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1.
Faraday Discuss ; 216(0): 395-413, 2019 Jul 11.
Article in English | MEDLINE | ID: mdl-31012872

ABSTRACT

Excited state energy transfer in disordered systems has attracted significant attention owing to the importance of this phenomenon in both artificial and natural systems that operate in electronically excited states. Of particular interest, especially in the context of organic electronics, is the dynamics of triplet excited states. Due to their weak coupling to the singlet manifold they can often act as low energy trapping sites and are therefore detrimental to device performance. Alternatively, by virtue of their long lifetime they can lead to enhanced diffusion lengths important for organic photovoltaics (OPV). Herein, we explore the triplet energy transfer mechanism from dichlorobenzene to thioxanthone in methanol solution. We rationalise previous experimental observations as arising from preferential population transfer into the lowest triplet state rather than the higher lying triplet state that is closer in energy. The reason for this is a delicate balance between the electronic coupling, reorganisation energy and the energy gap involved. The present results provide the understanding to potentially develop a hot exciton mechanism in materials for organic light emitting diodes (OLED) to achieve higher device efficiencies.

2.
Occup Med (Lond) ; 69(8-9): 625-631, 2019 Dec 31.
Article in English | MEDLINE | ID: mdl-32025738

ABSTRACT

BACKGROUND: Limited research suggests that female firefighters report problem drinking at higher rates than the general population. AIMS: To identify longitudinal drinking patterns in female firefighters, make comparisons to male firefighters and examine problem drinking in relation to post-traumatic stress disorder (PTSD) and depression. METHODS: Study participants included 33 female and 289 male firefighter recruits, who were assessed over their first 3 years of fire service. RESULTS: Female firefighters consumed increasing numbers of drinks per week, with a median of 0.90 drinks per week at baseline, and 1.27 drinks in year 3. Female firefighters reported binge drinking at high rates, with nearly half binging at least once per year across all time points (44-74%). The percentage that reported binge drinking three or more times per month doubled over the course of the study (from 9% to 18%). Overall, males reported higher rates of binge drinking and a greater number of drinks per week; however, binge drinking rates among females increased over time and became comparable to rates of binge drinking among males. A greater percentage of female than male firefighters met the criteria for problem drinking by year 1. Problem drinking was associated with screening positive for PTSD at year 1 and depression at year 2, but not with occupational injury. CONCLUSIONS: Over time, female firefighters reported increasing amounts of drinking, more frequent binge drinking and more negative consequences from drinking. These findings along with existing literature indicate female firefighters change their drinking in the direction of their male counterparts.


Subject(s)
Alcohol Drinking/epidemiology , Depression/epidemiology , Firefighters/psychology , Stress Disorders, Post-Traumatic/epidemiology , Adult , Binge Drinking/epidemiology , Female , Humans , Longitudinal Studies , Male , Sex Characteristics , United States/epidemiology
3.
Scand J Urol ; 52(5-6): 349-357, 2018.
Article in English | MEDLINE | ID: mdl-30624128

ABSTRACT

BACKGROUND: Gonadotropin releasing hormone (GnRH) antagonists suppress follicle-stimulating hormone (FSH) to lower levels than GnRH agonists. This may partially explain the differences between these agents on prostate cancer outcomes. In this post-hoc analysis, FSH and prostate specific antigen (PSA) responses and the impact of cross-over from leuprolide to degarelix were evaluated from a 1-year comparative study (CS21) and its extension study (CS21A). MATERIALS AND METHODS: Overall, 610 patients were enrolled in CS21, wherein PSA and FSH levels were evaluated monthly. CS21A evaluated 386 patients, including those previously treated with degarelix (n = 251) who continued to receive degarelix, and those previously treated with leuprolide (n = 135) who crossed-over to receive degarelix. PSA and FSH levels were evaluated in CS21A for 3 months after cross-over. The associations between measurements were assessed using Spearman's correlation coefficient. The impact of class variables on FSH suppression were evaluated using Analysis of Variance. RESULTS: Rapid PSA and FSH suppression was observed and maintained in the degarelix arm (CS21 and CS21A), while patients on leuprolide experienced rising PSA during CS21. Patients crossed-over from leuprolide to degarelix achieved a suppression of FSH and a significant PSA decrease. PSA and FSH levels were significantly (p < .05) correlated at months 1, 3, 6, 12 and 13 in the degarelix arm. CONCLUSIONS: Significant FSH suppression with GnRH antagonists may explain its advantage over GnRH agonists in terms of better prostate cancer control. The effect of profound FSH suppression is analogous to the need for profound testosterone suppression for tumor control.


