tbuckley/cabot-search huggingface dataset:
Abstract 2454: Cancer RNA:DNA interactome analysis and prediction
Authors: Vladimir A. Kuznetsov
Journal: Cancer Research (2019)

Abstract Transcriptional R-loops are three-stranded RNA:DNA hybrid structures essential for many normal and pathobiological processes. Previously, we have proposed and validated a quantitative R-loop forming structure (RLFS) model, QmRLFS, and predicted about 660,000 RLFSs in the human genome; most of them are localized in total within 75% of the coding and non-coding genes and gene-flanking regions, transcribed enhancer and pseudogene regions. RLFSs are also commonly co-localized as the singleton or clusters at regulatory sites and disease-associated genomic loci. Recently, it was computationally predicted and experimentally shown that RNA:DNA hybrid/R-loop interactome may play critical roles in mutagenesis, chromosome breaks, genome instability and cancer development. Herein, we conducted a comprehensive comparative analysis between the RLFSs, their clusters, publically available DRIP-seq and DRIPc-seq, and our own experimental datasets. QmRLFS demonstrated high accuracy (82-92%) and unbiased performance with resolution on the nucleotide, gene and genome scales. A preferential co-localization of the RLFSs with promoters, U1 splice sites, gene ends, enhancers and non-B DNA structures, such as G-quadruplexes, provides evidences for the mechanic links between RLFSs and dynamical DNA tertiary structures, transcription initiation and critical regulatory genome signals. We introduced and characterized a class of 25000 paired reverse-forward RLFS clusters highly enriched with non-B DNA structures, which co-localized in the transcribed promoters of sense-antisense gene pairs and enhancer’s flanks. In the cancer genomes, we found the RLFSs that form RNA:DNA hybrids/R-loops and could preferentially link open promoters and transcriptionally active enhancer regions. This suggests new mechanisms for in trans RNA:DNA hybrid-mediated 3D-chromatin loop formation. Finally, we found the RLFS clusters supported by cancer cell RNA:DNA hybrids/R-loop data, which were overlapped with hyper-mutated clusters, kataegis expression signatures. Overall, our study provides a rationale for the prediction, discovery, and characterization of the RLFSs as novel functional structures for an emerging quantitative biology and pathobiology of RNA-DNA interactomes. Citation Format: Vladimir A. Kuznetsov. Cancer RNA:DNA interactome analysis and prediction [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2019; 2019 Mar 29-Apr 3; Atlanta, GA. Philadelphia (PA): AACR; Cancer Res 2019;79(13 Suppl):Abstract nr 2454.
THE CAUSE OF DEATH
Journal: JAMA (1918)

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
The Medical Review Article Revisited: Has the Science Improved?
Journal: Annals of Internal Medicine (1999)

Summaries for Patients21 December 1999The Medical Review Article Revisited: Has the Science Improved?Search for more papers by this authorAuthor, Article, and Disclosure Informationhttps://doi.org/10.7326/0003-4819-131-12-199912210-00028 SectionsAboutFull Text ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinkedInRedditEmail What is the problem and what is known about it so far?Review articles in medical journals summarize large amounts of information on a particular topic; they are therefore a useful and popular source of information for doctors. However, some review articles reflect the personal opinions of the author more than the body of knowledge about a topic. Experts have proposed guidelines for how authors should write review articles in order to avoid personal bias. These guidelines recommend that authors should address a focused question, describe how they searched for and evaluated information, identify gaps in knowledge, and estimate risks ... Author, Article, and Disclosure InformationAffiliations: The summary below is from the full report titled “The Medical Review Article Revisited: Has the Science Improved?” It is in the 12 December 1999 issue of Annals of Internal Medicine (volume 131, pages 947-951). The authors are A. McAlister, H.D. Clark, C. van Walraven, S.E. Straus, F.M.E. Lawson, D. Moher, and C.D. Mulrow.Summaries for Patients are a service provided by Annals to help patients better understand the complicated often mystifying language of modern medicine.Summaries for Patients are presented for informational purposes only. These summaries are not a substitute for advice from your own medical provider. If you have questions about this material, or need medical advice about your own health or situation, please contact your physician. The summaries may be reproduced for not-for-profit educational purposes only. Any other uses must be approved by the American College of Physicians-American Society of Internal Medicine. Previousarticle Advertisement FiguresReferencesRelatedDetailsSee AlsoThe Medical Review Article Revisited: Has the Science Improved? Finlay A. McAlister , Heather D. Clark , Carl van Walraven , Sharon E. Straus , Fiona M.E. Lawson , David Moher , and Cynthia D. Mulrow Metrics Cited byUsing Evidence in Pain Practice: Part I: Assessing Quality of Systematic Reviews and Clinical Practice Guidelines 21 December 1999Volume 131, Issue 12Page: 947KeywordsTreatment guidelines ePublished: 15 August 2000 Issue Published: 21 December 1999 Copyright & PermissionsCopyright © 1999 by American College of Physicians. All Rights Reserved.Loading ...
Mass Vaccination With Oral Poliovirus Vaccine— Asia and Europe, 1995
Journal: JAMA (1995)

