study about COVID-19. The study includes three cohorts: (1) 351 acute COVID-19 patients across 5 severity levels and 3 time points profiled by multiple modalities, (2) 4 acute COVID-19 patients treated with tocilizumab, (3) 73 patients, 43 of whom were previously infected with SARS-CoV-2 3 months ago. The overview shows the general study design and visualizations of the single-cell RNA sequencing data analyzed in this study.

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Kamil Slowikowski @slowkow.com · 13/09/2025

Search #Pubmed and view the results on a 2D embedding. Each point represents a paper, and similar papers are near each other. Colors indicate clusters of similar papers. By Viktor Petukhov github.com/multicore-ca...

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Kamil Slowikowski @slowkow.com · 08/08/2025

1. Make an Excel file with your author information 2. Drag and drop 3. Copy a nicely formatted author list into Word 🐶 slowkow.com/authorbud

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Kamil Slowikowski @slowkow.com · 05/08/2025

"After adjusting for smoking and other risk factors, we observed statistically significant and robust associations between air pollution and mortality." "Air pollution was positively associated with death from lung cancer and cardiopulmonary disease" pubmed.ncbi.nlm.nih.gov/8179653/

A graph from a 1993 article published in the New England Journal of Medicine illustrating the relationship between air pollution and mortality rates in six U.S. cities. The x-axis represents the concentration of fine particles (µg/m³), while the y-axis shows the adjusted mortality-rate ratios. Cities such as Steubenville, OH, and Portage, WI, are marked. The adjusted mortality rate for the most polluted of the cities (Steubenville, OH) is 1.26 times higher than the morality rate least polluted city (Portage, WI). Data from Dockery et al., NEJM 1993.

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Kamil Slowikowski @slowkow.com · 16/07/2025

Convert Markdown to C++, Python, MATLAB, and LaTeX iheartla.github.io by Yong Li

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Kamil Slowikowski @slowkow.com · 15/07/2025

Could you please share the original links or files for the source data you are using in these figures?

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Reposted by Kamil Slowikowski

Stand Up for Science! @standupforscience.net · 14/05/2025

☀️THE SUMMER FIGHT FOR SCIENCE☀️ 🫵 WHO: You + all our friends 🧪 WHAT: Share science with your neighbors and tell them about the impact of proposed budget cuts. 🇺🇸 WHERE: Your local community 🏖️ WHEN: Now to Sept 30th 🔬 WHY: The 9/30 budget vote will determine the future of science in America.

The summer fight for science. The time is now. Join the fight at standupforscience.net.

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Kamil Slowikowski @slowkow.com · 04/07/2025

Thank you for sharing! Your work is inspiring.

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Alex Rubinsteyn @alexr.bsky.social · 04/06/2025

5 pages of this in the HHS Terminated Grants document Link: taggs.hhs.gov/Content/Data...

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BK. Titanji @boghuma.bsky.social · 04/06/2025

The destruction of the medical research enterprise in the U.S. will go down in history as one of the most damaging choices a government has made in setting its population backwards www.nytimes.com/interactive/...

nytimes.com

Here Are the Nearly 2,500 Medical Research Grants Canceled or Delayed by Trump (Gift Article)

Some cuts have been starkly visible, but the country’s medical grant-making machinery has also radically transformed outside the public eye.

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Reposted by Kamil Slowikowski

Michael Baym @baym.lol · 14/05/2025

Yesterday, the NIH R35 “Outstanding Investigator” grant to fund scientists in my lab studying antibiotic resistance was terminated for reasons not related to the content of the science, or any actions taken by me or members of my lab

A screenshot of the termination notice showing "Outstanding Investigator Grants"

A screenshot of the termination notice with "This award is terminated effective the date of this award, due to unsafe antisemitic actions that suggest the institution lacks concern for the safety and wellbeing of Jewish students." highlighted

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Reposted by Kamil Slowikowski

Senator Bernie Sanders @sanders.senate.gov · 30/04/2025

Illegal arrests made by the Trump administration are intended to spread fear and silence dissent. We cannot allow Trump and his cronies to turn the United States of America into an authoritarian society in which people can be disappeared for their political beliefs.

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Representative Becca Balint @balint.house.gov · 16/04/2025

My colleagues and I demand answers from Kristi Noem and Marco Rubio about the illegal and inhumane abduction of Mohsen Mahdawi, a permanent legal resident of the United States. The Constitution guarantees people within our borders basic rights, including due process and free speech.

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Representative Becca Balint @balint.house.gov · 16/04/2025

Kilmar Abrego Garcia must be released and brought home to Maryland. He is innocent. No government can snatch people off the street and ship them to prison without due process. It should terrify us all. I'm thankful @vanhollen.senate.gov is headed there to demand his release.

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Democracy Now! @democracynow.org · 16/04/2025

"It is critically important that we as Americans, regardless of party, stand up for all of these students who are being detained," says Vermont's @balint.house.gov. "This has got to stop. This is Trump creating his own army of brownshirts right here in our country."

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Keenan Crane @keenancrane.bsky.social · 07/04/2025

We often use discretization to approximate continuous laws of physics, but it also goes the other way: You can use continuous equations to approximate the behavior of discrete systems! Here we'll see how electrical circuits can be modeled using the Laplace equation Δφ=0. [1/n]

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Kamil Slowikowski @slowkow.com · 07/04/2025

Thank you so much for taking the time to make such elegant illustrations and explanations.

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Andy Pekosz @andrewpekosz.bsky.social · 25/03/2025

I got the news this morning on two COVID related grants that were being terminated because its no longer seen as a research priority by Health and Human Services. My people have been given their notice. I have no words to express my feelings. www.nbcnews.com/health/healt...

nbcnews.com

CDC is pulling back $11B in Covid funding sent to health departments across the U.S.

“Now that the pandemic is over, the grants and cooperative agreements are no longer necessary," federal health authorities wrote to funding recipients this week.

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BK. Titanji @boghuma.bsky.social · 16/03/2025

I am so grateful for the reporters who are doing the work on telling the story of the incredible negative impact of the cessation of US aid. The human toll is hard to wrap one's head around. This article is a must read. www.nytimes.com/interactive/...

nytimes.com

Opinion | Musk Said No One Has Died Since Aid Was Cut. That Isn’t True. (Gift Article)

A journey through the front lines of global poverty shows that when the world’s richest men slash aid for the world’s poorest children, the result is sickness, starvation and death.

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