Subject(s)
Antineoplastic Agents, Hormonal/therapeutic use , Follicle Stimulating Hormone/metabolism , Gonadotropin-Releasing Hormone/agonists , Gonadotropin-Releasing Hormone/antagonists & inhibitors , Leuprolide/therapeutic use , Oligopeptides/therapeutic use , Prostatic Neoplasms/drug therapy , Aged , Drug Substitution , Humans , Kallikreins/metabolism , Male , Middle Aged , Prostate-Specific Antigen/metabolism , Prostatic Neoplasms/metabolism
4.
Biomaterials ; 108: 81-90, 2016 11.
Article in English | MEDLINE | ID: mdl-27619242

ABSTRACT

The use of synthetic surgical mesh materials has been shown to decrease the incidence of hernia recurrence, but can be associated with undesirable effects such as infection, chronic discomfort, and adhesion to viscera. Surgical meshes composed of extracellular matrix (i.e., biologically-derived mesh) are an alternative to synthetic meshes and can reduce some of these undesirable effects but are less frequently used due to greater cost and perceived inadequate strength as the mesh material degrades and is replaced by host tissue. The present study assessed the temporal association between mechanical properties and degradation of biologic mesh composed of urinary bladder matrix (UBM) in a rodent model of full thickness abdominal wall defect. Mesh degradation was evaluated for non-chemically crosslinked scaffolds with the use of (14)C-radiolabeled UBM. UBM biologic mesh was 50% degraded by 26 days and was completely degraded by 90 days. The mechanical properties of the UBM biologic mesh showed a rapid initial decrease in strength and modulus that was not proportionately associated with its degradation as measured by (14)C. The loss of strength and modulus was followed by a gradual increase in these values that was associated with the deposition of new, host derived connective tissue. The strength and modulus values were comparable to or greater than those of the native abdominal wall at all time points.


Subject(s)
Abdominal Injuries/surgery , Abdominal Wound Closure Techniques/instrumentation , Absorbable Implants , Extracellular Matrix/chemistry , Herniorrhaphy/instrumentation , Surgical Mesh , Urinary Bladder/chemistry , Abdominal Injuries/pathology , Animals , Biological Products/chemistry , Elastic Modulus , Equipment Design , Equipment Failure Analysis , Female , Herniorrhaphy/methods , Rats , Rats, Sprague-Dawley , Stress, Mechanical , Swine , Tensile Strength , Treatment Outcome
5.
Psychol Med ; 46(10): 2215-26, 2016 07.
Article in English | MEDLINE | ID: mdl-27087657

ABSTRACT

BACKGROUND: Post-traumatic stress disorder (PTSD) is associated with elevated risk for metabolic syndrome (MetS). However, the direction of this association is not yet established, as most prior studies employed cross-sectional designs. The primary goal of this study was to evaluate bidirectional associations between PTSD and MetS using a longitudinal design. METHOD: A total of 1355 male and female veterans of the conflicts in Iraq and Afghanistan underwent PTSD diagnostic assessments and their biometric profiles pertaining to MetS were extracted from the electronic medical record at two time points (spanning ~2.5 years, n = 971 at time 2). RESULTS: The prevalence of MetS among veterans with PTSD was just under 40% at both time points and was significantly greater than that for veterans without PTSD; the prevalence of MetS among those with PTSD was also elevated relative to age-matched population estimates. Cross-lagged panel models revealed that PTSD severity predicted subsequent increases in MetS severity (ß = 0.08, p = 0.002), after controlling for initial MetS severity, but MetS did not predict later PTSD symptoms. Logistic regression results suggested that for every 10 PTSD symptoms endorsed at time 1, the odds of a subsequent MetS diagnosis increased by 56%. CONCLUSIONS: Results highlight the substantial cardiometabolic concerns of young veterans with PTSD and raise the possibility that PTSD may predispose individuals to accelerated aging, in part, manifested clinically as MetS. This demonstrates the need to identify those with PTSD at greatest risk for MetS and to develop interventions that improve both conditions.


