tbuckley/cabot-search huggingface dataset:
A Quasi-physical Algorithm for the Structure Optimization in an Off-lattice Protein Model
Authors: Jing-Fa Liu, Wen-Qi Huang
Journal: Genomics Proteomics & Bioinformatics (2006)

Abstract In this paper, we study an off-lattice protein AB model with two species of monomers, hydrophobic and hydrophilic, and present a heuristic quasi-physical algorithm. First, by elaborately simulating the movement of the smooth solids in the physical world, we find low-energy conformations for a given monomer chain. A subsequent off-trap strategy is then proposed to trigger a jump for a stuck situation in order to get out of the local minima. The algorithm has been tested in the three-dimensional AB model for all sequences with lengths of 13–55 monomers. In several cases, we renew the putative ground state energy values. The numerical results show that the proposed methods are very promising for finding the ground states of proteins.
A Fatality Associated With Dithiazanine Iodide Therapy
Authors: Stanley H. Abadie
Journal: JAMA (1965)

THIS REPORT concerns a fatality following therapy for trichuriasis with dithiazanine iodide. This drug, a cyanine dye, has been widely used since its introduction in 1958. It has been used primarily against<i>Trichuris trichiura and Strongyloides stercoralis</i>. In some cases, dithiazanine has been known to cause gastrointestinal symptoms. The drug is marketed under various brand names and is usually supplied in enteric-coated tablets. There have been eight deaths associated with dithiazanine therapy in the past four years. Of these, only two have been reported in the literature. The first case<sup>1</sup>involved a patient being treated for strongyloidiasis. This patient was a 68-year-old woman who had a malabsorption defect, and absorption of the drug was thought to be due to increased vascularity of the gastrointestinal mucosa combined with slow movement of the dye through the intestine. The second reported case<sup>2</sup>involved a 4-year-old girl being treated for severe trichuriasis.
596 SUSTAINED VIROLOGICAL RESPONSE RATES IN PATIENTS ACHIEVING SLOW RESPONSE OR COMPLETE EARLY VIROLOGICAL RESPONSE (CEVR) WITH CONSENSUS INTERFERON (CIFN) AND RIBAVIRIN IN THE DIRECT TRIAL
Authors: B. Bacon, M. Shiffman, F. Mendes, R. Ghalib, T. Hassanein, G. Morelli, S. Joshi, K. Rothstein, P. Kwo, N. Gitlin
Journal: Journal of Hepatology (2009)
Effects of human soluble thrombomodulin on experimental glomerulonephritis
Authors: Hiroshi Ikeguchi, Shoichi Maruyama, Yoshiki Morita, Yutaka Fujita, Tomomi Kato, Yasuhiro Natori, Hiroyasu Akatsu, William Campbell, Noriko Okada, Hidechika Okada, Yukio Yuzawa, Seiichi Matsuo
Journal: Kidney International (2002)
Role of small-conductance Ca2+-dependent K+ channels in in vitro nitric oxide-mediated aortic hyporeactivity to α-adrenergic vasoconstriction in rats with cirrhosis
Authors: Eric Barrière, Khalid A Tazi, Fabienne Pessione, Jörg Heller, Odile Poirel, Didier Lebrec, Richard Moreau
Journal: Journal of Hepatology (2001)
Recruitment of patients with lung cancer into a randomised clinical trial: experience at two centres
Authors: S G Spiro
Journal: Thorax (2000)

