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Trial sequence analysis

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https://www.readbyqxmd.com/read/29466966/real-life-patterns-of-care-and-progression-free-survival-in-metastatic-renal-cell-carcinoma-patients-retrospective-analysis-of-cross-sectional-data
#1
Rana Maroun, Laura Mitrofan, Laure Benjamin, Gaelle Nachbaur, Franck Maunoury, Philippe Le Jeunne, Isabelle Durand-Zaleski
BACKGROUND: Patient characteristics and survival outcomes in randomized trials may be different from those in real-life clinical practice. The objective of this study was to describe treatment pathways, safety, drug costs and survival in patients with metastatic Renal Cell Carcinoma (mRCC) in a real world setting. METHODS: A retrospective analysis was performed using IQVIA real world oncology cross-sectional survey data, a retrospective treatment database collecting anonymized patient-level data in Europe...
February 21, 2018: BMC Cancer
https://www.readbyqxmd.com/read/29458430/comparison-of-fast-multi-slice-and-standard-segmented-techniques-for-detection-of-late-gadolinium-enhancement-in-ischemic-and-non-ischemic-cardiomyopathy-a-prospective-clinical-cardiovascular-magnetic-resonance-trial
#2
Fabian Muehlberg, Kristin Arnhold, Simone Fritschi, Stephanie Funk, Marcel Prothmann, Josephine Kermer, Leonora Zange, Florian von Knobelsdorff-Brenkenhoff, Jeanette Schulz-Menger
BACKGROUND: Segmented phase-sensitive inversion recovery (PSIR) cardiovascular magnetic resonance (CMR) sequences are reference standard for non-invasive evaluation of myocardial fibrosis using late gadolinium enhancement (LGE). Several multi-slice LGE sequences have been introduced for faster acquisition in patients with arrhythmia and insufficient breathhold capability. The aim of this study was to assess the accuracy of several multi-slice LGE sequences to detect and quantify myocardial fibrosis in patients with ischemic and non-ischemic myocardial disease...
February 19, 2018: Journal of Cardiovascular Magnetic Resonance
https://www.readbyqxmd.com/read/29454369/evaluation-of-piezocision-and-laser-assisted-flapless-corticotomy-in-the-acceleration-of-canine-retraction-a-randomized-controlled-trial
#3
Alaa M H Alfawal, Mohammad Y Hajeer, Mowaffak A Ajaj, Omar Hamadah, Bassel Brad
BACKGROUND: To evaluate the effectiveness of two minimally invasive surgical procedures in the acceleration of canine retraction: piezocision and laser-assisted flapless corticotomy (LAFC). METHODS: Trial design: A single-centre randomized controlled trial with a compound design (two-arm parallel-group design and a split-mouth design for each arm). PARTICIPANTS: 36 Class II division I patients (12 males, 24 females; age range: 15 to 27 years) requiring first upper premolars extraction followed by canine retraction...
February 17, 2018: Head & Face Medicine
https://www.readbyqxmd.com/read/29453451/prevalence-and-impact-of-baseline-resistance-associated-substitutions-on-the-efficacy-of-ledipasvir-sofosbuvir-or-simeprevir-sofosbuvir-against-gt1-hcv-infection
#4
Gary P Wang, Norah Terrault, Jacqueline D Reeves, Lin Liu, Eric Li, Lisa Zhao, Joseph K Lim, Giuseppe Morelli, Alexander Kuo, Josh Levitsky, Kenneth E Sherman, Lynn M Frazier, Ananthakrishnan Ramani, Joy Peter, Lucy Akuskevich, Michael W Fried, David R Nelson
Baseline resistance-associated substitutions (RASs) have variable impacts in clinical trials but their prevalence and impact in real-world patients remains unclear. We performed baseline resistance testing using a commercial assay (10% cutoff) for 486 patients treated with LDV/SOF or SMV/SOF, with or without ribavirin, in the multi-center, observational HCV-TARGET cohort. Linkage of RASs was evaluated in selected samples using a novel quantitative single variant sequencing assay. Our results showed that the prevalence of NS3, NS5A, NS5B RASs was 45%, 13%, and 8%, respectively, and 10% of patients harbored RASs in 2 or more drug classes...
