tbuckley/cabot-search huggingface dataset:
Prospective Associations Between Tobacco Product Use and Mental Health and Substance Use Problems Among U.S. Adolescents and Adults
Authors: Kevin P. Conway, Emmanuella Michel, Sam Eig, Jian-Ping He, Kathleen R. Merikangas
Journal: American Journal of Psychiatry (2025)

The authors examined prospective associations between tobacco product use and mental health and substance use problems among U.S. adolescents and adults. Covariate-adjusted models using discrete-time survival analysis of five annual waves (2013-2014 to 2018-2019) were used to examine the links between specific tobacco product use and mental health and substance use problems among adolescent and adult participants in the nationally representative Population Assessment of Tobacco and Health study. The sample included up to 32,320 adults and 13,651 adolescents. Among adolescents, externalizing problems predicted cigarette, electronic nicotine delivery system (ENDS), and hookah use. Sex-specific findings were found for female subjects (internalizing problems predicted cigarette, ENDS, and cigar use) and male subjects (externalizing problems predicted cigar and smokeless tobacco use). Among adults, cigarette use predicted internalizing and externalizing problems; ENDS use was associated bidirectionally with internalizing problems. Across age groups, use of each tobacco product predicted substance use problems, and substance use problems predicted ENDS use. Intervening when mental health problems are seen among adolescents may minimize tobacco uptake. Likewise, preventing tobacco use may curtail substance use problems, and treatment of substance use problems may reduce tobacco use. Findings highlight the critical need to incorporate the bidirectionality among mental health, tobacco use, and substance use into prevention and treatment efforts.
Response to Oleribe
Authors: Paul Riviere, James D Murphy, Lucas K Vitzthum
Journal: JNCI Journal of the National Cancer Institute (2025)

Abstract We would like to thank Dr Oleribe for their interest in the study, “Predicting Persistent Opioid Use, Abuse, and Toxicity Among Cancer Survivors”. In the critical appraisal, the author concludes that there is an increased rate of persistent opioid use among Black veterans because the proportion of veterans with persistent opioid use who were Black was higher than the proportion of African American veterans on a census bureau report of veterans. While we appreciate the author’s investigation into potential racial disparities in adverse opioid outcomes, we do not agree with their methodology and do not believe the data supports their conclusion.
Outcome of hematopoietic stem cell transplantation for SCID and impact of newborn screening on overall survival – A single referral center study
Authors: Chen Anchoo, Atar Lev, Amos J Simon, Shiran Levy, Amarilla Mandola, Shirly Frizinsky, Ido Somekh, Adeeb NaserEddin, Rabee S A Adwan, Amos Toren, Hana Golan, Bella Bielorai, Daphna Hutt, Etai Adam, Raz Somech
Journal: Journal of Allergy and Clinical Immunology (2025)
Defining child maltreatment for research and surveillance: an international, multi-sectoral, Delphi consensus study in 34 countries in Europe and surrounding regions
Authors: Laura Elizabeth Cowley, Diogo Lamela, Katarzyna Drabarek, Leonor Bettencourt Rodrigues, Athanasios Ntinapogias, Aideen Naughton, Geoff Debelle, Ravit Alfandari, Andreas Jud, Gabriel Otterman, Taina Laajasalo, Cindy W Christian, Vaska Stancheva-Popkostadinova, Luciana Caenazzo, Virginia Soldino, Rachael Vaughan, Alison Kemp, Ulugbek Nurmatov, Lisa Hurt
Journal: The Lancet Regional Health - Europe (2025)
Ecosystem ecology needs an ecology of molecules
Authors: Erika C. Freeman, Tianna Peller, Florian Altermatt
Journal: Trends in Ecology & Evolution (2025)

Ecosystem ecology needs a framework that explicitly considers the roles of organic compounds. The ecology of molecules integrates compound identity, diversity, and interactions to understand ecosystem processes, such as nutrient and carbon cycling. This approach leverages advances in analytical chemistry and molecular biology to unravel the complex chemical interplay within ecosystems.
Incorporating Bone‐Derived ECM into Macroporous Microribbon Scaffolds Accelerates Bone Regeneration
Authors: Cassandra Villicana, Ni Su, Andrew Yang, Xinming Tong, Hung Pang Lee, Manish Ayushman, Jeehee Lee, Michelle Tai, Tayne Kim, Fan Yang
Journal: Advanced Healthcare Materials (2025)

