Read by QxMD icon Read


Natasa M Milic, Srdjan Masic, Jelena Milin-Lazovic, Goran Trajkovic, Zoran Bukumiric, Marko Savic, Nikola V Milic, Andja Cirkovic, Milan Gajic, Mirjana Kostic, Aleksandra Ilic, Dejana Stanisavljevic
BACKGROUND: The scientific community increasingly is recognizing the need to bolster standards of data analysis given the widespread concern that basic mistakes in data analysis are contributing to the irreproducibility of many published research findings. The aim of this study was to investigate students' attitudes towards statistics within a multi-site medical educational context, monitor their changes and impact on student achievement. In addition, we performed a systematic review to better support our future pedagogical decisions in teaching applied statistics to medical students...
2016: PloS One
Bhabatosh Banik, Brett W Askins, Shanta Dhar
The field of intracellular organelle targeting using nanoparticle (NP) is mushrooming rapidly. Thus, the area of nanotechnology-enabled targeting of mitochondrion, the cellular powerhouse, for diseases characterized by mitochondrial dysfunctions such as cancer, diseases of the central nervous system, and cardiovascular diseases is also growing at a rapid pace. Optimization of a NP's ability to target the mitochondria requires quantification of the particles in this subcellular organelle and isolation of mitochondria from the cells...
October 13, 2016: Nanoscale
Alicja Puścian, Szymon Łęski, Grzegorz Kasprowicz, Maciej Winiarski, Joanna Borowska, Tomasz Nikolaev, Paweł M Boguszewski, Hans-Peter Lipp, Ewelina Knapska
Eco-HAB is an open source, RFID-based system for automated measurement and analysis of social preference and in-cohort sociability in mice. The system closely follows murine ethology. It requires no contact between a human experimenter and tested animals, overcoming the confounding factors that lead to irreproducible assessment of murine social behavior between laboratories. In Eco-HAB, group-housed animals live in a spacious, four-compartment apparatus with shadowed areas and narrow tunnels, resembling natural burrows...
October 12, 2016: ELife
Warren Tierney, Martin Schweinsberg, Jennifer Jordan, Deanna M Kennedy, Israr Qureshi, S Amy Sommer, Nico Thornley, Nikhil Madan, Michelangelo Vianello, Eli Awtrey, Luke Lei Zhu, Daniel Diermeier, Justin E Heinze, Malavika Srinivasan, David Tannenbaum, Eliza Bivolaru, Jason Dana, Clintin P Davis-Stober, Christilene du Plessis, Quentin F Gronau, Andrew C Hafenbrack, Eko Yi Liao, Alexander Ly, Maarten Marsman, Toshio Murase, Michael Schaerer, Christina M Tworek, Eric-Jan Wagenmakers, Lynn Wong, Tabitha Anderson, Christopher W Bauman, Wendy L Bedwell, Victoria Brescoll, Andrew Canavan, Jesse J Chandler, Erik Cheries, Sapna Cheryan, Felix Cheung, Andrei Cimpian, Mark A Clark, Diana Cordon, Fiery Cushman, Peter H Ditto, Alice Amell, Sarah E Frick, Monica Gamez-Djokic, Rebecca Hofstein Grady, Jesse Graham, Jun Gu, Adam Hahn, Brittany E Hanson, Nicole J Hartwich, Kristie Hein, Yoel Inbar, Lily Jiang, Tehlyr Kellogg, Nicole Legate, Timo P Luoma, Heidi Maibeucher, Peter Meindl, Jennifer Miles, Alexandra Mislin, Daniel C Molden, Matt Motyl, George Newman, Hoai Huong Ngo, Harvey Packham, P Scott Ramsay, Jennifer L Ray, Aaron M Sackett, Anne-Laure Sellier, Tatiana Sokolova, Walter Sowden, Daniel Storage, Xiaomin Sun, Jay J Van Bavel, Anthony N Washburn, Cong Wei, Erik Wetter, Carlos T Wilson, Sophie-Charlotte Darroux, Eric Luis Uhlmann
We present the data from a crowdsourced project seeking to replicate findings in independent laboratories before (rather than after) they are published. In this Pre-Publication Independent Replication (PPIR) initiative, 25 research groups attempted to replicate 10 moral judgment effects from a single laboratory's research pipeline of unpublished findings. The 10 effects were investigated using online/lab surveys containing psychological manipulations (vignettes) followed by questionnaires. Results revealed a mix of reliable, unreliable, and culturally moderated findings...
October 11, 2016: Scientific Data
Jiajia Chen, Zhijun Miao, Boxin Xue, Yuxi Shan, Guobin Weng, Bairong Shen
Early diagnosis and surveillance for metastasis and recurrences are critical issues of urologic cancer. Deregulation of long non-coding RNAs (lncRNAs) has been implicated in urologic malignancies and represents potential markers or therapeutic targets. However, the utility of lncRNA as biomarkers appears to be overstated due to heterogeneous or irreproducible results from different studies. Thus, a critical and cautious review on the biomarker potential of lncRNAs is needed. This review provides an update on new findings of lncRNA-based markers for urologic cancer...