The theme of World Health Day, April 7, 1995, is "Target 2000--A World Without Polio" (1). In conjunction with World Health Day activities, 18 geographically contiguous countries in Europe, Central and South Asia, and the Middle East are conducting coordinated National Immunization Days (NIDs)* with oral poliovirus vaccine (OPV) (Figure 1). The World Health Organization (WHO) has designated this effort "Operation MECACAR" (MEditerranean, CAucasus, and Central Asian Republics). This report describes the efforts of this campaign and summarizes polio surveillance data for 1994.
18-Hydroxy-Deoxycorticosterone Secretion in Experimental Hypertension in Rats
Authors: JOHN P. RAPP, LEWIS K. DAHL
Journal: Circulation Research (1971)

Adrenal steroidogenesis was studied in vitro and in vivo in rats which have been specifically bred for susceptibility (S strain) or resistance (R strain) to the hypertensive effects of salt. A marked quantitative difference was found between S and R rats in the adrenal biosynthetic pathways which are subsequent to deoxycorticosterone (DOC). There was a twofold difference in the ability to 18-hydroxylate DOC to form 18-hydroxy-deoxycorticosterone (18OH-DOC) with the greater activity in the S rats. This increment in 18-hydroxylation of DOC in S over R rats was offset by an equal decrement in 11β-hydroxylation of DOC to form corticosterone (B) in S compared with R rats. These alterations in metabolic pathways gave rise to characteristic 18OH-DOC/B ratios for S and R animals that were obvious both in vitro and in vivo. The data suggest, therefore, that in selectively breeding rats on the basis of blood pressure response to salt, a gene (or genes) which affects the 18OH-DOC/B ratio has been segregated in the S and R strains. Although this segregation is in itself good evidence for an effect of 18OH-DOC (or 18OH-DOC/B ratio) on blood pressure in rats, it was also emphasized that there is evidence for more than one gene affecting blood pressure in rats. Thus, the steroid difference described is likely to be controlled by only one of several genes affecting the quantitative character of blood pressure. Comparison of 18OH-DOC/B ratios in S and R strains with other strains of rats showed that the high ratio in S rats was quite common, but that the low ratio in R rats was rather unique. Thus, it seems that the low 18OH-DOC/B ratio of R animals connotes resistance to salt, while the higher ratio in S and unselected strains probably only connotes normal susceptibility to salt. The extreme sensitivity of S rats to salt must therefore be accounted for by other genes.
RIBECCA: A phase IIIb, multicenter, open label study for women with estrogen receptor-positive locally advanced or metastatic breast cancer treated with ribociclib (LEE011) in combination with letrozole—Results of the second interim analysis.
Authors: Arnd Nusch, Thomas Decker, Mattea Reinisch, Andreas D. Hartkopf, Bernhard Heinrich, Christian M. Kurbacher, Roswitha Dorothea Fuchs, Hans Tesch, Petra Krabisch, Sara Brucker, Tanja N. Fehm, Wolfgang Janni, Sherko Kümmel, Diana Luftner, Andreas Schneeweiss, Martin H. Schuler, Claudia Voges, Joerg Schubert, Peter A. Fasching
Journal: Journal of Clinical Oncology (2019)

1061 Background: RIBECCA is a national, multi-center, open-label, single-arm phase IIIb trial assessing the efficacy and safety of ribociclib in combination with letrozole in a patient population similar to the populations of MONALEESA-2, -3 and -7. Here we present the results of the second preplanned interim analysis. Methods: Main inclusion criteria allowed enrollment of men or women with metastatic or locally advanced breast cancer not amenable to curative treatment by surgery or radiotherapy, and histological or cytological confirmation of ER+, HER2- breast cancer, irrespective of their menopausal status. The primary objective is to assess the clinical benefit rate (CBR) after 6 months. Secondary objectives include: progression free survival (PFS), overall survival (OS), safety and changes in quality of life. Results: The cut-off date for this second interim analysis was 12 months after the last patient was enrolled in the pretreated and premenopausal cohort. Here we report a preliminary analysis on safety, efficacy and quality of life. We describe the baseline characteristics, safety data and the clinical benefit rate (CBR) at 24 weeks, of patients (pts) with at least 24 weeks follow up (n = 411). The median observation time for all patients in this analysis was 8.1 months. Baseline characteristics: of 411 pts, 409 were female and 2 male. Median age: 64 yrs; 46 pts pre-or perimenopausal, 363 postmenopausal; ECOG 0-1: 97.0%; median time since first recurrence: 1.6 months; 72.5 % pts had bone metastases (40.6% bone only), 30.7% liver, 27.3% lung and 29.2% other metastases. Median relative dose intensity was 0.905 for ribociclib and 1 for letrozole. The most common treatment emergent AEs (all grades) were neutropenia and/or neutrophil count decreased (54.5%), nausea (40.6%), fatigue (36.5%), alopecia (32.6%), leukopenia or WBC decreased (29%), nasopharyngitis (23.1%), diarrhea (21.4%), ALT increased (20.7%), AST increased (19%). The CBR by week 24 was 67.6%. Preliminary information on quality of life will be provided. Conclusions: The results of the second interim analysis in this additional patient population are in line with data published from the pivotal phase III studies MONALEESA-2, MONALEESA-3 and MONALEESA-7. Clinical trial information: NCT03096847.
Danger in many forms lurks around US military medical bases in Bosnia
Authors: P. Gunby
Journal: JAMA (1997)

