tbuckley/cabot-search huggingface dataset:
Tumor-related molecular determinants of neurocognitive deficits in patients with diffuse glioma
Authors: Emma van Kessel, Sharon Berendsen, Anniek E Baumfalk, Hema Venugopal, Eva A Krijnen, Wim G M Spliet, Wim van Hecke, Fabrizio Giuliani, Tatjana Seute, Martine J E van Zandvoort, Tom J Snijders, Pierre A Robe
Journal: Neuro-Oncology (2022)

Abstract Background Cognitive impairment is a common and debilitating symptom in patients with diffuse glioma, and is the result of multiple factors. We hypothesized that molecular tumor characteristics influence neurocognitive functioning (NCF), and aimed to identify tumor-related markers of NCF in diffuse glioma patients. Methods We examined the relation between cognitive performance (executive function, memory, and psychomotor speed) and intratumoral expression levels of molecular markers in treatment-naive patients with diffuse glioma. We performed a single-center study in a consecutive cohort, through a two-step design: (1) hypothesis-free differential expression and gene set enrichment analysis to identify candidate oncogenetic markers for cognitive impairment. Nineteen molecular markers of interest were derived from this set of genes, as well as from prior knowledge; (2) correlation of cognitive performance to intratumoral expression levels of these nineteen molecular markers, measured with immunohistochemistry. Results From 708 included patients with immunohistochemical data, we performed an in-depth analysis of neuropsychological data in 197, and differential expression analysis in 65 patients. After correcting for tumor volume and location, we found significant associations between expression levels of CD3 and IDH-1 and psychomotor speed; between IDH-1, ATRX, NLGN3, BDNF, CK2Beta, EAAT1, GAT-3, SRF, and memory performance; and between IDH-1, P-STAT5b, NLGN3, CK2Beta, and executive functioning. P-STAT5b, CD163, CD3, and Semaphorin-3A were independently associated after further correction for histopathological grade. Conclusion Molecular characteristics of glioma can be independent determinants of patients’ cognitive functioning. This suggests that besides tumor volume, location, and histological grade, variations in glioma biology influence cognitive performance through mechanisms that include perturbation of neuronal communication. These results pave the way towards targeted cognition improving therapies in neuro-oncology.
Integration of multiple lineage measurements from the same cell reconstructs parallel tumor evolution
Authors: Lennart Kester, Buys de Barbanson, Anna Lyubimova, Li-Ting Chen, Valérie van der Schrier, Anna Alemany, Dylan Mooijman, Josi Peterson-Maduro, Jarno Drost, Jeroen de Ridder, Alexander van Oudenaarden
Journal: Cell Genomics (2022)

Organoid evolution models complemented with integrated single-cell sequencing technology provide a powerful platform to characterize intra-tumor heterogeneity (ITH) and tumor evolution. Here, we conduct a parallel evolution experiment to mimic the tumor evolution process by evolving a colon cancer organoid model over 100 generations, spanning 6 months in time. We use single-cell whole-genome sequencing (WGS) in combination with viral lineage tracing at 12 time points to simultaneously monitor clone size, CNV states, SNV states, and viral lineage barcodes for 1,641 single cells. We integrate these measurements to construct clonal evolution trees with high resolution. We characterize the order of events in which chromosomal aberrations occur and identify aberrations that recur multiple times within the same tumor sub-population. We observe recurrent sequential loss of chromosome 4 after loss of chromosome 18 in four unique tumor clones. SNVs and CNVs identified in our organoid experiments are also frequently reported in colorectal carcinoma samples, and out of 334 patients with chromosome 18 loss in a Memorial Sloan Kettering colorectal cancer cohort, 99 (29.6%) also harbor chromosome 4 loss. Our study reconstructs tumor evolution in a colon cancer organoid model at high resolution, demonstrating an approach to identify potentially clinically relevant genomic aberrations in tumor evolution.
AMA Archives Journals Abstracts
Journal: JAMA (1997)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
The Candirú: The Only Vertebrate Parasite of Man.
Journal: JAMA (1930)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
Pressures, Viscosity, and Metabolism—The Participants in Renal Autoregulation
Journal: JAMA (1963)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
Aguas curativas y lugares de recreo de México
Journal: JAMA (1942)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
Conformational transitions and ligand-binding to a muscle-type nicotinic acetylcholine receptor
Authors: Eleftherios Zarkadas, Eva Pebay-Peyroula, Mackenzie John Thompson, Guy Schoehn, Tomasz Uchański, Jan Steyaert, Christophe Chipot, Francois Dehez, John Edward Baenziger, Hugues Nury
Journal: Neuron (2022)
Limitations of Phylogenomic Data Can Drive Inferred Speciation Rate Shifts
Authors: Jack M Craig, Sudhir Kumar, S Blair Hedges
Journal: Molecular Biology and Evolution (2022)

