tbuckley/cabot-search huggingface dataset:
Cardiovascular disease in developing countries.
Authors: R. Beaglehole
Journal: BMJ (1992)

<h3>Abstract</h3> In shotgun metagenomics (SM), the state of the art bioinformatic workflows are referred to as high resolution shotgun metagenomics (HRSM) and require intensive computing and disk storage resources. While the increase in data output of the latest iteration of high throughput DNA sequencing systems can allow for unprecedented sequencing depth at a minimal cost, adjustments in HRSM workflows will be needed to properly process these ever-increasing sequence datasets. One potential adaptation is to generate so-called shallow SM datasets that contain fewer sequencing data per sample as compared to the more classic high coverage sequencing. While shallow sequencing is a promising avenue for SM data analysis, detailed benchmarks using real data are lacking. In this case study, we took four public SM datasets, one massive and the others moderate in size and subsampled each dataset at various levels to mimic shallow sequencing datasets of various sequencing depths. Our results suggest that shallow SM sequencing is a viable avenue to obtain sound results regarding microbial community structures and that high depth sequencing does not bring additional elements for ecological interpretation. More specifically, results obtained by subsampling as little as 0.5M sequencing clusters per sample were similar to the results obtained with the largest subsampled dataset for the human gut and agricultural soil datasets. For the Antarctic dataset, which contained only a few samples, 4M sequencing clusters per sample was found to generate comparable results to the full dataset. One area where ultra-deep sequencing and maximizing the usage of all data was undeniably beneficial was in the generation of metagenome-assembled genomes (MAGs). <h3>Key points</h3> –Three public multi-sample shotgun metagenomic NovaSeq datasets totalling 12,389,583 and 202 Gb, respectively were analyzed at various sequencing depths to evaluate the accuracy of shallow shotgun metagenomic sequencing using a high resolution shotgun metagenomic bioinformatic workflow. A synthetic mock community of 20 bacterial genomes was also analyzed for validation purposes. –Datasets subsampled to low sequencing depths gave nearly identical ecological patterns (taxonomic and functional composition and beta-alpha-diversity) compared to high depth subsampled datasets. –Rare taxa and functions could be uncovered with high sequencing depth vs. low sequencing depth datasets, but did not affect global ecological patterns. –High sequencing depth was positively correlated with both quantity and quality of recovered metagenome-assembled genomes.
Aspectos Physiologic de Sudar con un Nove Test pro Selection de Patientes in Sympathectomia Lumbar
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 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
Error in Text
Authors: Lindsay Nelson, Abpp-Cn Harvey, S Levin, Michael Mccrea, Sureyya Dikmen
Journal: JAMA Neurology (2019)

tional limitations reported on the GOSE in the present study 1 contradicts the assertion that the instrument lacks sensitivity.Moreover, we discourage assumptions that predominantly self-reported symptoms or functional limitations are invalid.Although these data cannot inform an understanding of response bias, prior work suggests that outcomes assessed in a research context do not necessarily show the patterns of response bias that are often found in medicolegal settings. 3 Other criticisms pertained to our defining the criteria of mTBI as an admission Glasgow Coma Scale (GCS) score of 13 to 15 and the decision to include patients with acute intracranial findings on computed tomography (CT) scans.We defined mTBI based on GCS scores because, in our experience, this is commonly done in the medical and research community.We agree that the population with GCS scores of 13 to 15 exhibits diverse TBI severity and other characteristics associated with outcomes, and thus it is important to recognize that one cannot, from these data alone, determine the cause(s) of persistent functional limitations.Nevertheless, the finding of diverse, sometimes poor outcomes in this population underscores the importance of moving beyond crude historic systems of TBI stratification and developing more refined approaches for classifying and treating patients.Finally, recognizing the importance of CT findings, all analyses were presented on the aggregate sample and stratified by CT findings.We hope that the availability of large, richly characterized cohorts of patients with TBI, such as the TRACK-TBI sample, places us at the cusp of reconceptualizing mTBI, which is critical for advancing precision medicine clinical care for the large "mild" TBI population.
Correction to: 2018 ACC/AHA/HRS Guideline on the Evaluation and Management of Patients With Bradycardia and Cardiac Conduction Delay: A Report of the American College of Cardiology/American Heart Association Task Force on Clinical Practice Guidelines and the Heart Rhythm Society
Journal: Circulation (2019)