Subject(s)
Metabolic Syndrome/epidemiology , Stress Disorders, Post-Traumatic/epidemiology , Veterans/statistics & numerical data , Adult , Afghan Campaign 2001- , Aged , Comorbidity , Female , Humans , Iraq War, 2003-2011 , Longitudinal Studies , Male , Metabolic Syndrome/physiopathology , Middle Aged , Severity of Illness Index , Young Adult
6.
Biomater Sci ; 2(10): 1521-34, 2014 Aug 26.
Article in English | MEDLINE | ID: mdl-26829566

ABSTRACT

Extracellular matrix (ECM) derived from mammalian tissues has been utilized to repair damaged or missing tissue and improve healing outcomes. More recently, processing of ECM into hydrogels has expanded the use of these materials to include platforms for 3-dimensional cell culture as well as injectable therapeutics that can be delivered by minimally invasive techniques and fill irregularly shaped cavities. At the cellular level, ECM hydrogels initiate a multifaceted host response that includes recruitment of endogenous stem/progenitor cells, regional angiogenesis, and modulation of the innate immune response. Unfortunately, little is known about the components of the hydrogel that drive these responses. We hypothesized that different components of ECM hydrogels could play distinctive roles in stem cell and macrophage behavior. Utilizing a well-characterized ECM hydrogel derived from urinary bladder matrix (UBM), we separated the soluble and structural components of UBM hydrogel and characterized their biological activity. Perivascular stem cells migrated toward and reduced their proliferation in response to both structural and soluble components of UBM hydrogel. Both components also altered macrophage behavior but with different fingerprints. Soluble components increased phagocytosis with an IL-1RA(high), TNFα(low), IL-1ß(low), uPA(low) secretion profile. Structural components decreased phagocytosis with a PGE2(high), PGF2α(high), TNFα(low), IL-1ß(low), uPA(low), MMP2(low), MMP9(low), secretion profile. The biologic activity of the soluble components was mediated by Notch and PI3K/Akt signaling, while the biologic activity of the structural components was mediated by integrins and MEK/ERK signaling. Collectively, these findings demonstrate that soluble and structural components of ECM hydrogels contribute to the host response but through different mechanisms.

7.
Curr Oncol ; 20(6): e532-8, 2013 Dec.
Article in English | MEDLINE | ID: mdl-24311953

ABSTRACT

BACKGROUND: Patients with cancer are often treated with glucocorticoids (gcs) as part of therapy, which may cause hyperglycemia. We sought to define the prevalence of, and risk factors for, hyperglycemia in this setting. METHODS: Adult patients taking gc as part of therapy protocols for primary brain tumour or metastasis, for lymphoma, or for bone marrow transplant (bmt) were screened with random glucometer measurements taken at least 3 hours after the last dose gcs. RESULTS: We screened 90 patients [44.4% women, 55.6% men; mean age: 59.6 years (range: 25-82 years); mean body mass index (bmi): 26.4 kg/m(2) (range: 15.8-45.3 kg/m(2))] receiving gc as part of cancer treatment. Mean total daily gc dose in the group was 238.5 mg (range: 30-1067 mg) hydrocortisone equivalents. Hyperglycemia (glucose ≥ 8.0 mmol/L) was found in 58.9% (53 of 90), and diabetes mellitus (dm)-range hyperglycemia (glucose ≥ 11.1 mmol/L) in 18.9% (17 of 90). The mean time from gc ingestion to glucometer testing was 5.5 hours (range: 3-20 hours). Presence of hyperglycemia did not correlate with traditional dm risk factors such as age, sex, bmi, and personal or family history of dm. A longer interval from gc dose to testing (p < 0.05), a higher gc dose (p = 0.04), and a shorter interval between the preceding meal and testing (p = 0.02) were risk factors for hyperglycemia in some patient groups. CONCLUSIONS: Glucocorticoid-induced hyperglycemia is common in patients undergoing cancer treatment and cannot be predicted by traditional risk factors for dm. We recommend that all cancer patients receiving gc be screened for hyperglycemia at least 4-6 hours after gc administration.