<h3>BACKGROUND</h3> The entry of patients into randomised clinical trials (RCTs) in lung cancer is low. A study was undertaken to assess the reasons why patients with non-small cell lung cancer did not enter a trial involving randomisation to receive or not receive three courses of cisplatin based chemotherapy in addition to primary treatment by surgery, radiotherapy, or best supportive care. <h3>METHODS</h3> The study was carried out in two large London institutions with a special interest in recruiting patients to lung cancer trials. Patients recently diagnosed as having non-small cell lung cancer were prospectively identified and followed to see whether they entered the RCT and, if not, to identify the main reasons why. <h3>RESULTS</h3> Six hundred and eighty eight patients newly diagnosed with non-small cell lung cancer were identified between November 1995 and July 1998; 274 (39.8%) were deemed ineligible for the RCT for clinical reasons, most frequently their general condition rendering them unfit for chemotherapy. Another 161 (23.4%) were ineligible for logistical reasons—for example, they were discharged to centres not participating in the RCT or they were not considered for the trial at an appropriate time in their management. Of 253 potentially eligible patients, only 63 (24.9% of those eligible) agreed to enter the RCT and four entered another study. Of those who did not enter, 77 (41.4%) declined without stating a reason, 61 (32.8%) did not want chemotherapy, and only eight (4.3%) expressed a wish to have chemotherapy. <h3>CONCLUSIONS</h3> Despite considerable time and effort, the proportion of patients recruited was small (9.2%). Many seen were ineligible but, of 253 potentially eligible patients, 186 (73.5%) refused to enter the RCT.
Agreement Between Predicted Response by Imaging Methods and Pathological Response by RCB in Breast Cancer Patients Treated with Neoadjuvant Chemotherapy
Authors: C. Schermann, B. Zurl, P. Regitnig, F. Moinfar, F. Symmans, V. Bjelic-Radisic, P. Schrenk, F. Peintinger
Journal: Annals of Oncology (2014)
European court rules that ambulance staff are covered by working time legislation
Authors: Rory Watson
Journal: BMJ (2004)

The European Court of Justice has given another far reaching ruling on the European Union's working time legislation that will have a direct impact on emergency medical services and on the implementation of the maximum 48 hour working week.

The judgment came in a case involving the German Red Cross, which operates a land-based rescue service using ambulances and other emergency medical vehicles.

Under a collective agreement the employees' average weekly working time, including at least three hours a day on duty during which the emergency workers have to be available at their place of employment and be …
Intensive glucose control increased risk for death and severe hypoglycemia in critically ill adults
Authors: Michelle A. Kovalaske
Journal: Annals of Internal Medicine (2009)

ACP Journal Club18 August 2009Intensive glucose control increased risk for death and severe hypoglycemia in critically ill adultsMichelle A. Kovalaske, MD, Gunjan Y. Gandhi, MD, MScMichelle A. Kovalaske, MDMayo Clinic, Jacksonville, Florida, USA (M.A.K., G.Y.G.)Search for more papers by this author, Gunjan Y. Gandhi, MD, MScMayo Clinic, Jacksonville, Florida, USA (M.A.K., G.Y.G.)Search for more papers by this authorAuthor, Article, and Disclosure Informationhttps://doi.org/10.7326/0003-4819-151-4-200908180-02005 SectionsAboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinkedInRedditEmail Source CitationThe NICE-SUGAR Study Investigators. Intensive versus conventional glucose control in critically ill patients. N Engl J Med. 2009;360:1283-97. https://pubmed.ncbi.nlm.nih.gov/19318384Clinical Impact RatingsHospitalists: Endocrinology: Critical Care: References1 van den Berghe G, Wouters P, Weekers F, et al. Intensive insulin therapy in the critically ill patients. N Engl J Med. 2001;345:1359-67. [PMID: 11794168] Google Scholar2 Bellomo R, Egi M. Glycemic control in the intensive care unit: why we should wait for NICE-SUGAR [Editorial]. Mayo Clin Proc. 2005;80:1546-8. [PMID: 16342646] Google Scholar3 Gandhi GY, Nuttall GA, Abel MD, et al. Intensive intraoperative insulin therapy versus conventional glucose management during cardiac surgery: a randomized trial. Ann Intern Med. 2007;146:233-43. [PMID: 17310047] Google Scholar4 Moghissi ES, Korytkowski MT, DiNardo M, et al. American Association of Clinical Endocrinologists and American Diabetes Association consensus statement on inpatient glycemic control. Diabetes Care. 2009;32:1119-31. [PMID: 19429873] Google Scholar Author, Article, and Disclosure InformationAffiliations: Mayo Clinic, Jacksonville, Florida, USA (M.A.K., G.Y.G.)This article was published at Annals.org on 4 August 2009. PreviousarticleNextarticle Advertisement FiguresReferencesRelatedDetailsSee AlsoReview: Intensive insulin therapy increases risk for hypoglycemia but not mortality in critically ill adults Michelle A. Kovalaske and Gunjan Y. Gandhi Metrics 18 August 2009Volume 151, Issue 4Page: JC2-5KeywordsBloodCardiac surgeryDeath ratesGlucoseHyperglycemiaHypoglycemiaInsulinIntensive care unitsMortalityType 2 diabetes ePublished: 18 August 2009 Issue Published: 18 August 2009 Copyright & PermissionsCopyright © 2009 by American College of Physicians. All Rights Reserved.PDF downloadLoading ...
A comparison of the effects of glucose ingestion and NH4Cl acidosis on urinary calcium and magnesium excretion in man
Authors: Edward J. Lennon, Walter F. Piering
Journal: Journal of Clinical Investigation (1970)