Tissue-derived extracellular matrix (tdECM) hydrogels serve as effective scaffolds for tissue regeneration by promoting a regenerative immune response. While most tdECM hydrogels are nanoporous and tailored for soft tissue, macroporosity is crucial for bone regeneration. Yet, there's a shortage of macroporous ECM-based hydrogels for this purpose. The study aims to address this gap by developing a co-spinning technique to integrate bone-derived ECM (bECM) into gelatin-based, macroporous microribbon (µRB) scaffolds. The effect of varying doses of bECM on scaffold properties was characterized. In vitro studies revealed 15% bECM as optimal for promoting MSC osteogenesis and macrophage (Mφ) polarization. When implanted in a mouse critical-sized cranial bone defect model, 15% bECM with tricalcium phosphate (TCP) microparticles significantly accelerated bone regeneration and vascularization, filling over 55% of the void by week 2. Increasing bECM to 25% enhanced mesenchymal stem cell (MSC) recruitment and decreased M1 Mφ polarization but reduced overall bone formation and vascularization. The findings demonstrate co-spun gelatin/bECM hydrogels as promising macroporous scaffolds for robust endogenous bone regeneration, without the need for exogenous cells or growth factors. While this study focused on bone regeneration, this platform holds the potential for incorporating various tdECM into macroporous scaffolds for diverse tissue regeneration applications.
CALRins5-mediated clonal hematopoiesis causes severe hemolytic anemia in a female PGK1Ser320Asn carrier
Authors: M. L. Morales, H. Cano, B. de la Morena-Barrio, J. L. Vives-Corrons, E. J. Cuenca-Zamora, P. Garrido-Rodríguez, C. Bento, J. Pereira, J. Martínez Nieto, T. H. Chen-Liang, J. L. Fuster, S. Caracena, M. L. Lozano, R. Teruel-Montoya, J. Corral, F. Ferrer-Marín
Journal: Blood Cancer Journal (2025)
Tape-strip profiling identifies unique immune and lipid dysregulation in patients with seborrheic dermatitis
Authors: Benjamin Ungar, Meredith Manson, Madeline Kim, Digpal Gour, Panipak Temboonnark, Ragasruti Metukuru, Joel Correa Da Rosa, Yeriel Estrada, Jesús Gay-Mimbrera, Pedro J Gómez-Arias, Juan Ruano, Avner Shemer, Diane Hanna, Patrick Burnett, Emma Guttman-Yassky
Journal: Journal of the American Academy of Dermatology (2025)
Convergent evolution of cysteine-rich keratins in horny teeth of jawless vertebrates and in cornified skin appendages of amniotes
Authors: Attila Placido Sachslehner, Leopold Eckhart
Journal: Molecular Biology and Evolution (2025)

Cornified skin appendages, such as claws and hair, of amniotes consist of keratins with high numbers of cysteine residues, which serve as sites of protein cross-linking through disulfide bonds. Here, we show by proteomic analysis that cysteine-rich keratins are also components of the horny teeth of the sea lamprey (Petromyzon marinus), a jawless vertebrate. The cysteine-rich keratins of the lamprey are conserved in hagfish, which diverged from lampreys around 460 million years ago. Phylogenetic analysis confirmed the orthology of the cysteine-rich keratins of lampreys and hagfish (cyclostomes) and showed that cysteine-rich keratins of amniotes belong to different clades of keratins. We conclude that keratins with elevated cysteine content evolved not only in amniotes but also, and much earlier, in jawless vertebrates. The convergent evolution of a high abundance of cysteine residues is in line with a critical role of intermolecular disulfide bonds in hard epithelial structures of vertebrates.
Recent advances in 3D bioprinted neural models: A systematic review on the applications to drug discovery
Authors: Amanda Orr, Farnoosh Kalantarnia, Shama Nazir, Behzad Bolandi, Dominic Alderson, Kerrin O'Grady, Mina Hoorfar, Lisa M Julian, Stephanie M Willerth
Journal: Advanced Drug Delivery Reviews (2025)