8.
Oncogene ; 32(3): 397-402, 2013 Jan 17.
Article in English | MEDLINE | ID: mdl-22370638

ABSTRACT

We performed a genetic screen in mice to identify candidate genes that are associated with leukaemogenesis in the context of Trp53 heterozygosity. To do this we generated Trp53 heterozygous mice carrying the T2/Onc transposon and SB11 transposase alleles to allow transposon-mediated insertional mutagenesis to occur. From the resulting leukaemias/lymphomas that developed in these mice, we identified nine loci that are potentially associated with tumour formation in the context of Trp53 heterozygosity, including AB041803 and the Jun dimerization protein 2 (Jdp2). We show that Jdp2 transcriptionally regulates the Trp53 promoter, via an atypical AP-1 site, and that Jdp2 expression negatively regulates Trp53 expression levels. This study is the first to identify a genetic mechanism for tumour formation in the context of Trp53 heterozygosity.


Subject(s)
Cell Transformation, Neoplastic/genetics , Down-Regulation , Heterozygote , Leukemia/genetics , Leukemia/pathology , Repressor Proteins/metabolism , Transcription, Genetic , Tumor Suppressor Protein p53/genetics , Animals , HEK293 Cells , Humans , Lymphoma/genetics , Lymphoma/pathology , Mice , NIH 3T3 Cells
9.
BJU Int ; 109 Suppl 6: 1-12, 2012 Jun.
Article in English | MEDLINE | ID: mdl-22672120

ABSTRACT

Since Huggins and Hodges demonstrated the responsiveness of prostate cancer to androgen deprivation therapy (ADT), androgen-suppressing strategies have formed the cornerstone of management of advanced prostate cancer. Approaches to ADT have included orchidectomy, oestrogens, luteinizing hormone-releasing hormone (LHRH) agonists, anti-androgens and more recently the gonadotrophin-releasing hormone antagonists. The most extensively studied antagonist, degarelix, avoids the testosterone surge and clinical flare associated with LHRH agonists, offering more rapid PSA and testosterone suppression, improved testosterone control and improved PSA progression-free survival compared with agonists. The clinical profile of degarelix appears to make it a particularly suitable therapeutic option for certain subgroups of patients, including those with metastatic disease, high baseline PSA (>20 ng/mL) and highly symptomatic disease. As well as forming the mainstay of treatment for advanced prostate cancer, ADT is increasingly used in earlier disease stages. While data from clinical trials support the use of ADT neoadjuvant/adjuvant to radiotherapy for locally advanced or high-risk localized prostate cancer, it remains to be established whether specific ADT classes/agents provide particular benefits in this clinical setting.


Subject(s)
Androgen Antagonists/therapeutic use , Gonadotropin-Releasing Hormone/therapeutic use , Oligopeptides/therapeutic use , Prostate-Specific Antigen/blood , Prostatic Neoplasms/drug therapy , Disease-Free Survival , Gonadotropin-Releasing Hormone/antagonists & inhibitors , Hormone Antagonists/therapeutic use , Humans , Male , Neoadjuvant Therapy/methods , Prostate-Specific Antigen/drug effects , Prostatectomy , Prostatic Neoplasms/blood , Prostatic Neoplasms/therapy , Testosterone/blood , Treatment Outcome
10.
Prostate Cancer Prostatic Dis ; 14(1): 30-7, 2011 Mar.
Article in English | MEDLINE | ID: mdl-21116286

ABSTRACT

Acid ceramidase (AC) overexpression has been observed in prostate cancer cell lines and primary tumors, and contributes to resistance to chemotherapy and radiation. The consequence of AC overexpression is the ability to convert ceramide, which is often produced as a proapoptotic response to stress, to sphingosine, which can then be converted to the prosurvival molecule sphingosine-1-phosphate. In addition to their ability to metabolize ceramide produced in response to stress, we show here that prostate cancer cell lines overexpressing AC also have increased lysosomal density and increased levels of autophagy. Furthermore, pretreatment with 3-methyladenine restores sensitivity of these cells to treatment with C(6) ceramide. We also observed increased expression of the lysosomal stabilizing protein KIF5B and increased sensitivity to the lysosomotropic agent LCL385. Thus, we conclude that AC overexpression increases autophagy in prostate cancer cells, and that increased autophagy enhances resistance to ceramide.