Both glucose ingestion and NH(4)Cl acidosis have been reported to augment urinary calcium (U(Ca) V) and magnesium (U(Mg) V) excretion. Both also cause acidification of the urine and an increase in renal acid excretion. To examine whether a common mechanism of action was involved, the effects of glucose ingestion and NH(4)Cl acidosis on U(Ca) V and U(Mg) V were tested in the same subjects. Glucose ingestion caused significant increases in both U(Ca) V and U(Mg) V. During stable NH(4)Cl acidosis, U(Ca) V increased significantly, while U(Mg) V was unaffected. When a glucose load was given during acidosis, the separate effects of acidosis and glucose on U(Ca) V were additive, whereas U(Mg) V increased less than observed during normal acid-base balance. Although renal acid excretion increased and the urine was acidified after glucose in the normal steady state, when glucose was administered during NH(4)Cl acidosis urine pH rose and there was no change in renal acid excretion. We concluded that NH(4)Cl acidosis and glucose ingestion reduce the renal tubular reabsorption of magnesium and (or) calcium, but they act through separate mechanisms.
Biotransformation and induction: implications for toxicity, bioaccumulation and monitoring of environmental xenobiotics in fish.
Authors: K M Kleinow, M J Melancon, J J Lech
Journal: Environmental Health Perspectives (1987)

Biotransformation of xenobiotics in fish occurs by many of the same reactions as in mammals. These reactions have been shown to affect the bioaccumulation, persistence, residue dynamics, and toxicity of select chemicals in fish. P-450-dependent monooxygenase activity of fish can be induced by polycyclic aromatic hydrocarbons, but phenobarbital-type agents induce poorly, if at all. Fish monooxygenase activity exhibits ideal temperature compensation and sex-related variation. Induction of monooxygenase activity by polycyclic aromatic hydrocarbons can result in qualitative as well as quantitative changes in the metabolic profile of a chemical. Induction can also alter toxicity. In addition, multiple P-450 isozymes have been described for several fish species. The biotransformation products of certain chemicals have been related to specific P-450 isozymes, and the formation of these products can be influenced by induction. Exposure of fish to low levels of certain environmental contaminants has resulted in induction of specific monooxygenase activities and monitoring of such activities has been suggested as a means of identifying areas of pollutant exposure in the wild.
Auditory rehabilitation: should we listen to the patient?
Authors: P Littlejohns, A C John
Journal: BMJ (1987)

The arthritis gradually resolved after treatment with bed rest, splintage, and oral diclofenac.A two week course of oral phenoxymethylpenicillin 500 mg four times a day was administered after confirmation of the diagnosis. CommentThis case of Lyme disease was acquired in the Southampton area of England; Lyme disease presenting as meningitis was recently reported from the same area.3The presentation in early summer reflects the seasonal variation of erythema chronicum migrans and the feeding cycle of the tick.2The prominent synovial inflammation in this case is in keeping with the North American pattern of Lyme disease,' in contrast with the pre- ponderance of cutaneous and neurological manifestations described in European cases.Differences have been shown between isolates of protein from European and American strains of B burgdorferi and may explain this variation in the clinical pattern.4The importance of Lyme disease lies in its high relapse rate and progression, if untreated, to a chronic erosive arthropathy in a tenth of cases.5The diagnosis is readily confirmed by serology.Treatment with high doses of penicillin reduces the frequency and severity of recurrence; intra-articular steroids may have deleterious effects in affected joints and should be avoided.5Lyme disease should be considered in any patient presenting with a history of insect bite and a seronegative arthropathy.We thank
Endoscopic Ultrasonography of Perigastrointestinal Lymph Nodes
Authors: T. L. Tio, G. E. Kallimanis
Journal: Endoscopy (1994)

The introduction of endoscopic ultrasonography (EUS) has opened a window in the diagnosis of the perigastrointestinal lymph nodes. Initial euphoria has been sobered by the fact that false-positive and false-negative diagnoses may occur. We review here the use of EUS to stage gastrointestinal cancer, and particularly to predict the presence or absence of lymph-node metastases. The role of EUS-guided fine-needle aspiration using a radial scanner or a curved array echoendoscope is mentioned.
Protein target discovery of drug and its reactive intermediate metabolite by using proteomic strategy
Authors: Lianghai Hu, John Paul Fawcett, Jingkai Gu
Journal: Acta Pharmaceutica Sinica B (2012)