RENEWED fighting among warring factions in the former Yugoslavia is a continuing threat to US military medical and other personnel supporting the North Atlantic Treaty Organization (NATO) peace-enforcement effort. But there are other dangers as well. NATO troops patrol in convoys of at least 4 vehicles, supported by heavy weapons, and await efforts of an estimated 170 000 refugees to return to the 4-km demilitarized area between Bosnian Serbs, Croats, and Muslims. Military medical people from the United States and other NATO member countries are standing by, taking care of the various illnesses and other problems that arise in their soldier populations and hoping that they will not be called on to treat battle casualties. In the meantime, there are concerns about land mines—2 local women accidentally triggered a mine near a US base in Bosnia-Herzegovina recently, resulting in the death of one and serious injury of the other—rabies and
Feuds
Journal: JAMA (2001)

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
The Influence of Kidney Disease on Outcomes of Patients with Heart Attack
Journal: Annals of Internal Medicine (2002)

Summaries for Patients1 October 2002The Influence of Kidney Disease on Outcomes of Patients with Heart AttackSearch for more papers by this authorAuthor, Article, and Disclosure Informationhttps://doi.org/10.7326/0003-4819-137-7-200210010-00002 SectionsAboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinkedInRedditEmail What is the problem and what is known about it so far?In a heart attack (acute myocardial infarction), a portion of heart muscle dies because blockages in blood vessels interrupt the blood supply to the heart. Although many people are healthy after a heart attack, some have complications that increase their risk for death. Some even die before leaving the hospital. The presence of other medical conditions can influence recovery after a heart attack. Chronic kidney disease causes kidney function to slowly worsen over time until the kidneys shut down completely, a condition known as end-stage renal disease (ESRD). ... Author, Article, and Disclosure InformationAffiliations: The summary below is from the full report titled “Acute Myocardial Infarction and Renal Dysfunction: A High-Risk Combination.” It is in the 1 October 2002 issue of Annals of Internal Medicine (volume 137, pages 563-570). The authors are RS Wright, GS Reeder, CA Herzog, RC Albright, BA Williams, DL Dvorak, WL Miller, JG Murphy, SL Kopecky, and AS Jaffe.Summaries for Patients are a service provided by Annals to help patients better understand the complicated and often mystifying language of modern medicine.Summaries for Patients are presented for informational purposes only. These summaries are not a substitute for advice from your own medical provider. If you have questions about this material, or need medical advice about your own health or situation, please contact your physician. The summaries may be reproduced for not-for-profit educational purposes only. Any other uses must be approved by the American College of Physicians-American Society of Internal Medicine. PreviousarticleNextarticle Advertisement FiguresReferencesRelatedDetailsSee AlsoAcute Myocardial Infarction and Renal Dysfunction: A High-Risk Combination R. Scott Wright , Guy S. Reeder , Charles A. Herzog , Robert C. Albright , Brent A. Williams , David L. Dvorak , Wayne L. Miller , Joseph G. Murphy , Stephen L. Kopecky , and Allan S. Jaffe Metrics 1 October 2002Volume 137, Issue 7Page: I-22KeywordsAcute myocardial infarctionAspirinBlood vesselsChronic kidney diseaseMyocardial infarctionMyocardiumNursesRenal diseasesRenal failureReperfusion ePublished: 1 October 2002 Issue Published: 1 October 2002 Copyright & PermissionsCopyright © 2002 by American College of Physicians. All Rights Reserved.PDF downloadLoading ...
The 1951 Year Book of Obstetrics and Gynecology (August, 1950-June, 1951)
Journal: JAMA (1952)

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
Diabetic Neuropathic Cachexia
Authors: Glen N. Gade
Journal: JAMA (1980)

DIABETIC neuropathic cachexia is a rare diabetic neuropathic syndrome. When it does occur, the painful component of the syndrome may be severely incapacitating and functionally compromising. The usual treatment regimens employed for diabetic peripheral neuropathies have been discouraging, and the management of the pain remains a difficult clinical problem. A recent report<sup>1</sup>inThe Journalregarding the successful use of amitriptyline hydrochloride and fluphenazine dihydrochloride in diabetic peripheral neuropathy prompted us to try these drugs in a patient with the unrelenting pain of diabetic neuropathic cachexia. His dramatic response to this therapeutic program was rapid and long-lasting. <h3>Report of a Case</h3> The patient was a 59-year-old man with diabetes of 12 years' duration, which had been controlled with diet and tolbutamide therapy. He was admitted to the hospital with a six-month history of bilateral aching in the anterior thigh muscles, most notable at night,
Probing Cyberbullying
Authors: Joan Stephenson
Journal: JAMA (2010)

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
Jahrbuch der Practischen Medicin.
Journal: JAMA (1895)

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
NECROLOGY.
Journal: JAMA (1884)

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