Biodiversity analyses of phylogenomic timetrees have produced many high-profile examples of shifts in the rate of speciation across the tree of life. Temporally correlated events in ecology, climate, and biogeography are frequently invoked to explain these rate shifts. In a re-examination of 15 genomic timetrees and 25 major published studies of the pattern of speciation through time, we observed an unexpected correlation between the timing of reported rate shifts and the information content of sequence alignments. Here, we show that the paucity of sequence variation and insufficient species sampling in phylogenomic data sets are the likely drivers of many inferred speciation rate shifts, rather than the proposed biological explanations. Therefore, data limitations can produce predictable but spurious signals of rate shifts even when speciation rates may be similar across taxa and time. Our results suggest that the reliable detection of speciation rate shifts requires the acquisition and assembly of long phylogenomic alignments with near-complete species sampling and accurate estimates of species richness for the clades of study.
Correction to: The transcription factor KLF14 regulates macrophage glycolysis and immune function by inhibiting HK2 in sepsis
Authors: Yuan Yuan, Guangjian Fan, Yuqi Liu, Lu Liu, Tong Zhang, Pengfei Liu, Qing Tu, Xinyi Zhang, Shiyuan Luo, Liangfang Yao, Feng Chen, Jinbao Li
Journal: Cellular and Molecular Immunology (2022)
Rubella Among Hispanic Adults—Kansas, 1998, and Nebraska, 1999
Journal: JAMA (2000)

Since 1994, the incidence of rubella has been low; most reported rubella cases have been associated with outbreaks (1,2). Recent outbreaks have occurred primarily among adult Hispanics, many of whom are natives of countries where rubella vaccination is not routine or has been implemented recently (1). This report describes two workplace-associated outbreaks of rubella and summarizes the characteristics of the recent outbreaks in the United States.
Public health lessons from the Bhopal chemical disaster
Authors: J. P. Koplan
Journal: JAMA (1990)

THE 1984 CHEMICAL disaster in Bhopal, India, was first and foremost a terrible human tragedy. For those who were there and even for those at considerable distances who read about it, the reality of 2000 or more persons dead and many tens of thousands poisoned by a toxic cloud is horrifying. However, in its particulars and complexities, Bhopal's chemical disaster can also serve as a case example for almost any discipline taught in a school of public health. The disaster has elements of acute and chronic epidemiology, industrial hygiene, toxicology, environmental pollution and planning, disaster preparedness and management, health economics, medical ethics, and environmental protection law, to name a few. Mehta et al<sup>1</sup>review the literature on the Bhopal disaster and its aftermath and focus on the long-term health effects. They recognize the incomplete nature of much of the data and the serious methodologic limitations for study that the
Lack of inflammatory bowel disease flare-up following two-dose BNT162b2 vaccine: a population-based cohort study
Authors: Xue Li, Xinning Tong, Ian Chi Kei Wong, Kuan Peng, Celine Sze Ling Chui, Francisco Tsz Tsun Lai, Eric Yuk Fai Wan, Carlos King Ho Wong, Wai Keung Leung, Esther Wai Yin Chan
Journal: Gut (2022)
High-affinity CD16 integration into a CRISPR/Cas9-edited CD38 locus augments CD38-directed antitumor activity of primary human natural killer cells
Authors: Joseph Andrew Clara, Emily R Levy, Robert Reger, Stefan Barisic, Long Chen, Elena Cherkasova, Mala Chakraborty, David S J Allan, Richard Childs
Journal: Journal for ImmunoTherapy of Cancer (2022)

Background Adoptive transfer of natural killer (NK) cells with augmented antibody-dependent cellular cytotoxicity (ADCC) capabilities and resistance to CD38 targeting has the potential to enhance the clinical anti-myeloma activity of daratumumab (DARA). Therefore, we sought to develop an efficient CRISPR/Cas9-based gene editing platform to disrupt CD38 expression (CD38 knockout (KO)) in ex vivo expanded NK cells and simultaneously arm CD38 KO NK cells with a high-affinity CD16 (CD16-158V) receptor. Methods CD38 KO human NK cells were generated using Cas9 ribonucleoprotein complexes. The platform was expanded by incorporating messenger RNA (mRNA) transfection of CD38 KO NK cells and targeted gene insertion at the CD38 locus to mediate gene knockin (KI). The capacity of these gene-edited NK cells to persist and mediate ADCC in the presence of DARA was tested in vitro and in a MM.1S xenograft mouse model. Results Highly efficient CD38 gene disruption was achieved in ex vivo expanded NK cells without affecting their proliferative or functional capacity. CD38 KO conferred resistance to DARA-induced NK cell fratricide, enabling persistence and augmented ADCC against myeloma cell lines in the presence of DARA in vitro and in a MM.1S xenograft mouse model. CD38 KO NK cells could be further modified by transfection with mRNA encoding a CD16-158V receptor, resulting in augmented DARA-mediated ADCC. Finally, we observed that a homology-directed repair template targeted to the CD38 locus facilitated an efficient 2-in-1 CD38 KO coupled with KI of a truncated CD34 reporter and CD16-158V receptor, with CD38 KO /CD16 KI NK cells demonstrating a further enhancement of DARA-mediated ADCC both in vitro and in vivo. Conclusions Adoptive immunotherapy using ex vivo expanded CD38 KO /CD16 KI NK cells has the potential to boost the clinical efficacy of DARA. By incorporating complementary genetic engineering strategies into a CD38 KO manufacturing platform, we generated NK cells with substantially augmented CD38-directed antitumor activity, establishing a strong rationale for exploring this immunotherapy strategy in the clinic.
Body-Weight Perceptions and Selected Weight-Management Goals and Practices of High School Students—United States, 1990
Journal: JAMA (1991)