Identifying protein targets of bioactive compounds is an effective approach to discover unknown protein functions, identify molecular mechanisms of drug action, and obtain information for optimization of lead compounds. At the same time, metabolic activation of a drug can lead to cytotoxicities. Therefore, it is very important to systemically characterize the drug and its reactive intermediate. Mass spectrometry-based proteomic approach has emerged as the most efficient to study protein functions and modifications. This review will discuss method development for the drug target discovery and the application in different fields including the drug toxicity mechanism caused by reactive metabolites.
Rehabilitation of a Child's Eyes
Authors: J. H. Dunnington
Journal: JAMA (1962)

The general layout of the book is similar to the second edition, and this reviewer feels a sense of disappointment that the name of one of the original authors has been excluded. The text is divided into 2 parts: the first deals with an orientation to fusion, to refractive errors, and to the etiology of strabismus; the second part deals with the rehabilitation or the treatment of strabismus. Many questions that arise in the minds of parents are answered in this book which was written primarily for this purpose. Although the work is permeated by common sense and basic principles, it is still somewhat advanced for this group. As in any scientific field, when writing for the layman it is difficult to restrict the text to short sentences and simple words without becoming involved and verbose, and the first section suffers from this. The book is illustrated with clear, clever,
Time-course of stepwise CPAP titration. Behavior of respiratory and neurological variables.
Authors: J M Montserrat, E Ballester, H Olivi, A Reolid, P Lloberes, A Morello, R Rodriguez-Roisin
Journal: American Journal of Respiratory and Critical Care Medicine (1995)

Because successful medical treatment of obstructive sleep apnea/hypopnea syndrome (SAHS) depends on adequate CPAP treatment, we have analyzed in nine SAHS patients the behavior of respiratory and neurological parameters during a stepwise, polysomnography-controlled CPAP titration to achieve an optimal CPAP. Particularly, we have focused on which simple variable could predict the optimal CPAP pressure and could better define a distinctive optimal-suboptimal pattern. Main parameters analyzed through the CPAP titration procedure were respiratory events (apnea, hypopnea), the contour of inspiratory flow, the pleural pressure behavior, the thoraco-abdominal motion, oximetry, arousals, and sleep stage. During the CPAP titration we observed: (1) a rounded shape in the inspiratory flow contour was associated with the lowest esophageal pressure; (2) during stepwise increases in CPAP, almost all apnea events changed to hypopnea periods, followed by prolonged periods of limited inspiratory flow with still high esophageal pressure but without arousals (probably suboptimal CPAP); and (3) as CPAP reached suboptimal levels, sleep stage moved to deeper stages without arousals. We conclude that if during CPAP titration the end point is the disappearance of arousals, most patients with SAHS will still exhibit periods of high intrathoracic pressures with limited inspiratory flow. Alternatively, if the end point to be reached is the lowest esophageal pressure, higher CPAP levels will be needed. The contour of inspiratory flow appears as the simplest variable that best correlates with lowest esophageal pressure during CPAP titration.
Bortezomib plus dexamethasone versus reduced-dose bortezomib, thalidomide plus dexamethasone as induction treatment before autologous stem cell transplantation in newly diagnosed multiple myeloma
Authors: Philippe Moreau, Herve Avet-Loiseau, Thierry Facon, Michel Attal, Mourad Tiab, Cyrille Hulin, Chantal Doyen, Laurent Garderet, Edouard Randriamalala, Carla Araujo, Gérard Lepeu, Gerald Marit, Denis Caillot, Martine Escoffre, Bruno Lioure, Lotfi Benboubker, Brigitte Pégourié, Brigitte Kolb, Anne Marie Stoppa, Jean-Gabriel Fuzibet, Olivier Decaux, Mamoun Dib, Christian Berthou, Carine Chaleteix, Catherine Sebban, Catherine Traullé, Jean Fontan, Marc Wetterwald, Pascal Lenain, Claire Mathiot, Jean-Luc Harousseau
Journal: Blood (2011)
Unit of analysis errors should be clarified in meta-analyses
Authors: R. E Thomas
Journal: BMJ (2003)

EDITOR—Weingarten et al present a comprehensive study in what is a complex area of research.1 We were, however, unclear whether any of the included primary studies had unit of analysis errors and how the authors dealt with such studies in their meta-analysis.