several corrections were needed.1.On page e394, in "Figure 2. Initial evaluation of suspected or documented SND algorithm,"• third row, the green box, the text read, "Treat underlying cause as "needed, e.g., sleep apnea" (Class I)."It has been updated to read, "Treat underlying cause as needed, e.g., sleep apnea (Class I)." • in the legend, the penultimate sentence read, " ‡Refer to Section 5.5.4.1., Figure 6."It has been updated to read, " ‡Refer to Section 5.4.4.1., Figure 6." 2. On page e395, in "Figure 3. Initial evaluation of suspected atrioventricular block algorithm," ninth row, the orange box, an asterisk was added to the text in the box.It has been updated to read, "Advanced imaging* (Class IIa)." 3. On page e405, in the "5.3.1.Acute Management of Reversible Causes of SND," section, left hand column, under "Synopsis," first paragraph, the first sentence read, "Most patients with SND…that does not require acute treatment."It has been updated to read, "Most patients with SND…that do not require acute treatment."4. On page e409, in the "5.3.2.3.Therapy of Digoxin Mediated Bradycardia Attributable to either SND or Atrioventricular Block," section, left hand column, under "Synopsis," first paragraph, the fifth sentence read, "Patients with hyperkalemia or life-threatening in the setting of digoxin serum lev-els…."It has been updated to read, "Patients with hyperkalemia or arrhythmias in the setting of digoxin serum levels…." 5. On page e411, in the "5.3.3.Temporary Pacing for Bradycardia Attributable to SND" section, left hand column, under "Synopsis," first paragraph, the third sentence read, "Typically, temporary transvenous pacing is performed…from a central venous site veins."It has been updated to read, "Typically, temporary transvenous pacing is performed…from a central venous access site." 6.On page e411, in the legend to "Figure 5. Acute pacing algorithm," the second sentence read, "*Refer to Section 5.5.4.1...." It has been updated to read, "*Refer to Section 5.4.4.1...." 7. On page e412, in the "5.4.1.
Cytembena
Journal: Environmental Health Perspectives (1982)

because preliminary clinical results from Czechoslovakia indicated that this chemical might have use as a cytostatic agent (1-4).Clinical trials in the United States were discontinued because no apparent antineoplastic effects were seen (5-7). MethodsMale and female inbred Fischer 344 rats and male and female hybrid B6C3F1 mice, obtained from Frederick Cancer Research Center, were used in this study.Control and treated groups comprised 50 animals of each species and sex.For 104 consec- utive weeks all groups were fed Wayne Lab Blox.Three times per week treated groups were given intraperitoneal injections of 7 or 14 mg/kg (for rats) and 12 or 24 mg/kg (for mice) of cytembena (99.4% pure).Control groups received 0.9% saline injections.This carcinogenesis bioassay was conducted dur- ing January
Preoperative fluorouracil (FU)-based chemoradiation with and without weekly oxaliplatin in locally advanced rectal cancer: Pathologic response analysis of the Studio Terapia Adiuvante Retto (STAR)-01 randomized phase III trial
Authors: C. Aschele, C. Pinto, S. Cordio, G. Rosati, A. Tagliagambe, S. Artale, P. Rosetti, S. Lonardi, L. Boni, L. Cionini
Journal: Journal of Clinical Oncology (2009)

CRA4008 Background: Oxaliplatin (OXA) enhances the efficacy of FU-based chemotherapy in colon cancer. This randomized phase III trial investigated the effect of adding OXA to preoperative (preop) FU-based pelvic chemoradiation (CRT) in patients (pts) with locally-advanced rectal cancer. Methods: Eligibility required a resectable, biopsy-proven rectal adenocarcinoma within 12 cm from the anal verge with radiological evidence of perirectal fat or lymphnode involvement. Randomization was between infused FU (225 mg/msq/day) concomitant to external-beam pelvic radiation (50.4 Gy in 28 daily fractions) (arm A) or the same regimen + weekly OXA (60 mg/msq × 6) (Arm B). Surgery was scheduled 6–8 weeks after completing CRT. Overall survival was the primary endpoint. A protocol-planned analysis of local tumor response to preop treatment (secondary end-point) is the object of this report. Results: 747 pts from 41 Italian centers were randomized between 12/2003 and 8/2008 (arm A/B: 379/368). Pretreatment characteristics in arm A/B: median age 63/62 years; male:female 2:1; median distance from anal verge 6 cm; T4 16/14%, N+ 63/65%. Overall grade 3–4 toxicity rates on treated pts (mainly diarrhoea) were 8% and 24% (arm A/B, p<0.001). 96/90% of pts (arm A/B) received > 90% of the planned RT. 82% of Arm B pts had > 5 oxa courses. 358/342 pts (arm A/B) had surgery at a median of 52/53 days from the end of CRT, 14 pts in each arm were not operated (progression 8, death 5, other/unknown 15) and surgery data are not yet available for 19 pts. Pathologic response data analyzed on the randomized population are reported in the table. Conclusions: The addition of weekly OXA to standard FU-based preop CRT significantly increases toxicity without affecting local tumor response. The reduced pathologic M+ rate suggests a potential effect on distant micrometastases. Longer follow-up is needed to assess the impact on efficacy endpoints. Pathologic stage Arm A (N=379) pts (%) Arm B (N=368) pts (%) Total (N=747) pts (%) P value T0N0 60 (16) 57 (15) 117 (16) 0.982 T1–2N0 104 (27) 103 (28) 207 (28) N1–2 92 (24) 96 (26) 188 (25) 0.568 M1 11 (3) 2 (0.5) 13 (2) 0.014 No significant financial relationships to disclose.
FAITH IN STATISTICS.
Journal: JAMA (1899)