Subject(s)
Acid Ceramidase/metabolism , Antineoplastic Agents/pharmacology , Autophagy , Ceramides/pharmacology , Drug Resistance, Neoplasm , Prostatic Neoplasms , Cell Line, Tumor , Ceramides/metabolism , Humans , Male , Prostatic Neoplasms/drug therapy , Prostatic Neoplasms/enzymology
11.
Nature ; 455(7214): 799-803, 2008 Oct 09.
Article in English | MEDLINE | ID: mdl-18843368

ABSTRACT

Plasmodium knowlesi is an intracellular malaria parasite whose natural vertebrate host is Macaca fascicularis (the 'kra' monkey); however, it is now increasingly recognized as a significant cause of human malaria, particularly in southeast Asia. Plasmodium knowlesi was the first malaria parasite species in which antigenic variation was demonstrated, and it has a close phylogenetic relationship to Plasmodium vivax, the second most important species of human malaria parasite (reviewed in ref. 4). Despite their relatedness, there are important phenotypic differences between them, such as host blood cell preference, absence of a dormant liver stage or 'hypnozoite' in P. knowlesi, and length of the asexual cycle (reviewed in ref. 4). Here we present an analysis of the P. knowlesi (H strain, Pk1(A+) clone) nuclear genome sequence. This is the first monkey malaria parasite genome to be described, and it provides an opportunity for comparison with the recently completed P. vivax genome and other sequenced Plasmodium genomes. In contrast to other Plasmodium genomes, putative variant antigen families are dispersed throughout the genome and are associated with intrachromosomal telomere repeats. One of these families, the KIRs, contains sequences that collectively match over one-half of the host CD99 extracellular domain, which may represent an unusual form of molecular mimicry.


Subject(s)
Genome, Protozoan/genetics , Genomics , Macaca mulatta/parasitology , Malaria/parasitology , Plasmodium knowlesi/genetics , Amino Acid Sequence , Animals , Antigens, CD/chemistry , Antigens, CD/genetics , Chromosomes/genetics , Conserved Sequence , Genes, Protozoan/genetics , Humans , Molecular Sequence Data , Plasmodium knowlesi/classification , Plasmodium knowlesi/physiology , Protein Structure, Tertiary , Protozoan Proteins/chemistry , Protozoan Proteins/genetics , Sequence Analysis, DNA , Telomere/genetics
12.
Prostate Cancer Prostatic Dis ; 11(1): 46-52, 2008.
Article in English | MEDLINE | ID: mdl-17607304

ABSTRACT

Historically, adjuvant androgen deprivation therapy has been viewed as a palliative treatment option for patients with poor-prognosis non-metastatic prostate cancer. In addition, guidelines from bodies such as the European Association of Urology and American Society for Clinical Oncology do not specifically categorize adjuvant hormonal therapy as being curative in intent. We propose that adjuvant androgen deprivation therapy should now be classified as a treatment of curative intent in patients with poor-prognosis, non-metastatic prostate cancer. By applying a carefully considered definition of cure (based on long-term (10- to 15-year) disease-free survival curves) to the findings from randomized controlled clinical trials that have studied adjuvant hormonal treatments in non-metastatic prostate cancer, we challenged whether this viewpoint should now be considered redundant. According to our review of relevant studies and our definition of cure, goserelin appears to augment cure in a sizeable proportion of men with poor-prognosis non-metastatic prostate cancer when given adjuvant to radical prostatectomy or radiotherapy. Across several trials, the relevant survival curves for the goserelin-treated population became indefinitely flat after long-term follow-up. This indicates that these patients have a mortality risk comparable to the general population without prostate cancer. On the basis of the evidence presented within this review, we believe that, given it can control disease for a long period of time, adjuvant goserelin should be reclassified as a treatment of curative intent for patients with poor-prognosis non-metastatic prostate cancer.