Unit of analysis errors occur in cluster randomised trials when individual patients' data …
Severe hemolysis and red cell fragmentation caused by the combination of a spectrin mutation with a thrombotic microangiopathy
Authors: Petr Jarolim, Jiri Palek, Theresa L. Coetzer, Jack Lawler, Enrique Velez‐Garcia, Jean Fradera, Agnes Charles, Harry S. Jacob, Joel L. Moake
Journal: American Journal of Hematology (1989)

Abstract Two patients are described who presented with severe hemolysis and erythrocyte fragmentation. One patient had renal allograft rejection and disseminated intravascular coagulation, and the other had thrombotic thrombocytopenia purpura. The severity of hemolysis and the red cell abnormalities were considerably more profound than usually seen in patients with thrombotic microangiopathies. After evaluation of blood smears prepared before the onset of the disease and biochemical characterization of proteins of the red blood cell skeleton, a mutation of the skeletal protein spectrin, designated Sp α 1/65 , was identified. In the heterozygous form, this mutation manifests as mild, often asymptomatic, hereditary elliptocytosis. We conclude that in these two patients with thrombotic microangiopathy, the intrinsic red cell membrane instability resulting from the underlying skeletal defect aggravated the mechanical red cell fragmentation, producing morphological features similar to the severe hemolytic form of hereditary elliptocytosis or hereditary pyropoikilocytosis.
The Ursodeoxycholate Dose–Dependent Formation of Ursodeoxycholate–Glucuronide in the Rat and the Choleretic Potencies
Authors: Hajime Takikawa, Naoyo Sano, Tohru Narita, Masami Yamanaka
Journal: Hepatology (1990)

The reason for the discrepancy between bile flow and biliary bile acid excretion during ursodeoxycholate infusion in rats is unknown. We found that ursodeoxycholate–glucuronide is formed during ursodeoxycholate infusion at higher doses. Ursodeoxycholate infusion (1 to 3 μmol/min/100 gm body weight) for 90 min caused marked hypercholeresis, and the previously reported discrepancy between bile flow and biliary bile acid excretion was observed when bile acid concentrations were measured by regular enzymatic methods. However, the appearance of ursodeoxycholate–glucuronide was observed on thin–layer chromatography analysis and up to 30% of the ursodeoxycholate in bile was found to be glucuronidated when determined by the enzymatic method after β–glucuronidase treatment. The choleretic activity of ursodeoxycholate–glucuronide (25.2 μI/μmol) was about 3 times higher than that of ursodeoxycholate (8.9 μl/μmol) when infused at 0.25 μmol/min/100 gm body weight and ursodeoxycholate–glucuronide also stimulated higher biliary bicarbonate excretion than ursodeoxycholate. These results indicate that the discrepancy between bile flow and biliary bile acid excretion caused by high–dose infusion of ursodeoxycholate into rats can be explained by glucuronide conjugation of ursodeoxycholate that cannot be detected by the regular enzymatic method. The glucuronidation of ursodeoxycholate might also be important in the ursodeoxycholate induced increase in biliary bicarbonate excretion.(HEPATOLOGY 1990; 11:743–749.)
An integrated metric physical map of human chromosome 19
Authors: Linda K. Ashworth, Mark A. Batzer, Brigitte Brandriff, Elbert Branscomb, Pieter de Jong, Emilio Garcia, Jeffrey A. Garnes, Laurie A. Gordon, Jane E. Lamerdin, Greg Lennon, Harvey Mohrenweiser, Anne S. Olsen, Tom Slezak, Anthony V. Carrano
Journal: Nature Genetics (1995)
Phentolamine in heart block.
Authors: D. M. Krikle
Journal: BMJ (1970)

Da"U= conclude that the situation is one of com- pensated respiratory alkalosis.Surely these patients have a ventilation-perfusion imbalance, with a shunting effect in the collapsed areas.Consequent hypoxaemia has led to hyperventilation in unaffected lung with resulting hypocapnoea and alkalosis.It is clear that is is unwise to make assumptions about acid/base status on the basis of bicarbonate values alone.Less than one third of the patients studied had pH values performed, and those were in the latter portion of the study when the stimulus to ective reappraisal of the initial preli.e canno w Ave been strong.If the lowered Bicarbonate is a compensatf;