Our bland and child-like faith in statistics as such is beginning to be shaken at last. And it is high time, for the blind belief that if we can only get any subject or set of facts "down in figgers," and then strike an average, the result is bound to be true, has led us into serious errors. The statistic method is the very soul of modern science, but it is beginning to dawn on us that not only are an intimate knowledge of the subject-matter to which it is to be applied and a critic study of the accuracy of the data recorded, absolutely essential to safe conclusions, but that the method is an art in itself. A mere glance at the beautiful and most valuable work of ProfessorsDavenportandKarl Pearson, the results of the applications of graphic plotting and the calculus to the study of variation,
Retrovirus Silencing, Variegation, Extinction, and Memory Are Controlled by a Dynamic Interplay of Multiple Epigenetic Modifications*1
Authors: S YAO
Journal: Molecular Therapy (2004)

Retrovirus silencing in stem cells produces silent or variegated provirus. Additional memory and extinction mechanisms act during differentiation. Here we show that retrovirus is silent or variegated in mouse embryonic stem (ES) cells that are de novo methyltransferase (dnmt3a and dnmt3b) null. Memory is maintained during differentiation, and extinction occurs on variegated retrovirus, indicating that DNA methylation is dispensable for all forms of retrovirus silencing. Silent and variegated provirus are marked by hypoacetylated histone H3 and bound H1. In wild-type ES cells, silent and variegated proviruses are methylated and bound by hypoacetylated H3, MeCP2, and less H1. Silencing, variegation, and extinction are partially reactivated by 5-AzaC in this context. Lentivirus vectors are also silent or variegated, marked by silent chromatin, and exhibit memory and extinction. We conclude that the universal epigenetic mark of retrovirus silencing is silent chromatin established via the dynamic interplay of multiple epigenetic modifications that include but do not require DNA methylation. A molecular mechanism of competitive H1 and MeCP2 binding may account for this epigenetic interplay, and a model for variegation is discussed.
Erratum for the Research Article: “Safety and Efficacy of an Injectable Extracellular Matrix Hydrogel for Treating Myocardial Infarction” by S. B. Seif-Naraghi, J. M. Singelyn, M. A. Salvatore, K. G. Osborn, J. J. Wang, U. Sampat, O. L. Kwan, G. M. Strachan, J. Wong, P. J. Schup-Magoffin, R. L. Braden, K. Bartels, J. A. DeQuach, M. Preul, A. M. Kinsey, A. N. DeMaria, N. Dib, K. L. Christman
Journal: Science Translational Medicine (2014)
Skin color and blood pressure. Genetics or environment?
Authors: R. F. Murray
Journal: JAMA (1991)

What possible basis could there be for the association between the amount of melanin in the skin and increased blood pressure that has been found by a number of investigators? The Table summarizes the findings of some of the studies of this association that have been reported since 1970.<sup>1</sup>Three of these studies<sup>1-3</sup>showed a positive association between the degree of pigmentation and level of blood pressure, while two reports by Keil et al<sup>4,5</sup>showed that blood pressure was associated with education and social class but not the degree of skin pigmentation. The study by Klag et al<sup>6</sup>in this issue ofThe Journalhas added to the literature on this topic by studying the blood pressure—skin pigmentation association in a much more controlled fashion. This relationship has been controlled for environmental factors previously demonstrated to contribute to elevated blood pressure. These variables include obesity, blood
Deep Sea Sedimentation
Authors: Pierre E. Biscaye
Journal: Environmental Health Perspectives (1974)

An important problem in the study of microparticles in the marine environment, suspended in the water column or deposited as sediment on the ocean bottom, is the determination of provenance of the microparticles—where did they come from and by what processes were they transported to the sampling location? Two techniques of possible interest to those concerned with tracing the origins and dispersion paths of asbestos particles are described. One utilizes variations in the naturally occurring rubidium–strontium isotope system and is used to characterize a bulk sample, i.e., a large number of particles. The other utilizes scanning electron microscopy to observe variations in surface texture of individual grains which, in the case of quartz particles in the natural environment, can be related to the transport processes to which they have been subjected.
Erratum: Corrigendum: Comprehensive epigenetic profiling identifies multiple distal regulatory elements directing transcription of the gene encoding interferon-γ
Authors: Jamie R Schoenborn, Michael O Dorschner, Masayuki Sekimata, Deanna M Santer, Maria Shnyreva, David R Fitzpatrick, John A Stamatoyonnapoulos, Christopher B Wilson
Journal: Nature Immunology (2007)
Land degradation: a solution is possible
Authors: None The Lancet Planetary Health
Journal: The Lancet Planetary Health (2018)