Subject(s)
Antineoplastic Agents, Hormonal/therapeutic use , Goserelin/therapeutic use , Prostatic Neoplasms/drug therapy , Humans , Male , Prognosis
13.
Mol Ther ; 14(5): 637-46, 2006 Nov.
Article in English | MEDLINE | ID: mdl-16887394

ABSTRACT

Despite local and systemic therapies, the National Cancer Institute estimates that prostate cancer will cause over 30,000 deaths in 2006. This suggests that additional therapeutic approaches are needed. The chicken anemia viral protein Apoptin causes tumor-selective apoptosis in human tumor lines independent of p53 and Bcl-2 status. Tet-regulated expression of Apoptin from an adenoviral vector showed cytotoxicity in DU145, PC-3, and LNCaP tumor cells regardless of expression of p53, Bcl-2, Bcl-xL, Bax, survivin, FLIP(S), XIAP, or CIAP. Apoptin expression caused an increase in the tumor suppressor lipid ceramide, which regulates the cellular stress response. Interestingly, 10 of 15 primary prostate cancers examined by Western blotting overexpressed acid ceramidase (AC), suggesting that ceramide deacylation might serve to negate elevated levels of ceramide, creating a more antiapoptotic phenotype. This was confirmed in AC-overexpressing cells in which we observed decreased sensitivity to apoptosis following treatment with Apoptin. Addition of the AC inhibitor LCL204, in combination with Apoptin, augmented cell killing. This effect was also demonstrated in vivo in that Apoptin and LCL204 cotreatment significantly reduced tumor growth in DU145 xenografts (P<0.05). Taken together, our data demonstrated that Apoptin is a promising therapeutic agent for prostate cancer and that its function is improved when combined with acid ceramidase inhibitors.


Subject(s)
Apoptosis , Capsid Proteins/metabolism , Ceramides/metabolism , Prostatic Neoplasms/metabolism , Prostatic Neoplasms/pathology , Adenoviridae/genetics , Animals , Apoptosis/drug effects , Capsid Proteins/genetics , Caspases/metabolism , Cell Line, Tumor , Enzyme Inhibitors/pharmacology , Galactosylgalactosylglucosylceramidase/antagonists & inhibitors , Galactosylgalactosylglucosylceramidase/metabolism , Gene Expression Regulation , Genes, Reporter/genetics , Genetic Therapy , Humans , Male , Mice , Mice, Nude , Phosphoserine/metabolism , Prostatic Neoplasms/genetics , Sphingolipids/metabolism , Tumor Suppressor Protein p53/metabolism , Xenograft Model Antitumor Assays
14.
AIDS Care ; 17(8): 1013-21, 2005 Nov.
Article in English | MEDLINE | ID: mdl-16176897

ABSTRACT

Considerable literature reflects the range of HIV-related neurocognitive complications, including relatively poor performance on tests of: movement and coordination; attention and concentration; reaction time; and mental flexibility. Efforts to develop appropriate screening techniques include the HIV Dementia Scale (HDS), a brief measure that has demonstrated promise but is lacking extensive independent evaluation. The present study examines the utility of the HDS in a sample of HIV-seropositive adults with a co-morbid history of psychiatric and substance use disorders. Forty subjects (65% male; mean age 41 years; mean education 12.2 years; 55% African American, 30% Caucasian) recruited for a study of the impact of brief psychotherapy on adherence to medications and medical appointments, relapse prevention, and/or enhancement of mental health functioning completed a battery of neuropsychological measures, including the HDS. Forty percent were identified as at high risk for significant cognitive-motor disorder (HDS total score < or =10). After controlling for age, education, illness (absolute CD4), and depressed mood, high-risk participants performed significantly worse on measures of simple and sustained divided attention, psychomotor speed, and working memory. However, only 25 of 40 (63%) were correctly classified based on their performance on traditional tests of neuropsychological functioning. Implications and limitations of the study are discussed.