The design of neural tissue models with architectural and biochemical relevance to native tissues opens the way for the fundamental study and development of therapies for many disorders with limited treatment options. Here, we systematically review the most recent literature on 3D bioprinted neural models, including their potential for use in drug screening. Neural tissues that model the central nervous system (CNS) from the relevant literature are reviewed with comprehensive summaries of each study, and discussion of the model types, bioinks and additives, cell types used, bioprinted construct shapes and culture time, and the characterization methods used. In this review, we accentuate the lack of standardization among characterization methods to analyze the functionality (including chemical, metabolic and other pathways) and mechanical relevance of the 3D bioprinted constructs, and discuss this as a critical area for future exploration. These gaps must be addressed for this technology to be applied for effective drug screening applications, despite its enormous potential for rapid and efficient drug screening. The future of biomimetic, 3D printed neural tissues is promising and evaluation of the in vivo relevance on multiple levels should be sought to adequately compare model performance and develop viable treatment options for neurodegenerative diseases, or other conditions that affect the CNS.
Harnessing phytochemicals: innovative strategies to enhance cancer immunotherapy
Authors: Qianru Zhu, Ruonan Zhang, Ziming Zhao, Tian Xie, Xinbing Sui
Journal: Drug Resistance Updates (2025)

Cancer immunotherapy has revolutionized cancer treatment, but therapeutic ineffectiveness-driven by the tumor microenvironment and immune evasion mechanisms-continues to limit its clinical efficacy. This challenge underscores the need to explore innovative approaches, such as multimodal immunotherapy. Phytochemicals, bioactive compounds derived from plants, have emerged as promising candidates for overcoming these barriers due to their immunomodulatory and antitumor properties. This review explores the synergistic potential of phytochemicals in enhancing immunotherapy by modulating immune responses, reprogramming the tumor microenvironment, and reducing immunosuppressive factors. Integrating phytochemicals with conventional immunotherapy strategies represents a novel approach to mitigating resistance and enhancing therapeutic outcomes. For instance, nab-paclitaxel has shown the potential in overcoming resistance to immune checkpoint inhibitors, while QS-21 synergistically enhances the efficacy of tumor vaccines. Furthermore, we highlight recent advancements in leveraging nanotechnology to engineer phytochemicals for improved bioavailability and targeted delivery. These innovations hold great promise for optimizing the clinical application of phytochemicals. However, further large-scale clinical studies are crucial to fully integrate these compounds into immunotherapeutic regimens effectively.
Inflammation-Targeted Delivery of Probiotics for Alleviation of Colitis and Associated Cognitive Disorders through Improved Vitality and Colonization
Authors: Yi Chen, Mingju Shui, Hongyi Li, Miao Guo, Qin Yuan, Wei Hao, Tao Wang, Hefeng Zhou, Zhejie Chen, Shengpeng Wang
Journal: Biomaterials (2025)
The impact of the European Federation of Periodontology on European and global periodontology
Authors: Mariano Sanz, Joanna Kamma, Moshe Goldstein, Maurizo Tonetti
Journal: Periodontology 2000 (2025)

Abstract The European Federation of Periodontology (EFP), founded in 1991, is a non‐profit organization comprising 43 national periodontal societies worldwide, representing over 18 000 professionals. Its mission is to promote periodontology and oral health globally. The EFP's strategic objectives include advancing the practice and development of periodontology, promoting scientific research, ensuring the integrity of the profession, and raising awareness of the link between periodontal and general health. These goals are pursued through initiatives such as EuroPerio, the EFP's flagship scientific congress held every 3 years, which attracts thousands of global participants, and European Workshops in Periodontology (EWPs), which foster evidence‐based discussions and produce consensus reports. These workshops have produced landmark publications, including the new classifications of periodontal diseases and S3‐level clinical practice guidelines for the treatment of periodontitis and peri‐implant diseases. Additionally, the organization plays a central role in setting standards for postgraduate education in periodontology, accrediting programs across Europe and internationally, with 24 universities offering EFP‐accredited programs as of 2024. The EFP also publishes the Journal of Clinical Periodontology, a key platform for disseminating scientific and clinical research. Through outreach campaigns in collaboration with global partners, the EFP aims to raise awareness of the links between periodontal health and systemic diseases, engaging medical professionals, international organizations, policymakers, and patient groups. A notable initiative is Gum Health Day, held annually on May 12, to promote public awareness of periodontal health. The EFP's activities have significantly contributed to the development of modern periodontology, both academically and clinically, with a substantial global impact.
Stem-like memory and precursors of exhausted T cells share a common progenitor defined by ID3 expression
Authors: Catarina Gago da Graça, Amania A. Sheikh, Dane M. Newman, Lifen Wen, Sining Li, Jian Shen, Yuqi Zhang, Sarah S. Gabriel, David Chisanga, Justine Seow, Annika Poch, Lisa Rausch, Minh-Hanh T. Nguyen, Jayendra Singh, Chun-Hsi Su, Leonie A. Cluse, Carlson Tsui, Thomas N. Burn, Simone L. Park, Bianca Von Scheidt, Laura K. Mackay, Ajithkumar Vasanthakumar, David Bending, Wei Shi, Weiguo Cui, Jan Schröder, Ricky W. Johnstone, Axel Kallies, Daniel T. Utzschneider
Journal: Science Immunology (2025)