February 16, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29451876/comparative-genomic-analysis-of-the-multispecies-probiotic-marketed-product-vsl-3
#5
François P Douillard, Diego Mora, Robyn T Eijlander, Michiel Wels, Willem M de Vos
Several probiotic-marketed formulations available for the consumers contain live lactic acid bacteria and/or bifidobacteria. The multispecies product commercialized as VSL#3 has been used for treating various gastro-intestinal disorders. However, like many other products, the bacterial strains present in VSL#3 have only been characterized to a limited extent and their efficacy as well as their predicted mode of action remain unclear, preventing further applications or comparative studies. In this work, the genomes of all eight bacterial strains present in VSL#3 were sequenced and characterized, to advance insights into the possible mode of action of this product and also to serve as a basis for future work and trials...
2018: PloS One
https://www.readbyqxmd.com/read/29449963/the-nsight1-randomized-controlled-trial-rapid-whole-genome-sequencing-for-accelerated-etiologic-diagnosis-in-critically-ill-infants
#6
Josh E Petrikin, Julie A Cakici, Michelle M Clark, Laurel K Willig, Nathaly M Sweeney, Emily G Farrow, Carol J Saunders, Isabelle Thiffault, Neil A Miller, Lee Zellmer, Suzanne M Herd, Anne M Holmes, Serge Batalov, Narayanan Veeraraghavan, Laurie D Smith, David P Dimmock, J Steven Leeder, Stephen F Kingsmore
Genetic disorders are a leading cause of morbidity and mortality in infants in neonatal and pediatric intensive care units (NICU/PICU). While genomic sequencing is useful for genetic disease diagnosis, results are usually reported too late to guide inpatient management. We performed an investigator-initiated, partially blinded, pragmatic, randomized, controlled trial to test the hypothesis that rapid whole-genome sequencing (rWGS) increased the proportion of NICU/PICU infants receiving a genetic diagnosis within 28 days...
2018: NPJ Genomic Medicine
https://www.readbyqxmd.com/read/29441123/circulation-first-the-time-has-come-to-question-the-sequencing-of-care-in-the-abcs-of-trauma-an-american-association-for-the-surgery-of-trauma-multicenter-trial
#7
Paula Ferrada, Rachael A Callcut, David J Skarupa, Therese M Duane, Alberto Garcia, Kenji Inaba, Desmond Khor, Vincent Anto, Jason Sperry, David Turay, Rachel M Nygaard, Martin A Schreiber, Toby Enniss, Michelle McNutt, Herb Phelan, Kira Smith, Forrest O Moore, Irene Tabas, Joseph Dubose
Background: The traditional sequence of trauma care: Airway, Breathing, Circulation (ABC) has been practiced for many years. It became the standard of care despite the lack of scientific evidence. We hypothesized that patients in hypovolemic shock would have comparable outcomes with initiation of bleeding treatment (transfusion) prior to intubation (CAB), compared to those patients treated with the traditional ABC sequence. Methods: This study was sponsored by the American Association for the Surgery of Trauma multicenter trials committee...
2018: World Journal of Emergency Surgery: WJES
https://www.readbyqxmd.com/read/29438522/ras-mutation-analysis-in-circulating-tumor-dna-from-patients-with-metastatic-colorectal-cancer-the-ageo-rasanc-prospective-multicenter-study
#8
J B Bachet, O Bouché, J Taieb, O Dubreuil, M L Garcia, A Meurisse, C Normand, J M Gornet, P Artru, S Louafi, F Bonnetain, A Thirot-Bidault, I Baumgaertner, R Coriat, D Tougeron, T Lecomte, F Mary, T Aparicio, L Marthey, V Taly, H Blons, D Vernerey, P Laurent-Puig
Background: RAS mutations are currently sought for in tumor samples, which takes a median of almost 3 weeks in western European countries. This creates problems in clinical situations that require urgent treatment and for inclusion in therapeutic trials that need RAS status for randomization. Analysis of circulating tumor DNA might help to shorten the time required to determine RAS mutational status prior to anti-EGFR antibody therapy for metastatic colorectal cancer. Here we compared plasma versus tissue RAS analysis in a large prospective multicenter cohort...