Subject(s)
AIDS Dementia Complex/diagnosis , Cognition Disorders/diagnosis , Psychomotor Disorders/diagnosis , Adult , Cognition Disorders/etiology , Female , Humans , Male , Middle Aged , Psychiatric Status Rating Scales , Psychomotor Disorders/etiology , Sensitivity and Specificity
15.
Bioinformatics ; 21(8): 1705-6, 2005 Apr 15.
Article in English | MEDLINE | ID: mdl-15564297

ABSTRACT

UNLABELLED: We present a distributed and fully cross-platform database search program that allows the user to utilize the idle clock cycles of machines to perform large searches using the most sensitive algorithms. For those in an academic or corporate environment with hundreds of idle desktop machines, DSEARCH can deliver a 'free' database search supercomputer. AVAILABILITY: The software is publicly available under the GNU general public licence from http://www.cs.may.ie/distributed CONTACT: tom.naughton@may.ie SUPPLEMENTARY INFORMATION: Full documentation and a user manual is available from http://www.cs.may.ie/distributed.


Subject(s)
Computer Communication Networks , Computing Methodologies , Database Management Systems , Databases, Genetic , Information Storage and Retrieval/methods , Software , Algorithms
16.
Bioinformatics ; 21(7): 969-74, 2005 Apr 01.
Article in English | MEDLINE | ID: mdl-15513992

ABSTRACT

MOTIVATION: In recent years there has been increased interest in producing large and accurate phylogenetic trees using statistical approaches. However for a large number of taxa, it is not feasible to construct large and accurate trees using only a single processor. A number of specialized parallel programs have been produced in an attempt to address the huge computational requirements of maximum likelihood. We express a number of concerns about the current set of parallel phylogenetic programs which are currently severely limiting the widespread availability and use of parallel computing in maximum likelihood-based phylogenetic analysis. RESULTS: We have identified the suitability of phylogenetic analysis to large-scale heterogeneous distributed computing. We have completed a distributed and fully cross-platform phylogenetic tree building program called distributed phylogeny reconstruction by maximum likelihood. It uses an already proven maximum likelihood-based tree building algorithm and a popular phylogenetic analysis library for all its likelihood calculations. It offers one of the most extensive sets of DNA substitution models currently available. We are the first, to our knowledge, to report the completion of a distributed phylogenetic tree building program that can achieve near-linear speedup while only using the idle clock cycles of machines. For those in an academic or corporate environment with hundreds of idle desktop machines, we have shown how distributed computing can deliver a 'free' ML supercomputer.


Subject(s)
Algorithms , Evolution, Molecular , Models, Genetic , Phylogeny , Sequence Alignment/methods , Sequence Analysis, DNA/methods , Computer Simulation , Likelihood Functions , Models, Statistical , Software
17.
AIDS Care ; 16 Suppl 1: S97-120, 2004.
Article in English | MEDLINE | ID: mdl-15736824

ABSTRACT

Many individuals living with HIV have been exposed to some type of traumatic event during their lives and may be living with symptoms of post-traumatic stress disorder (PTSD). A substantial number of these individuals are also likely to show evidence of a co-morbid substance use disorder (SUD). There is reason to believe that the co-occurrence of HIV and PTSD or co-morbid PTSD and SUD (PTSD/SUD) may predict poorer health outcomes. There are several pathways through which PTSD or PTSD/SUD might adversely impact the health of individuals living with HIV, including participation in negative health behaviours, low levels of adherence to antiretroviral medications, and/or a direct, deleterious effect on immune function. Psychological interventions are needed to treat PTSD and PTSD/SUD in HIV-positive individuals, and reduce the negative impact of these conditions on health outcomes. This article will explore data on the prevalence of trauma exposure, PTSD, and PTSD/SUD among individuals living with HIV, the pathways through which these conditions might affect health, possible interventions for PTSD and PTSD/SUD for individuals living with HIV, and methods for integrating care for individuals with these disorders. Future directions for research related to HIV, PTSD, and PTSD/SUD will also be discussed.