2016: Journal of Cancer
Yifeng He, Qiujing Zhu, Mo Chen, Qihong Huang, Wenjing Wang, Qing Li, Yuting Huang, Wen Di
Inconsistencies in the half-maximal (50%) inhibitory concentration (IC50) data for anticancer chemotherapeutic agents have yielded irreproducible experimental results and thus reciprocally contradictory theories in modern cancer research. The MTT assay is currently the most extensively used method for IC50 measurements. Here, we dissected the critical reasons behind MTT-dependent IC50 inconsistencies. We showed that IC50 errors caused by the technical deficiencies of the MTT assay are large and not adjustable (range: 300-11,000%)...
September 23, 2016: Oncotarget
Yue Cao, Li-Li Shi, Qing-Ri Cao, Mingshi Yang, Jing-Hao Cui
Poorly water-soluble drugs often suffer from limited or irreproducible clinical response due to their low solubility and dissolution rate. In this study, organic solvent-free solid dispersions (OSF-SDs) containing telmisartan (TEL) were prepared using polyvinylpyrrolidone K30 (PVP K30) and polyethylene glycol 6000 (PEG 6000) as hydrophilic polymers, sodium hydroxide (NaOH) as an alkalizer, and poloxamer 188 as a surfactant by a lyophilization method. In-vitro dissolution rate and physicochemical properties of the OSF-SDs were characterized using the USP I basket method, differential scanning calorimetry (DSC), X-ray diffractometry (XRD) and fourier transform-infrared (FT-IR) spectroscopy...
2016: Iranian Journal of Pharmaceutical Research: IJPR
Harshvardhan B Modh, Ankan K Bhadra, Kinjal A Patel, Rajeev K Chaudhary, Nishant K Jain, Ipsita Roy
Batch-to-batch variation of therapeutic proteins produced by biological means requires rigorous monitoring at all stages of the production process. A large number of animals are employed for risk assessment of biologicals, which has low ethical and economic acceptability. Research is now focussed on the validation of in vitro and ex vivo tests to replace live challenges. Among in vitro methods, enzyme-linked immunosorbent assay (ELISA) is considered to be the gold standard for estimation of integrity of tetanus toxoid...
November 20, 2016: Journal of Biotechnology
Janne Olsen Frenvik, Knut Dyrstad, Solveig Kristensen, Olav B Ryan
Targeted Thorium Conjugates (TTCs) are being explored as a potential future platform for specific tumour targeting pharmaceuticals. In TTCs the alpha emitting radionuclide thorium-227 ((227)Th) with a half-life of 18.697 days is labelled to targeting moieties, such as monoclonal antibodies (mAbs). The amount of daughter nuclide radium-223 ((223)Ra, t1/2 = 11.435 days) will increase during manufacture and distribution, and so a technology for purification is required to assure an acceptable level of (223)Ra is administrated to the patient...
September 15, 2016: Drug Development and Industrial Pharmacy
J Sheth, D Chen, J J Kim, W J Bowman, P A Crozier, H L Tuller, S T Misture, S Zdzieszynski, B W Sheldon, S R Bishop
Stress and strain in thin films of Pr0.1Ce0.9O2-δ, supported on yttria stabilized zirconia (YSZ) and sapphire substrates, induced by large deviations from oxygen stoichiometry (δ = 0) were investigated by in situ high temperature X-ray diffraction and wafer curvature studies. The measured stresses and strains were correlated with change in δ, measured in situ using optical transmission spectroscopy of defect centers in the films and compared with prior chemical capacitance studies. The coefficient of chemical expansion and elastic modulus values for the films were found to be 18% less than, and 16% greater than in the bulk, respectively...
September 28, 2016: Nanoscale
Robert G Bergman, Rick L Danheiser
"… To what extent is reproducibility a significant issue in chemical research? How can problems involving irreproducibility be minimized? … Researchers should be aware of the dangers of unconscious investigator bias, all papers should provide adequate experimental detail, and Reviewers have a responsibility to carefully examine papers for adequacy of experimental detail and support for the conclusions …" Read more in the Editorial by Robert G. Bergman and Rick L. Danheiser.
October 4, 2016: Angewandte Chemie
Katsuhiro Omae, Osamu Komori, Shinto Eguchi
BACKGROUND: Detection of disease-associated markers plays a crucial role in gene screening for biological studies. Two-sample test statistics, such as the t-statistic, are widely used to rank genes based on gene expression data. However, the resultant gene ranking is often not reproducible among different data sets. Such irreproducibility may be caused by disease heterogeneity. RESULTS: When we divided data into two subsets, we found that the signs of the two t-statistics were often reversed...