February 9, 2018: Annals of Oncology: Official Journal of the European Society for Medical Oncology
https://www.readbyqxmd.com/read/29437939/evolution-of-respiratory-function-in-duchenne-muscular-dystrophy-from-childhood-to-adulthood
#9
Antonella LoMauro, Marianna Romei, Sandra Gandossini, Riccardo Pascuzzo, Simone Vantini, Maria Grazia D'Angelo, Andrea Aliverti
In Duchenne muscular dystrophy (DMD), it is still to be determined if specific timepoints can be identified during the natural evolution of respiratory dysfunction from childhood to adulthood and if scoliosis, steroid therapy and nocturnal noninvasive mechanical ventilation (NIMV) have any effect on it.In a 7-year retrospective study performed on 115 DMD patients (6-24 years), evaluated once or twice per year, with 574 visits in total, evolution mean curves of spirometry, lung volumes, spontaneous breathing and thoraco-abdominal pattern (measured by optoelectronic plethysmography) parameters were obtained by nonlinear regression model analysis...
February 2018: European Respiratory Journal: Official Journal of the European Society for Clinical Respiratory Physiology
https://www.readbyqxmd.com/read/29437866/how-to-use-sequence-analysis-for-life-course-epidemiology-an-example-on-hiv-positive-sub-saharan-migrants-in-france
#10
Anne Gosselin, Annabel Desgrées du Loû, Eva Lelièvre
BACKGROUND: Life course epidemiology is now an established field in social epidemiology; in sociodemography, the quantitative analysis of biographies recently experienced significant trend from event history analysis to sequence analysis. The purpose of this article is to introduce and adapt this methodology to a social epidemiology question, taking the example of the impact of HIV diagnosis on Sub-Saharan migrants' residential trajectories in the Paris region. METHODS: The sample consists of 640 migrants born in Sub-Saharan Africa receiving HIV care...
February 2, 2018: Journal of Epidemiology and Community Health
https://www.readbyqxmd.com/read/29437008/identification-of-a-good-prognosis-idh-mutant-like-population-of-patients-with-diffuse-gliomas
#11
Z Wang, X Liu, Z Wang, Z Bao, W Zhang, C Zhang, T Jiang
BACKGROUND: Isocitrate dehydrogenase (IDH) mutation is the initiating event that defines major clinical and prognostic classes of gliomas, but the potential mechanisms have not been well interpreted yet. The main objective of the current study was to better understand the underlying biology of IDH mutant gliomas as captured by gene expression profiles. METHODS: RNA sequencing data of WHO grade II-IV gliomas from the Chinese Glioma Genome Atlas (CGGA, N=325) were used to assess differentially expressed genes between IDH mutant and wild type gliomas and to construct a gene expression-based classifier to detect IDH mutant samples with high sensitivity and specificity...
February 12, 2018: Current Molecular Medicine
https://www.readbyqxmd.com/read/29431465/unconscious-conflict-adaptation-without-feature-repetitions-and-response-time-carry-over
#12
Christoph Huber-Huber, Ulrich Ansorge
Leading theories of cognition linked executive control to consciousness or awareness. Evidence from masked priming experiments questioned this link, but without addressing possible confounds. Responding to a target after a masked prime, participants are slower if prime and target present conflicting (incongruent) than nonconflicting (congruent) information. Crucially, congruence in the previous trial modulates this congruence effect, presenting a congruence-sequence effect. This has been interpreted as conflict adaptation by executive control processes, but alternative explanations through trial-to-trial feature-repetitions and response-time (RT) carry-over are possible...
