tbuckley/cabot-search huggingface dataset:
Abstract 2128: Whole transcriptome sequencing in normal and cancer prostate tissue
Authors: Wei Tang, Ludmila Prokunina-Olsson
Journal: Cancer Research (2010)

Abstract Prostate cancer (PrCa) is the second most common type of cancer in males. Established risk factors for PrCa are age, ethnicity and family history. PrCa shows consistent evidence of familial aggregation and heritable factors have been estimated to explain 42% (29-50%) of disease risk in individuals of European ancestry. More than 20 regions harboring genetic risk variants associated with increased risk of PrCa have been identified through Genome-wide association studies (GWAS) to date (MSMB, HNF1B, SLC22A3, LMTK2, KLK2-KLK3, NUDT11, THADA, ITGA6, PDLIM5, TET2, NKX3.1, TH, TTLL1, EHBP1, CTBP2, JAZF1 and 3p12.1, 7p15.3, 8q24, 11q13.3 and 12q13.13 genomic regions). We began to investigate and characterize the entire transcriptome of normal and cancer prostate tissue through a massively parallel sequencing technology (Illumina /Solexa Genome Analyze II). We generated transcriptome profiles based on 36 or 72 bp paired-end reads for cell lines established from cancer and matching normal tissue from two patients. To analyze the data, we used BWA, Bowtie, Tophat packages and Partek Genomics Suite software. More than 80% of the sequence reads were mapped to the human reference sequence (hg19). The aligned sequences were examined for presence of alternative splicing forms, novel exons, non-coding transcripts and chimeric events compared with a reference transcript annotation from RefSeq Genes of UCSC genome browser database. Based on RPKM algorithm, we also evaluated the expression level in the cancer and normal tissues. We detected over 70,000 transcripts and of ∼ 5, 000 of them were novel splicing isoforms not present in the UCSC database. We examined transcriptome landscape in GWAS-identified loci associated with PrCa. Within the 8q24 region we observed differential expression or evidence of alternative transcripts for SRRM1L, POU5F1B and LOC72767. Within 11q13.3 we observed a novel transcript found only in normal prostate tissue. Many of the risk candidate genes such as ITGA6, PDLIM5, THADA, TET2, SLC22A3, CTBP2 and EHBP1 had multiple splicing isoforms and some of these isoforms were differentially expressed between normal and tumor samples. The expression of alternative transcripts will be confirmed by qPCR in independent samples and correlated with cancer -associated genetic variants identified by GWAS. In conclusion, we generated a resource for studies of PrCa. This reference set will be useful for functional exploration of genetic association signals detected through GWAS. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 2128.
Left Ventricular Performance During By-Pass or Distension of the Right Ventricle
Authors: SPYRIDON D. MOULOPOULOS, ARIS SARCAS, STAMATOS STAMATELOPOULOS, EVANGELOS AREALIS
Journal: Circulation Research (1965)

A dog heart preparation was used to investigate the direct or mechanical effects of a right ventricular by-pass and of right ventricular distension on the performance of the left ventricle. Several other factors known to affect left ventricular performance were eliminated. The data obtained indicate impairment of left ventricular function either by right ventricular by-pass or by right ventricular distension. It is suggested that this impairment may be due to a direct effect of the volume of blood contained in the right ventricle and of right ventricular function on the common muscle bundles that encircle both ventricles.
Cardiac Scanning With Technetium-99mLabeled Albumin
Authors: Richard A. Holmes
Journal: JAMA (1966)

As an aid in differentiating pericardial effusion L from cardiac dilatation or hypertrophy, or both, mapping the distribution of radioactive tracers in the cardiovascular blood pool by scanning has been used increasingly since the method was introduced by Rejali, MacIntyre, and Friedell.<sup>1</sup>One way of improving the resolution of the cardiac scan is to use radiopharmaceuticals that provide greater numbers of photons available to the scanning detector. A variety of agents have been used in the past. Wagner, McAfee, and Mozley<sup>2</sup>used sodium iodide I 131 bound to human albumin; MacIntyre et al<sup>3</sup>and others<sup>4</sup>introduced the use of sodium iodipamide I 131 (Radio-Cholografin). Technetium 99m, obtainable as a radioactive decay product of molybdenum 99 offers many advantages as a nuclide for scanning.<sup>5</sup>The absence of beta radiation with<sup>99m</sup>Tc and its six-hour physical half-life, make it suitable for use in millicurie dosage. When
Experience with Plastic Tubing in Prolonged Intravenous Therapy
Authors: C. D. Bonner
Journal: New England Journal of Medicine (1951)