Stem-like T cells are attractive immunotherapeutic targets in patients with cancer given their ability to proliferate and differentiate into effector progeny. Thus, identifying T cells with enhanced stemness and understanding their developmental requirements are of broad clinical and therapeutic interest. Here, we demonstrate that during acute infection, the transcriptional regulator inhibitor of DNA binding 3 (ID3) identifies stem-like T cells that are uniquely adapted to generate precursors of exhausted T (Tpex) cells in response to chronic infection or cancer. Expression of ID3 itself enables Tpex cells to sustain T cell responses in chronic infection or cancer, whereas loss of ID3 results in impaired maintenance of CD8 T cell immunity. Furthermore, we demonstrate that interleukin-1 (IL-1) family members, including IL-36β and IL-18, promote the generation of ID3 + T cells that mediate superior tumor control. Overall, we identify ID3 as a common denominator of stem-like T cells in both acute and chronic infections that is specifically required to sustain T cell responses to chronic stimulation.
Real-Time Assessment of Alcohol Reward, Stimulation, and Negative Affect in Individuals With and Without Alcohol Use Disorder and Depressive Disorders
Authors: Andrea C. King, Andrew M. Fischer, John F. Cursio, Nathan A. Didier, Zoe Lee, Daniel J. Fridberg
Journal: American Journal of Psychiatry (2025)

The allostasis theory states that, as addiction develops, alcohol is consumed to relieve negative affect rather than to produce positive effects. This study aimed to investigate the real-time subjective effects of alcohol in individuals with alcohol use disorder (AUD) and those prone to negative affect by virtue of having comorbid depressive disorder (DEP). Participants (N=221) completed high-resolution ecological momentary assessments during 3-hour monitoring of one alcohol drinking episode and one non-alcohol drinking episode in their natural environment. Participants also completed daily mood surveys and next-day surveys. Linear mixed-effect models were used to compare drinking behavior and subjective responses (stimulation, sedation, liking, wanting, negative affect) among 120 participants with AUD (AUD+; with depression [DEP+]: N=64, without depression [DEP-]: N=56) and 101 participants without AUD (AUD-; DEP+: N=45, DEP-: N=56). During the monitoring period, participants with AUD consumed an average of 8.5 standard alcohol drinks (estimated blood alcohol concentration [eBAC]=0.115 g/dl) versus 3.7 drinks (eBAC=0.040 g/dl) for non-AUD participants. The AUD group, regardless of comorbid DEP, reported increases in stimulation and rewarding effects that persisted throughout most of the alcohol episode relative to the non-alcohol episode. To a lesser extent, alcohol relieved negative affect but this was not specific to AUD or DEP groups. Contrary to the allostasis model of addiction's emphasis on negative reinforcement drinking, findings demonstrated that people with AUD prone to negative affect displayed positive alcohol reinforcement with pronounced and prolonged sensitivity to alcohol's pleasurable effects, akin to their noncomorbid counterparts. The findings provided critical testing of addiction theories in the natural environment to enhance external validity.
A deafness-blindness syndrome results from ATF6-based disruption of the unfolded protein response
Authors: Yuvraj Joshi, Jeffrey N. Savas
Journal: Journal of Clinical Investigation (2025)

Sensorineural hearing loss (SNHL) is the most prevalent form of permanent hearing impairment, arising from factors such as aging, exposure to loud noise, disease, ototoxic medications, and genetic mutations. Despite extensive research, effective treatments or cures for SNHL remain elusive. In this issue of the JCI, Lee et al. reveal a link between mutations in ATF6 and SNHL in patients with achromatopsia. The study also shows that Atf6-deficient (Atf6-/-) mice exhibit disorganized stereocilia and age-related loss of outer hair cells. Additionally, the researchers show that Atf6 is critical for cochlear hair cell function. Mice lacking Atf6 expression experienced ER stress, which ultimately led to SNHL. Collectively, these findings enhance our understanding of the emerging role of protein homeostasis and ER stress in the pathogenesis of SNHL.
Translational regulation of SND1 governs endothelial homeostasis during stress
Authors: Zhenbo Han, Gege Yan, Jordan Jousma, Sarath Babu Nukala, Mehdi Amiri, Stephen Kiniry, Negar Tabatabaei, Youjeong Kwon, Sen Zhang, Jalees Rehman, Sandra Pinho, Sang-Bing Ong, Pavel V. Baranov, Soroush Tahmasebi, Sang-Ging Ong
Journal: Journal of Clinical Investigation (2025)