February 2018: Journal of Experimental Psychology. Human Perception and Performance
https://www.readbyqxmd.com/read/29425396/resistance-analysis-of-genotype-3-hcv-indicates-subtypes-inherently-resistant-to-ns5a-inhibitors
#13
David Smith, Andrea Magri, David Bonsall, Camilla Lc Ip, Amy Trebes, Anthony Brown, Palo Piazza, Rory Bowden, Dung Nguyen, M Azim Ansari, Peter Simmonds, Eleanor Barnes
BACKGROUND AND AIMS: HCV genotype-3 (gt3) is highly prevalent globally, with non-gt3a subtypes common in Southeast Asia. Resistance-associated substitutions (RASs) have been shown to play a role in treatment failure. However, the role of RASs in gt3 is not well understood. We report the prevalence of RASs in a cohort of directly acting antivirals (DAA) treatment-naïve gt3 infected patients, including those with rarer subtypes and evaluate the effect of these RAS on DAAs in-vitro. METHODS: Baseline samples from 496 gt3 patients enrolled in the BOSON clinical trial were analysed by next-generation sequencing after probe-based enrichment for HCV...
February 9, 2018: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/29424662/small-rna-omics-for-virome-reconstruction-and-antiviral-defense-characterization-in-mixed-infections-of-cultivated-solanum-plants
#14
Silvia Turco, Victor Golyaev, Jonathan Seguin, Céline Gilli, Laurent Farinelli, Thomas Boller, Oliveir Schumpp, Mikhail Pooggin
In plants, RNA silencing-based antiviral defense generates viral small RNAs (sRNAs) faithfully representing the viral genomes. We employed sRNA sequencing and bioinformatics (sRNA-omics) to characterize antiviral defense and to reconstruct the full genomic sequences and their variants in the evolving viral quasispecies in cultivated solanaceous plants carrying mixed infections. In naturally-infected Solanum tuberosum (potato), one case study revealed a virome comprising Potato virus Y (genus Potyvirus) and Potato virus X (genus Potexvirus), which was reconstructed by de novo assembling separate genome-size sRNA contigs...
February 9, 2018: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/29423096/validation-of-a-hypoxia-related-gene-signature-in-multiple-soft-tissue-sarcoma-cohorts
#15
Lingjian Yang, Laura Forker, Joely J Irlam, Nischalan Pillay, Ananya Choudhury, Catharine M L West
Purpose: There is a need for adjuvant/neo-adjuvant treatment strategies to prevent metastatic relapse in soft tissue sarcoma (STS). Tumor hypoxia is associated with a high-risk of metastasis and is potentially targetable. This study aimed to derive and validate a hypoxia mRNA signature for STS for future biomarker-driven trials of hypoxia targeted therapy. Materials and Methods: RNA sequencing was used to identify seed genes induced by hypoxia in seven STS cell lines...
January 9, 2018: Oncotarget
https://www.readbyqxmd.com/read/29421447/prognostic-significance-of-magnetic-resonance-imaging-in-patients-with-severe-nonpenetrating-traumatic-brain-injury-requiring-decompressive-craniectomy
#16
Kwok M Ho, Steve Honeybul, Ravi Ambati
BACKGROUND: Diffuse axonal injury (DAI) detected on magnetic resonance imaging (MRI) may be useful to predict outcome after traumatic brain injury (TBI). METHODS: This study compared the ability of the International Mission for Prognosis and Analysis of Clinical Trials (IMPACT) prognostic model with DAI on MRI, to predict 18-months neurological outcome in 56 patients who had required a decompressive craniectomy after TBI. RESULTS: Of the 56 patients included in the study (19 scans occurred within 14 days; median time for all patients 24 days, interquartile range 14-42), 18 (32%) had evidence of DAI on the MRI scans...