2016: BMC Medical Genomics
Haili Zhang, Shuang Liu, Lan Li, Shisong Liu, Shuqi Liu, Jia Mi, Geng Tian
BACKGROUNDS AND OBJECTIVE: Several clinical trials have shown that grape seed extract can reduce blood pressure, but the results are often irreproducible. We therefore sought to systematically evaluate the impact of grape seed extract treatment on the changes of systolic/diastolic blood pressure (SBP/DBP) by meta-analyzing available randomized controlled trials. METHODS: Trial selection and data extraction were completed independently by 2 investigators. Effect-size estimates were expressed as weighted mean difference (WMD) and 95% confidence interval (CI)...
August 2016: Medicine (Baltimore)
Katia Duquesne, Valérie Prima, James N Sturgis
Membrane proteins are typically expressed in heterologous systems with a view to in vitro characterization. A critical step in the preparation of membrane proteins after expression in any system is the solubilization of the protein in aqueous solution, typically using detergents and lipids, to obtain the protein in a form suitable for purification, structural or functional analysis. This process is particularly difficult as the objective is to prepare the protein in an unnatural environment, a protein detergent complex, separating it from its natural lipid partners while causing the minimum destabilization or modification of the structure...
2016: Methods in Molecular Biology
Dinesh Vyas, Archana Balakrishnan, Arpita Vyas
Recently, the discussion on the implications of irreproducibility in the sciences has been brought into the spotlight. This topic has been discussed for years in the literature. A multitude of reasons have been attributed to this issue; one commonly labeled culprit is the overuse of the p value as a determinant of significance by the scientific community. Both scientists and statisticians have questioned the use of null hypothesis testing as the basis of scientific analysis. This survey of the current issues at hand in irreproducibility in research emphasizes potential causes of the issue, impacts that this can have for drug development and efforts been taken to increase transparency of findings in research...
December 2015: American Journal of Robotic Surgery
Andrew P Voigt, Lisa Eidenschink Brodersen, Laura Pardo, Soheil Meshinchi, Michael R Loken
Identification and quantification of maturing hematopoietic cell populations in flow cytometry data sets is a complex and sometimes irreproducible step in data analysis. Supervised machine learning algorithms present promise to automatically classify cells into populations, reducing subjective bias in data analysis. We describe the use of support vector machines (SVMs), a supervised algorithm, to reproducibly identify two distinctly different populations of normal hematopoietic cells, mature lymphocytes and uncommitted progenitor cells, in the challenging setting of pediatric bone marrow specimens obtained 1 month after chemotherapy...
July 14, 2016: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
Rita Büchler, Sindy Wendler, Petra Muckova, Julian Großkreutz, Heidrun Rhode
Several reasons have been put forward to explain the irreproducibility of proteomic biomarker search. However, these reasons pertain to almost every part of biomarker search across the entire analytical workflow but are entirely experimental or methodological. However, in this Viewpoint article we point out that there is a further cause of such irreproducibility. This is not an additional methodological or experimental cause but arises directly from the biology of protein expression. It arises from the fact that disease changes the diversity within protein families...
July 5, 2016: Proteomics. Clinical Applications
Vikash Kumar Ravi, Abhishek Swarnkar, Rayan Chakraborty, Angshuman Nag
Green photoluminescence (PL) from CsPbBr3 nanocubes (∼11 nm edge-length) exhibits a high quantum yield (>80%), narrow spectral width (∼85 meV), and high reproducibility, along with a high molar extinction coefficient (3.5 × 10(6) M(-1) cm(-1)) for lowest energy excitonic absorption. In order to obtain these combinations of excellent properties for blue (PL peak maximum, λ max < 500 nm) emitting samples, CsPbBr3 nanocubes and nanoplatelets with various dimensions were prepared. Systematic increases in both the optical gap and transition probability for radiative excitonic recombination (PL lifetime 3-7 ns), have been achieved with the decreasing size of nanocubes...
August 12, 2016: Nanotechnology
Shen Zhang, Lingfan Chen, Yichu Shan, Zhigang Sui, Qi Wu, Lihua Zhang, Zhen Liang, Yukui Zhang
The pseudo isobaric peptide termini labeling (IPTL) method is a remarkable strategy in quantitative proteomics, and has been efficiently applied in biological studies due to its high quantitative accuracy. However, irreproducible precursor ion selection caused by data dependent acquisition and the chromatographic shift caused by isotope effects limit the wide application of this method. Herein, we expand the use of pseudo IPTL to SWATH MS application and develop a novel quantitative strategy, termed SWATH-pseudo-IPTL, by which the relative quantification could be achieved by comparing the "complete" extracted ion chromatogram (XIC) intensity of MS/MS scan instead of a single intensity measurement in DDA-pseudo-IPTL which only reflected the peptide abundances at that given time...
August 2, 2016: Analyst
Wilson Wen Bin Goh, Limsoon Wong
Networks can resolve many analytical problems in proteomics, including incomplete coverage and inconsistency. Despite high expectations, network-related research in proteomics has experienced only modest growth. In practice, most current research examines non-quantitative usages, for example determining physical interactions among proteins or contextualizing a differential protein list, rather than addressing practical quantitative usages, for example predicting missing proteins or making sample-class predictions...
June 13, 2016: Trends in Biotechnology
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"