Land degradation is harming the wellbeing of 3·2 billion people and the impact of its effects will only grow with time. So reports the Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services (IPBES), an independent intergovernmental body set up by UN member states, in a new summary for policy makers. Land degradation is the human-induced loss of biodiversity, productivity, and ecosystem functions from terrestrial and aquatic environments. It results from practices that bring short-term benefits to those doing them, but have substantial long-term costs, such as overgrazing of land, draining of wetlands for agricultural uses, and disruptive mining practices.
Environmental Considerations for the Disposal of PBB-Contaminated Animals and Wastes
Authors: B. P. Shah
Journal: Environmental Health Perspectives (1978)

Accidental contamination of livestock feed in 1973 by polybrominated biphenyls (PBB) led to the destruction of over 30,000 animals in Michigan. Animal carcasses of mostly dairy cattle along with some beef cattle, hogs, sheep and rabbits destroyed under the Federal Food and Drug Administration guidelines were disposed on the land at an environmentally safe site in Kalkaska County, Michigan. The geology and hydrology of the disposal site on state-owned land is considered favorable for the disposal of contaminated carcasses and to prevent any migration of PBBs into ground and surface waters of the area. Materials underneath the site are predominantly sand with layers of silts and clays of glacial origin. The vertical isolation from the surface to the water table is over 90 ft, and the horizontal isolation to the privately owned properties and surface water bodies is well over 1.5 mile in all directions. The site design provides necessary safeguards for minimizing surface water infiltration into disposal trenches and maximizing the protection to the environment. A series of water wells in the direction of flow are established for monitoring groundwater quality for years to come. A 40-acre Gratiot County landfill located near St. Louis, Michigan, has received 269,000 lb of wastes containing 60 to 70% PBBs between 1971 and 1973. PBB wastes are intermixed with general refuse at various depths predominantly in the eastern half of the landfill. Phase I of the hydrogeological investigation shows that the landfill is situated immediately above the groundwater aquifer and a divide. Recently drilled test wells show traces of PBBs in the aquifer in all directions. Additional studies are planned in the near future for corrective measures and monitoring.
Hemodynamic, Ventilatory and Blood Gas Changes During Infusion of Sodium Nitroferricyanide (Nitroprusside)
Journal: JAMA (1978)

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
La tromboangeítis obliterante
Journal: JAMA (1935)

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
Prevalence of skin disease in a population-based sample of adults from five European countries
Authors: A. Svensson, R.F. Ofenloch, M. Bruze, L. Naldi, S. Cazzaniga, P. Elsner, M. Goncalo, M.-L.A. Schuttelaar, T.L. Diepgen
Journal: British Journal of Dermatology (2018)

This study is based on a survey carried out by investigators with an interest in the epidemiology of skin disease based in 5 different European countries (Germany, Italy, the Netherlands, Portugal and Sweden). Epidemiology is the 'who, when and where' of diseases, looking at who gets certain illnesses and why. This survey was designed to show the patterns of skin disease in these different regions. 12,377 individuals aged between 18 and 74 years were given a questionnaire designed to record skin conditions during their lifetime, in the past year and in the past month. In order to ensure that this was valid, details of who had made the diagnosis and how the condition was treated were also gathered. The most common skin diseases reported over a patient's life time were warts (41.3%), acne (19.2%) and contact dermatitis (15.0%) followed by other forms of eczema and atopic dermatitis, other skin diseases and urticaria. In general, females were more commonly affected by skin diseases compared to males, except that skin cancer was commoner in males. Overall skin diseases were commoner in northern European countries (Germany, Netherlands and Sweden) than in the south of Europe (Italy & Spain). While in most countries dermatologists were usually consulted for diagnosis and treatment, in the Netherlands other doctors, including general practitioners, were often involved.
Errors in Tables
Journal: JAMA Internal Medicine (2014)

John McBeth, MA, PhD; Gordon Prescott, BSc, MSc, PhD; Graham Scotland, BSc, MSc; Karina Lovell, PhD, MSc, BA, RN; Philip Keeley, RN, BA, MA, PhD; Phil Hannaford, MD, FRCGP, FFSRH, FFPH, DRCOG, DCH; Paul McNamee, MA, MSc, PhD; Deborah P. M. Symmons, MD, FFPH, FRCP; Steve Woby, PhD; Chrysa Gkazinou, BSc(Hons); Marcus Beasley, BSc(Hons); Gary J. Macfarlane, PhD, MD(Hons)