THIS paper summarizes our experience in using intravenous intubation in chronically ill patients for continuous or repetitive venoclyses. It is our impression that this method has a definite adjunctive value in hospital therapy and that it saves patients considerable hardship and renders less difficult the work of physicians and nurses in the management of the chronically ill.This method is well illustrated in our treatment of a 35-year old woman with Marie–Strümpell arthritis. This patient had undergone 6 unsuccessful arthroplasties in the past and was bedridden. She entered the hospital with chronic pyelonephritis and renal calculi. She had intermittent episodes . . .
Ethical Dimensions in the Health Professions
Authors: Kenneth Vaux
Journal: JAMA (1982)

Purtilo and Cassel have produced a masterful ethics handbook. Its strengths lie in concise, straight-forward language and its logically sequential format. The authors do not presume at any point previous training in or familiarity with ethics on the part of their readership. Though never patronizingly simplistic, the format of their text follows an outline that most philosophical tomes would do well to emulate.  At the outset, the authors state their reasons for producing this volume and the agenda they chose to follow; the corpus of existent medical ethics literature, they believe, is directed toward the roles of physician and nurse. They intend to provide a handbook for student and practitioner in the allied health professions: therapists, pharmacists, technologists. Their immediate objectives are to increase an ethical awareness— that is, to raise the moral consciousness of those professionals by educating them to the stuff of ethics that characterizes their clinical practice—
Immunoprophylaxis and therapy of grafted rat colonic carcinoma.
Authors: M S Martin, F Martin, E Justrabo, M F Michel, A Lagneau
Journal: Gut (1977)

Two independent lines of chemically-induced colonic carcinoma, serially graftable in syngeneic rats, have been used to investigate the effects of immunoprophylaxis and immunotherapy. Rats were immunised by various procedures, including BCG, irradiated tumour grafts, and cancer cells treated by mitomycin and neuraminidase. A partial inhibition of tumour growth was observed in one of the four protocols. On the other hand, a significant enhancement of tumour growth was obtained in two other experiments.
Unique Mice May Help Reveal Human Response to Chemical Exposure
Authors: Tracy Hampton
Journal: JAMA (2014)

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
HAb18G/CD147 promotes cell motility by regulating annexin II-activated RhoA and Rac1 signaling pathways in hepatocellular carcinoma cells
Authors: Pu Zhao, Wei Zhang, Shi-Jie Wang, Xiao-Ling Yu, Juan Tang, Wan Huang, Yong Li, Hong-Yong Cui, Yun-Shan Guo, Jan Tavernier, Si-He Zhang, Jian-Li Jiang, Zhi-Nan Chen
Journal: Hepatology (2010)

Abstract Tumor cells can move as individual cells in two interconvertible modes: mesenchymal mode and amoeboid mode. Cytoskeleton rearrangement plays an important role in the interconversion. Previously, we reported that HAb18G/CD147 and annexin II are interacting proteins involved in cytoskeleton rearrangement, yet the role of their interaction is unclear. In this study we found that the depletion of HAb18G/CD147 produced a rounded morphology, which is associated with amoeboid movement, whereas the depletion of annexin II resulted in an elongated morphology, which is associated with mesenchymal movement. The extracellular portion of HAb18G/CD147 can interact with a phosphorylation-inactive mutant of annexin II and inhibit its phosphorylation. HAb18G/CD147 inhibits Rho signaling pathways and amoeboid movement by inhibiting annexin II phosphorylation, promotes membrane localization of WAVE2 and Rac1 activation by way of the integrin-FAK-PI3K/PIP3 signaling pathway, and promotes the formation of lamellipodia and mesenchymal movement. Conclusion: These results suggest that the interaction of HAb18G/CD147 with annexin II is involved in the interconversion between mesenchymal and amoeboid movement of hepatocellular carcinoma cells. (Hepatology 2011)
NEURALGIA AND NERVE CRIES.
Authors: CHAS. HOWARD LODOR
Journal: JAMA (1898)