Among adults, overweight is associated with elevated serum cholesterol levels, elevated blood pressure, and noninsulin-dependent diabetes and is an independent risk factor for coronary heart disease. Youth who are overweight and remain overweight as adults may increase their risk for certain chronic diseases in adulthood. However, overemphasis on thinness during adolescence may contribute to potentially harmful weight-management practices and eating disorders such as anorexia nervosa and bulimia nervosa. This report presents self-reported body-weight perceptions and selected weight-management goals and practices among high school students in the United States.
Talipes Equino-Varus in the Adult: Two Successful Cases of Double Operation by Excision of a Portion of the Tarsus: Davies-Colley's Operation: Sequel
Authors: F. R. Fairbank
Journal: BMJ (1889)

intestine.She had been tapped three years before at a general hospital.CASE xviI.-Theadhesions, which solely nourished the tumour, gave much trouble.The uterus was twisted, so that its right cornu was displaced backwards, and the tube, twisted and atrophied, formed a pedicle to the tumour.A white ligamentous band ran from the left side of the uterus to the tumour, representing the left tube, ovarian ligament, and broad ligament atrophied.This case was an instance of the fusion of two cystic ovaries, with subsequent twisting of one pedicle and atrophy of the other.CAsE xviii.-Therehad been an attack of inflammation of the cyst in June 1887; the cyst wall was dull and adherent to the parietes and omentum.CASE xix.-After removing the right tumour, which formed a very multilocular cyst, I examined the left ovary, which lay'at the bottom of Douglas's pouch.It was about two inches in long diameter and converted into a single cyst.After removal, I found that it was stuffed with hair and sebaceous matter.The pedicle was not twisted, otherwise this case strongly resembled No. 1.The patient has grown very stout since the removal of the ovaries.CASE xx.-A long incision had to be made in this case, as a large flat bony plate lay behind the anterior part of the cyst-wall with its long axis transverse.The cyst was also full of greasy fluid which I feared to spill into the pexitoneal cavity.CAsE xxr.-The tumour, before operation, felt like a pedunculated subperitoneal uterine fibroid.It was oval and very heavy for its size.CASE xxiI.-Afull account of this remarkable case of solid tumour of the ovarian ligament appeared in the JOURNAL, June 8th, 1889, p. 1287.CASE xxIir.-Thiscase is instructive as illustrating the danger of delay in performing ovariotomy.The patient declined operation six months earlier.I found a considerable amount of ascitic fluid in the abdominal cavity.A mass of papillomatous out- growths perforated the cyst wall, filling up the aperture which they made.Had the patient waited two or three months longer, the operation would have been very difficult and dangerous.CASE xxiv.-Thepatient had three attacks of peritonitis with inflammation of the cyst wall, in the winter and spring of 1889.Mr. Beckett, of Ely, wrote: "sHer pulse before she left home, July 18tb, 1889, was about 120, and her temperature became nearly normal at the time of her leaving.Before that it was 1020, with great tenderness over the region of the left ovary."There was some difficulty in flushing the peritoneum thoroughly, and the process caused considerable shock.The drainage tube was re- moved on the fourth day, as under a drachm of almost clear,
The Cover
Authors: Fernando Coronil
Journal: JAMA (1987)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
AMA Archives Journals Abstracts
Journal: JAMA (1997)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA HomeNew OnlineCurrent IssueFor Authors Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) Podcasts Clinical Reviews Editors' Summary Medical News Author Interviews More JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA journal
Dean's welcome remarks to the class of 1986
Authors: J. B. Henry
Journal: JAMA (1983)

THIS WEEK, you will begin formal studies leading to the degree of Doctor of Medicine. We have no doubt, based on the screening and scrutiny you have undergone, that you will be doctors. We know you have the ability. You must demonstrate the discipline and dedication. Today, you have vision, a goal, an ideal. In the next few weeks, you may only be able to see as far as an anatomy practical or a biochemistry quiz. Somehow, being a doctor has been replaced by becoming one, and all too quickly the lofty thoughts and humane motivations almost amorphously disappear. We don't discard them, we just lack the time to tend to them, and, like a garden, untended and uncultivated, our dreams become overgrown, tangled, and choked. Daydream for a moment. Fantasize and let your mind wander. What are you doing here? What do you want to accomplish? What is your
A large-scale organoid-based screening platform to advance drug repurposing in pancreatic cancer
Authors: Sara Mainardi, Rene Bernards
Journal: Cell Genomics (2022)

Hirt et al.1 report an automated, high-throughput drug screening platform for organoid cultures to enable repurposing of previously approved drugs for pancreatic cancers harboring specific genetic alterations. The pancreatic cancer organoid biobank also represents a valuable tool to uncover new drug-gene interactions in pancreatic tumors.