David Knowles
VerifiedArticles by David Knowles
A meta-analysis of single-nucleus expression quantitative trait loci linking genetic risk to brain disorders
Abstract Most genetic risk variants for neurological diseases are located in noncoding regulatory regions, where they often act as expression quantitative trait loci (eQTLs), modulating gene expression and influencing disease susceptibility. However, eQTL studies in bulk brain tissue or cell lines fail to capture the brain’s cellular diversity. Single-nucleus RNA sequencing (snRNA-seq) allows high-resolution mapping of eQTLs across diverse brain cell types.
Mapping isoforms and regulatory mechanisms from spatial transcriptomics data with SPLISOSM - Nature Biotechnology
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Abstract Transcript diversity including splicing and alternative 3′ end usage is crucial for cellular identity and adaptation, yet its spatial coordination remains poorly understood. Here we present SPLISOSM (spatial isoform statistical modeling), a method for detecting isoform-resolution patterns from spatial transcriptomics data. SPLISOSM uses multivariate testing with nonparametric kernels to account for spot-level and isoform-level dependencies, achieving high statistical power on sparse data.
By Jiayu Su, Megan D. Schertzer, Haochen Yang, Jiahao Jiang, Theodore Nelson, Stella Park, David Knowles Verified
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Nature
Verified
[2509.25230] Energy Guided Geometric Flow Matching
arXiv:2509.25230 (cs) View PDF HTML (experimental) Subjects: Machine Learning (cs.LG); Artificial Intelligence (cs.AI) Cite as: arXiv:2509.25230 [cs.LG] (or arXiv:2509.25230v1 [cs.LG] for this version) https://doi.org/10.48550/arXiv.2509.25230 Submission history From: Mingxuan Zhang [ view email] [v1] Thu, 25 Sep 2025 00:42:28 UTC (280 KB) Bibliographic Tools Bibliographic Explorer Toggle Bibliographic Explorer () Connected Papers Toggle Connected Papers (What is Connected Papers?) Litmaps...
Phenotypic complexities of rare heterozygous neurexin-1 deletions - Nature
Abstract Given the large number of genes significantly associated with risk for neuropsychiatric disorders, a critical unanswered question is the extent to which diverse mutations—sometimes affecting the same gene—will require tailored therapeutic strategies.
Republicans and a conservative think tank sound the alarm over Trump's tariffs
As the economic repercussions from President Trump’s sweeping tariffs continue to unfold, some members of his own party are warning that a prolonged trade war could cost Republicans control of Congress. Last week, Sen.
U.S. tourism is hurting amid Canadian anger at Trump
Canadian anger with President Trump’s tariff and immigration policies appears to be causing a sharp decline in tourism from Canada, which is hurting businesses in the United States. Roughly 4 million fewer Canadians are expected to visit the U.S. this year compared with 2024, according to an estimate by the travel analytics firm Tourism Economics, the Washington Post reported. That could result in a revenue loss of $4.3 billion, but the decline in visitors is already having an impact.
Scientists sound warning over Trump cuts - and 75% consider leaving the U.S.
This week, in response to President Trump’s ongoing cuts to scientific research and staffing at federal agencies, nearly 2,000 of the country’s leading scientists signed a letter urging the administration to “cease its wholesale assault on U.S. science.” “We see real danger in this moment,” the letter, which was signed by a number of Nobel Prize winners, stated. “We hold diverse political beliefs, but we are united as researchers in wanting to protect independent scientific inquiry.
More than 1,100 anti-Trump demonstrations planned in all 50 states this Saturday
More than 1,100 “Hands Off!” protests and meetings are planned in nationwide demonstrations across all 50 states on Saturday in what organizers say are a response to the dramatic cuts to the federal workforce overseen by Trump adviser and Tesla CEO Elon Musk. “Donald Trump and Elon Musk think this country belongs to them,” the organizers say on their website.
Cory Booker's record-breaking speech got hundreds of thousands of views and millions of likes on social media. Now what?
Breaking Sen. Strom Thurmond’s record for the longest Senate speech in history was just one of the things Sen. Cory Booker accomplished on Tuesday. Portions of his 25-hour-and-five-minute speech, which began Monday evening and ended Tuesday night, were viewed by millions of Americans, either on social media, on evening newscasts, at a time when President Trump has dominated headlines.
Despite the increasingly gloomy news about climate change, scientist Katharine Hayhoe offers skeptics a sunny attitude
Texas Tech scientist Katharine Hayhoe has spent the past 20 years grappling with the question of how to convince skeptics that global temperatures are rising and that climate change poses a threat to life as we know it. After earning a PhD from the University of Illinois and moving with her husband to deepred Lubbock, Texas, in 2005, she quickly realized that whether someone believes in climate change often boils down to where one resides on the political spectrum.
How climate change is impacting golf in Florida
For Florida, the state with the most golf courses in the United States, rising summer temperatures are forcing changes to the way the game is played. Andy, a 43-year-old resident of Jacksonville who asked that his last name be withheld, follows a mental checklist to deal with oppressive summer conditions on the golf course. “Drink water beforehand, bring electrolyte powder for drink mixes, wear a wide-brim hat, wear sunscreen and bring a cooling towel,” he told Yahoo News.
Size of 'Tesla Takedown' protest movement continues to grow
BERKELEY, Calif. — Over 1,000 demonstrators filled the street in front of a Tesla dealership Saturday in this Bay Area city synonymous with the free speech movement of the late 1960s, to voice their displeasure with Elon Musk’s efforts to dramatically scale down the federal workforce. “This whole thing about an unelected person doing so much damage to the federal government...
an invitation
Hello. This post is about Death & Birds. A pair of Pheasants have, joyously, made our garden their home. We’d heard them for weeks, their squawks getting closer and closer until one morning, there they were; she, hesitant in the long grass, he walking boldly across the lawn. Now, whenever the Pheasants are home, we move differently. They insist a slower pace.
Trump's tariffs on Canadian lumber could result in toilet paper shortages in the U.S.
Five years after the global shortages of toilet paper at the start of the coronavirus pandemic, President Trump's proposed tariffs on Canadian lumber could leave U.S. stores struggling to stock it once again. The Trump administration had threatened to hike tariffs on Canadian softwood lumber to 27% as soon as April 2, and possibly to as high as 50% by an unspecified date, Bloomberg reported.
After RFK Jr. recommends vitamin A as a measles treatment, some Texas patients show signs of toxicity
Weeks after Health and Human Services Secretary Robert Kennedy Jr. touted vitamin A as an effective treatment for measles amid the largest outbreak of disease in decades, hospitalized patients in West Texas are being treated for signs of vitamin A toxicity. Several patients at Covenant Children’s Hospital in Lubbock have been found to have abnormal liver function, CNN reported, which can occur when a person takes excessive doses of vitamin A.
Like it or not, Amazon will be sent your Alexa voice recordings starting Friday
On March 28, Amazon Echo users will lose their ability to withhold sending their stored voice recordings to the company’s cloud storage system. With the rollout of Alexa+, the company’s generative AI version of its personal assistant, Amazon will be discontinuing its “Do Not Send Voice Recordings” option, which offered an extra layer of privacy by allowing users to withhold stored Echo commands.
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