From time immemorial certain phases or symptoms of disease which have been uncertain in their pathology or whose pathology has been unknown, have been classified under general terms, vague and uncertain; and these terms have varied with the ages. Time was when the humors of the body accounted for all manifestations of disease which could not be accounted for or classified by the scapel, inspection, or inductive reasoning from the most simple and elementary medical facts. Humors have passed, and we now classify such disturbance as manifestations of a diathesis, or of chronic rheumatism or gout, of the presence in the blood of nerve irritants, as uric acid, toxalbumins, auto-infections, etc., or as due to the cries of sensitive nerves for pabulum which an impoverished circulatory medium no longer furnishes them, and call them neuralgia. The longer I study the matter, the more am I inclined to believe that a
Promise of Low-Density Lipoprotein–Lowering Therapy for Primary and Secondary Prevention
Authors: Scott M. Grundy
Journal: Circulation (2008)

It is not good to settle into a set of opinions.At first putting forth great effort to be sure that you have grasped the basics, then practicing so that they may come to fruition is something that will never stop for your whole lifetime.Do not rely on following the degree of understanding that you have discovered, but simply think. . .
Th17 Cells Express Interleukin-10 Receptor and Are Controlled by Foxp3− and Foxp3+ Regulatory CD4+ T Cells in an Interleukin-10-Dependent Manner
Authors: Samuel Huber, Nicola Gagliani, Enric Esplugues, William O'Connor, Francis J. Huber, Ashutosh Chaudhry, Masahito Kamanaka, Yasushi Kobayashi, Carmen J. Booth, Alexander Y. Rudensky, Maria Grazia Roncarolo, Manuela Battaglia, Richard A. Flavell
Journal: Immunity (2011)
Stimulation of neutrophil oxygen-dependent metabolism by human leukocytic pyrogen.
Authors: M S Klempner, C A Dinarello, W R Henderson, J I Gallin
Journal: Journal of Clinical Investigation (1979)

The ability of highly purified human leukocytic pyrogen (LP) to stimulate neutrophil oxygen-dependent metabolism was studied. Human peripheral blood neutrophils exposed to leukocytic pyrogen in vitro demonstrated an increase in the percentage of neutrophils reducing nitroblue tetrazolium (NBT) dye and a marked stimulation of superoxide dismutase inhibitable reduction of ferricytochrome c. LP stimulation of neutrophil oxygen-dependent metabolism was dose and time dependent. Procedures that destroyed the pyrogenicity of LP also abolished the effects on neutrophil metabolism. Neutrophil hexose monophosphate shunt activity was also stimulated by LP. In a rabbit model, the effect of in vivo LP on neutrophil superoxide generation was also studied. There was a consistent increase in the percent and absolute number of NBT positive neutrophils. Peak stimulation of neutrophil metabolism occurred after defervescence suggesting several possible mechanisms. The observations reported here may, in part, explain the nonspecificity of the NBT test in febrile, noninfected patients and provide further understanding of neutrophil physiology during acute inflammation.
Clever searching for evidence
Authors: Sharon Sanders, Chris Del Mar
Journal: BMJ (2005)

New search filters can help to find the needle in the haystack 

Do people who write about and propagate evidence based medicine use its principles properly? A paper in this week's BMJ and two other recent BMJ papers report on such authors' abilities to find the best evidence.1–3 On the way, they have provided excellent search strategies, using filters they call “hedges” (as in hedging one's bets) that help to separate the wheat (scientifically strong studies of diagnosis, treatment, and systematic reviews) from the chaff (less rigorous ones) in one of the most frequently accessed medical literature databases, Medline.