February 5, 2018: World Neurosurgery
https://www.readbyqxmd.com/read/29419698/next-generation-sequencing-diagnostics-of-bacteremia-in-sepsis-next-genesis-trial-study-protocol-of-a-prospective-observational-noninterventional-multicenter-clinical-trial
#17
MULTICENTER STUDY
Thorsten Brenner, Sebastian O Decker, Silke Grumaz, Philip Stevens, Thomas Bruckner, Thomas Schmoch, Mathias W Pletz, Hendrik Bracht, Stefan Hofer, Gernot Marx, Markus A Weigand, Kai Sohn
BACKGROUND: Sepsis remains a major challenge, even in modern intensive care medicine. The identification of the causative pathogen is crucial for an early optimization of the antimicrobial treatment regime. In this context, culture-based diagnostic procedures (e.g., blood cultures) represent the standard of care, although they are associated with relevant limitations. Accordingly, culture-independent molecular diagnostic procedures might be of help for the identification of the causative pathogen in infected patients...
February 2018: Medicine (Baltimore)
https://www.readbyqxmd.com/read/29410123/cognitive-control-and-midline-theta-adjust-across-multiple-timescales
#18
Lisa K Chinn, Carolyn S Pauker, Edward J Golob
Cognitive control of attention in conflict situations is a basic skill that is vital for goal-oriented behaviors. Behavioral evidence shows that conflict control occurs over successive trials as well as longer time scales of trial blocks, but the relation among time scales as well as their neural mechanisms are unclear. This study used measures of behavior, EEG, and a simple quantitative model to test the hypothesis that conflict control at the block level is not exclusively driven by the control adjustments over successive trials...
February 1, 2018: Neuropsychologia
https://www.readbyqxmd.com/read/29409514/immune-monitoring-and-tcr-sequencing-of-cd4-t-cells-in-a-long-term-responsive-patient-with-metastasized-pancreatic-ductal-carcinoma-treated-with-individualized-neoepitope-derived-multipeptide-vaccines-a-case-report
#19
Katja Sonntag, Hisayoshi Hashimoto, Matthias Eyrich, Moritz Menzel, Max Schubach, Dennis Döcker, Florian Battke, Carolina Courage, Helmut Lambertz, Rupert Handgretinger, Saskia Biskup, Karin Schilbach
BACKGROUND: Cancer vaccines can effectively establish clinically relevant tumor immunity. Novel sequencing approaches rapidly identify the mutational fingerprint of tumors, thus allowing to generate personalized tumor vaccines within a few weeks from diagnosis. Here, we report the case of a 62-year-old patient receiving a four-peptide-vaccine targeting the two sole mutations of his pancreatic tumor, identified via exome sequencing. METHODS: Vaccination started during chemotherapy in second complete remission and continued monthly thereafter...
February 6, 2018: Journal of Translational Medicine
https://www.readbyqxmd.com/read/29408715/single-cell-profiling-of-peanut-responsive-t-cells-in-peanut-allergic-subjects-reveals-heterogeneous-effector-th2-subsets
#20
David Chiang, Xintong Chen, Stacie M Jones, Robert A Wood, Scott H Sicherer, A Wesley Burks, Donald Y M Leung, Charuta Agashe, Alexander Grishin, Peter Dawson, Wendy F Davidson, Leah Newman, Robert Sebra, Miriam Merad, Hugh A Sampson, Bojan Losic, M Cecilia Berin
BACKGROUND: The contribution of phenotypic variation of peanut-specific T cells to clinical allergy or tolerance to peanut is not well understood. OBJECTIVES: Our objective was to comprehensively phenotype peanut-specific T cells in the peripheral blood of individuals with and without peanut allergy (PA). METHODS: We obtained samples from PA individuals, including a cohort undergoing baseline peanut challenges for an immunotherapy trial (CoFAR6)...
January 30, 2018: Journal of Allergy and Clinical Immunology
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