Subject(s)
Attitude to Health , HIV Infections/psychology , Stress Disorders, Post-Traumatic/psychology , Substance-Related Disorders/psychology , Wounds and Injuries/psychology , Delivery of Health Care, Integrated/organization & administration , Female , HIV Infections/therapy , Humans , Male , Patient Compliance , Substance-Related Disorders/therapy
19.
Gen Hosp Psychiatry ; 23(4): 198-204, 2001.
Article in English | MEDLINE | ID: mdl-11543846

ABSTRACT

Failure of general anesthesia to render a patient insensate, termed "awareness," is estimated to affect between 40,000 and 140,000 patients in the US each year. This study investigated the occurrence of post-traumatic stress disorder (PTSD) in subjects who reported a past episode of intraoperative awareness. We inquired about intraoperative and postoperative experiences and studied the relationship between various surgical experiences and currently meeting the diagnosis of PTSD. Sixteen postawareness subjects and 10 postgeneral anesthesia controls completed the Clinician Administered PTSD Scale (CAPS), a standardized clinical rating scale for PTSD, and a questionnaire about peri-operative experiences. Nine of 16 subjects (56.3%), a mean of 17.9 postoperative years, and no controls met diagnostic criteria for current PTSD (X(2)= 8.6, df = 1, P<.01). Common intraoperative experiences included an inability to communicate, helplessness, terror, and pain. Postawareness patients had significant postoperative distress related to feeling unable to communicate, unsafe, terrified, abandoned and betrayed. Perioperative dissociative experiences predicted having current PTSD. Being conscious during surgery is a traumatic event that may result in developing chronic PTSD. Further studies should include prospective designs of prevalence and long-term psychological, social, and overall health effects, and ways of preventing and treating awareness-induced PTSD.


Subject(s)
Anesthesia, General/adverse effects , Awareness , Stress Disorders, Post-Traumatic/psychology , Stress Disorders, Post-Traumatic/therapy , Adult , Chronic Disease , Dissociative Disorders/diagnosis , Female , Humans , Intraoperative Care , Male , Severity of Illness Index , Stress Disorders, Post-Traumatic/diagnosis , Surveys and Questionnaires
20.
Psychosom Med ; 63(5): 835-41, 2001.
Article in English | MEDLINE | ID: mdl-11573033

ABSTRACT

OBJECTIVE: Prior research has demonstrated increased use of medical services among persons with anxiety and depression. This investigation examined the possible association of posttraumatic stress disorder (PTSD) with the use of nonmental health services. METHOD: A case-comparison design enrolled 102 high users of health services and 54 low users who were assessed for PTSD diagnosis and severity of PTSD symptoms. Subjects were male veterans receiving services from the primary care clinics of the VA Boston Healthcare System during an 18-month period. Data were collected by interview by use of standardized instruments including the Clinician Administered PTSD Scale for DSM-IV, the Life Events Checklist, and the Beck Depression Inventory. Data analysis employed odds ratios, linear and logistic regression, and path analyses. RESULTS: High users of health care were almost twice as likely as low users (27.5% vs. 14.8%) to meet diagnostic criteria for current PTSD. The two groups differed significantly on both symptom frequency and intensity. Path analyses showed an indirect positive association between PTSD and health services use, with physician-diagnosed health conditions as a mediating variable. Auxiliary analysis demonstrated that the combined mental health burden of PTSD and depression symptoms also is positively associated with number of health conditions. CONCLUSIONS: The findings indicate that PTSD, alone and in combination with depression, has a direct negative relationship with physical health that, in turn, is associated with more frequent use of primary health care services. These results do not suggest that PTSD leads to inappropriate (eg, distress-motivated) use of services.


Subject(s)
Health Status , Outpatient Clinics, Hospital/statistics & numerical data , Primary Health Care/statistics & numerical data , Stress Disorders, Post-Traumatic/economics , Veterans/statistics & numerical data , Adult , Aged , Boston/epidemiology , Hospitals, Veterans/statistics & numerical data , Humans , Male , Middle Aged , Stress Disorders, Post-Traumatic/epidemiology , Utilization Review , Veterans/psychology
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