Why is this important? We still often need to search large databases such as Medline to find original research data because reviews may not cover our questions, may be out of date, and may not be relevant enough to real clinical problems. Databases of primary research are staggeringly large (there are more than 12 million citations in Medline, and 7 million in Embase). Most research papers are written as communications from scientist to scientist and relatively few have immediate clinical relevance. Most of the remainder are not rigorous enough to warrant …
Significance of tomographic signs in the diagnosis of bronchial carcinoma.
Authors: M J Turner, A S Thornton, B Gorman, L R Bagg, I D Cox, N J Russell
Journal: Thorax (1987)

In a previous study the value of conventional tomography was assessed in the diagnosis of 100 potentially malignant opacities on the chest radiograph. To determine which of the radiological signs were most useful the radiologists reviewed 82 of the original 100 radiographs independently, searching for the presence or absence of 36 signs. The five commonest signs of bronchial carcinoma were a mass, coarse linear shadows contiguous to a mass, unilateral hilar enlargement, linear shadows from mass to periphery, and an irregular margin to a mass. The combination of either two or three of these signs was highly sensitive, 95% and 89% respectively, in detecting carcinoma. The most useful specific signs were lobulation of the mass and cavitation with thick or irregular walls.
Mechanical response of the mammalian myocardium to modifications of the action potential
Authors: R. L. Kaufmann, H. Antoni, R. Hennekes, R. Jacob, M. Kohlhardt, M. J. Lab
Journal: Cardiovascular Research (1971)

Journal Article Mechanical response of the mammalian myocardium to modifications of the action potential Get access R. L. Kaufmann, R. L. Kaufmann From the Institute of Physiology, University of Freiburg, Federul Republic of Germany Search for other works by this author on: Oxford Academic PubMed Google Scholar H. Antoni, H. Antoni From the Institute of Physiology, University of Freiburg, Federul Republic of Germany Search for other works by this author on: Oxford Academic PubMed Google Scholar R. Hennekes, R. Hennekes From the Institute of Physiology, University of Freiburg, Federul Republic of Germany Search for other works by this author on: Oxford Academic PubMed Google Scholar R. Jacob, R. Jacob From the Institute of Physiology, University of Freiburg, Federul Republic of Germany Search for other works by this author on: Oxford Academic PubMed Google Scholar M. Kohlhardt, M. Kohlhardt From the Institute of Physiology, University of Freiburg, Federul Republic of Germany Search for other works by this author on: Oxford Academic PubMed Google Scholar M. J. Lab M. J. Lab From the Institute of Physiology, University of Freiburg, Federul Republic of Germany Search for other works by this author on: Oxford Academic PubMed Google Scholar Cardiovascular Research, Volume 5, Issue supp1, July 1971, Pages 64–70, https://doi.org/10.1093/cvr/5.supp1.64 Published: 01 July 1971
Management of Cerebral Metastases
Authors: Robert Raskind
Journal: JAMA (1976)

<h3>To the Editor.—</h3> I read with considerable interest the communication of Dr Brown (235:1552, 1976). I would like to point out that in a series of 63 patients with histologically confirmed malignant neoplasms, 12 had lesions different from the primary neoplasm, including four meningiomas. With this in mind, I would like to reiterate Dr Brown's warning of the danger of assuming a single intracranial mass lesion to be metastatic without a tissue diagnosis. Recently we have seen an intracerebral hematoma in a patient with known metastatic carcinoma to the cervical lymph nodes.
THE EFFECT OF TEMPERATURE ON THE GROWTH OF FROG CARCINOMA
Authors: Balduin Lucké, H. Schlumberger
Journal: The Journal of Experimental Medicine (1940)