Translational control shapes the proteome and is particularly important in regulating gene expression under stress. A key source of endothelial stress is treatment with tyrosine kinase inhibitors (TKIs), which lowers cancer mortality but increases cardiovascular mortality. Using a human induced pluripotent stem cell-derived endothelial cell (hiPSC-EC) model of sunitinib-induced vascular dysfunction combined with ribosome profiling, we assessed the role of translational control in hiPSC-ECs in response to stress. We identified staphylococcal nuclease and tudor domain-containing protein 1 (SND1) as a sunitinib-dependent translationally repressed gene. SND1 translational repression was mediated by the mTORC1/4E-BP1 pathway. SND1 inhibition led to endothelial dysfunction, whereas SND1 OE protected against sunitinib-induced endothelial dysfunction. Mechanistically, SND1 transcriptionally regulated UBE2N, an E2-conjugating enzyme that mediates K63-linked ubiquitination. UBE2N along with the E3 ligases RNF8 and RNF168 regulated the DNA damage repair response pathway to mitigate the deleterious effects of sunitinib. In silico analysis of FDA-approved drugs led to the identification of an ACE inhibitor, ramipril, that protected against sunitinib-induced vascular dysfunction in vitro and in vivo, all while preserving the efficacy of cancer therapy. Our study established a central role for translational control of SND1 in sunitinib-induced endothelial dysfunction that could potentially be therapeutically targeted to reduce sunitinib-induced vascular toxicity.
Gene-replacement therapy in neurodevelopmental disorders: progress and challenges
Authors: Holger Lerche, Ulrike Bs Hedrich, Thomas V Wuttke
Journal: Journal of Clinical Investigation (2025)

Heterozygous loss-of-function variants in the SLC6A1 gene, encoding GAT1, which is the main GABA transporter in the brain, lead to a broad spectrum of neuropsychiatric and neurodevelopmental disorders including epilepsy, developmental delay, intellectual disability, and autism. Gene-replacement strategies involving adeno-associated viruses (AAV) require the delivery of genes to specific types of neurons or areas in the brain, likely during certain developmental time points. In this issue of the JCI, Guo and colleagues from the Gray lab evaluated two promoters, three injection modalities, and various timing strategies for replacement of GAT1 via AAV type 9 in heterozygous and homozygous knockout mouse models. Intrathecal administration of vectors containing either promoter at postnatal day 5 achieved high expression and was the best tolerated approach. Notably, gene-replacement therapy failed at later disease stages, suggesting the importance of early gene reconstitution and confirming the importance of GABA metabolism in early brain development.
The gut microbiome and cancer response to immune checkpoint inhibitors
Authors: Francesca S Gazzaniga, Dennis L Kasper
Journal: Journal of Clinical Investigation (2025)

Immune checkpoint inhibitors (ICIs) are widely used for cancer immunotherapy, yet only a fraction of patients respond. Remarkably, gut bacteria impact the efficacy of ICIs in fighting tumors outside of the gut. Certain strains of commensal gut bacteria promote antitumor responses to ICIs in a variety of preclinical mouse tumor models. Patients with cancer who respond to ICIs have a different microbiome compared with that of patients who don't respond. Fecal microbiota transplants (FMTs) from patients into mice phenocopy the patient tumor responses: FMTs from responders promote response to ICIs, whereas FMTs from nonresponders do not promote a response. In patients, FMTs from patients who have had a complete response to ICIs can overcome resistance in patients who progress on treatment. However, the responses to FMTs are variable. Though emerging studies indicate that gut bacteria can promote antitumor immunity in the absence of ICIs, this Review will focus on studies that demonstrate relationships between the gut microbiome and response to ICIs. We will explore studies investigating which bacteria promote response to ICIs in preclinical models, which bacteria are associated with response in patients with cancer receiving ICIs, the mechanisms by which gut bacteria promote antitumor immunity, and how microbiome-based therapies can be translated to the clinic.