From the results of these experiments we can now attempt to answer the questions proposed in the introduction. Just as in normal tissues, it has been found that growth and development of a malignant neoplasm are influenced by temperature both quantitatively and qualitatively. The most striking effect was the acceleration in the rate of growth of the tumor at higher temperature, and retardation at lower. The ultimate size attained within periods averaging 3 months was regularly much greater at higher temperature. Also, the character of growth was quite different. At high temperature, there was more efficient vascularization, and the tumors formed long, branching, tubular outgrowths and cysts; at low temperature the outgrowths were short and stubby and cysts were rare. These differences were accentuated by repeatedly passing the tumor from one generation to another. In particular, in such serial passages, there was a remarkable tendency for the tumor to develop greatly dilated tubules and large cysts, which later, however, became solid as the result of ingrowth from the wall. The experiments demonstrate that the carcinoma in the frog can exist over a wide range of temperature. Even a temperature as low as 4 degrees , as in the hibernation experiment, produces no injury to the tumor. This result is consistent with the common occurrence of large, healthy, spontaneous tumors in frogs which have recently hibernated in their natural state.
A Management Algorithm Based on Delayed Bleeding After Wide-Field Endoscopic Mucosal Resection of Large Colonic Lesions
Authors: Nicholas G. Burgess, Stephen J. Williams, Luke F. Hourigan, Gregor J. Brown, Simon A. Zanati, Rajvinder Singh, William Tam, Joshua Butt, Karen Byth, Michael J. Bourke
Journal: Clinical Gastroenterology and Hepatology (2014)
In search of a good death: Medical education has important role in extending palliative care
Authors: M. Lloyd-Williams
Journal: BMJ (2003)

EDITOR—Death is still society's final taboo, as the article by Ellershaw and Ward showed.1 All medical schools in the United Kingdom now include some teaching on palliative care in their undergraduate curriculum, but most of the emphasis has been on the care of patients dying of advanced cancer. Much palliative care teaching continues to be didactic and formal assessment is rare. …
Porphyria
Authors: Morris J. Seide
Journal: New England Journal of Medicine (1958)

THE term porphyria describes a peculiar constitutional fault or an "inborn error of metabolism."1 Little is known about the etiology, pathogenesis or treatment in spite of impressive advances in isolation of some associated substances.Two patients died of acute intermittent porphyria within a six-month period in hospitals of the Greater Hartford area. To determine the frequency with which this diagnosis has been made, all cases coded as porphyria were pulled from the record rooms of Hartford Hospital, McCook Memorial, Mount Sinai, St. Francis and Newington Veterans Administration hospitals, all located in the Greater Hartford area. A total of 9 cases . . .
THE SIGNIFICANCE OF NECROTIZING PYELONEPHRITIS IN DIABETES MELLITUS
Authors: J. HARTWELL HARRISON
Journal: JAMA (1942)

While the physician treating patients with diabetes mellitus devotes much attention to the early discovery of infections, the importance of the infections involving the urinary tract has been underestimated. It is our purpose in this paper to discuss a severe form of urinary tract infection in patients with diabetes and the stages by which the final changes come about. The end result is a necrotizing pyelonephritis with extensive destruction of renal tissue. This complication of diabetes, unless recognized in its incipience, leads to a fatal termination. Most of the features of this form of pyelonephritis are seen occasionally in patients not suffering from diabetes. However, the severity, rapid progression and extent of necrosis of renal tissue are hardly to be found in the absence of diabetes.  In some recent surveys of the complications of diabetes, the infections of the urinary tract have not appeared especially common. 1 However, in others,
Diagnosis of Large-Bowel Cancer in the Asymptomatic Patient
Authors: David H. Greegor
Journal: JAMA (1967)

In a survey of 2,000 physical examinations performed in an internist's office, seven patients with invasive carcinoma of the colon were found. None of the patients in the survey was examined because of large-bowel symptoms. All seven patients had positive tests for occult blood in at least one of three stool specimens. This finding led to the preparation of an easier method for multiple stool examination as a routine office procedure. Recent reports have emphasized the limitations of the sigmoidoscope in cancer detection. If a positive reaction is obtained from a multiple stool occult blood test, the patient should be further examined with barium sulfate enema roentgenograms. This is one of the best methods for detecting large-bowel cancer during routine well-patient examinations.
The Making of a Psychiatrist: The Resident's View of the Process of His Professional Development
Authors: CHARLES S. FLECKLES
Journal: American Journal of Psychiatry (1972)

The author reports his findings from interviews with a class of psychiatric residents. He concludes that for the resident, the role that residency training plays in the process of his professional development is very much a function of the types of relationships he is able to form with people in the institute (teachers, supervisors, fellow residents). Where the opportunity exists for an active mutual educational alliance, he experiences professional growth, maturation, and individuation. Where it does not, he is likely to stagnate.