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https://www.readbyqxmd.com/read/29234786/the-effects-of-delay-duration-on-visual-working-memory-for-orientation
#1
Hongsup Shin, Qijia Zou, Wei Ji Ma
We used a delayed-estimation paradigm to characterize the joint effects of set size (one, two, four, or six) and delay duration (1, 2, 3, or 6 s) on visual working memory for orientation. We conducted two experiments: one with delay durations blocked, another with delay durations interleaved. As dependent variables, we examined four model-free metrics of dispersion as well as precision estimates in four simple models. We tested for effects of delay time using analyses of variance, linear regressions, and nested model comparisons...
December 1, 2017: Journal of Vision
https://www.readbyqxmd.com/read/29234348/diurnal-transcriptome-and-gene-network-represented-through-sparse-modeling-in-brachypodium-distachyon
#2
Satoru Koda, Yoshihiko Onda, Hidetoshi Matsui, Kotaro Takahagi, Yukiko Yamaguchi-Uehara, Minami Shimizu, Komaki Inoue, Takuhiro Yoshida, Tetsuya Sakurai, Hiroshi Honda, Shinto Eguchi, Ryuei Nishii, Keiichi Mochida
We report the comprehensive identification of periodic genes and their network inference, based on a gene co-expression analysis and an Auto-Regressive eXogenous (ARX) model with a group smoothly clipped absolute deviation (SCAD) method using a time-series transcriptome dataset in a model grass, Brachypodium distachyon. To reveal the diurnal changes in the transcriptome in B. distachyon, we performed RNA-seq analysis of its leaves sampled through a diurnal cycle of over 48 h at 4 h intervals using three biological replications, and identified 3,621 periodic genes through our wavelet analysis...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29232615/a-wind-tunnel-study-on-the-effect-of-trees-on-pm2-5-distribution-around-buildings
#3
Wenjing Ji, Bin Zhao
Vegetation, especially trees, is effective in reducing the concentration of particulate matter. Trees can efficiently capture particles, improve urban air quality, and may further decrease the introduction of outdoor particles to indoor air. The objective of this study is to investigate the effects of trees on particle distribution and removal around buildings using wind tunnel experiments. The wind tunnel is 18m long, 12m wide, and 3.5m high. Trees were modeled using real cypress branches to mimic trees planted around buildings...
November 26, 2017: Journal of Hazardous Materials
https://www.readbyqxmd.com/read/29232602/cooperative-protein-unfolding-a-statistical-mechanical-model-for-the-action-of-denaturants
#4
J Seelig
Knowledge of protein stability is of utmost importance in various fields of biotechnology. Protein stability can be assessed in solution by increasing the concentration of denaturant and recording the structural changes with spectroscopic or thermodynamic methods. The standard interpretation of the experimental data is to assume a 2-state equilibrium between completely folded and completely unfolded protein molecules. Here we propose a cooperative model based on the statistical-mechanical Zimm-Bragg theory...
December 5, 2017: Biophysical Chemistry
https://www.readbyqxmd.com/read/29232513/zeolite-adsorption-free-energies-from-ab-initio-potentials-of-mean-force
#5
Hui Li, Christopher Paolucci, William F Schneider
The ability of metal-exchanged-zeolites to chemisorb small gas molecules is key to their performance as heterogeneous catalysts and gas-separating-agents. Here we propose and evaluate an ab initio potential of mean force (PMF) method for computing adsorption free energies of representative small molecules to Cu-exchanged sites in SSZ-13 zeolite. We show that Cu ions are mobilized by adsorbates and, as a result, computed free energies are significantly more negative than those obtained from a conventional harmonic oscillator model...
December 12, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/29231062/promising-immunotherapy-for-prostate-cancer
#6
John C Henegan, Guru Sonpavde
Sipuleucel-T is the only currently approved immunotherapy for the management of prostate cancer. However, other immunotherapy agents have recently shown activity in prostate cancer and are being developed alone or in combination with other agents. Areas covered: This article provides a review of positive or encouraging clinical trials of agents under development including vaccines, monoclonal antibodies, immune modulators, gene-mediated cytotoxic immunotherapy and chimeric antigen receptor-modified 'designer' T cells in patients with prostate cancer...
December 12, 2017: Expert Opinion on Biological Therapy
https://www.readbyqxmd.com/read/29230254/a-cross-lingual-mobile-medical-communication-system-prototype-for-foreigners-and-subjects-with-speech-hearing-and-mental-disabilities-based-on-pictograms
#7
Krzysztof Wołk, Agnieszka Wołk, Wojciech Glinkowski
People with speech, hearing, or mental impairment require special communication assistance, especially for medical purposes. Automatic solutions for speech recognition and voice synthesis from text are poor fits for communication in the medical domain because they are dependent on error-prone statistical models. Systems dependent on manual text input are insufficient. Recently introduced systems for automatic sign language recognition are dependent on statistical models as well as on image and gesture quality...
2017: Computational and Mathematical Methods in Medicine
https://www.readbyqxmd.com/read/29229846/understanding-the-mechanisms-of-amorphous-creep-through-molecular-simulation
#8
Penghui Cao, Michael P Short, Sidney Yip
Molecular processes of creep in metallic glass thin films are simulated at experimental timescales using a metadynamics-based atomistic method. Space-time evolutions of the atomic strains and nonaffine atom displacements are analyzed to reveal details of the atomic-level deformation and flow processes of amorphous creep in response to stress and thermal activations. From the simulation results, resolved spatially on the nanoscale and temporally over time increments of fractions of a second, we derive a mechanistic explanation of the well-known variation of creep rate with stress...
December 11, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29229582/survival-after-cytoreductive-nephrectomy-in-metastatic-non-clear-cell-renal-cell-carcinoma-patients-a-population-based-study
#9
Michele Marchioni, Marco Bandini, Felix Preisser, Zhe Tian, Anil Kapoor, Luca Cindolo, Giulia Primiceri, Francesco Berardinelli, Alberto Briganti, Shahrokh F Shariat, Luigi Schips, Pierre I Karakiewicz
BACKGROUND: The benefit of cytoreductive nephrectomy (CNT) for cancer-specific mortality (CSM)-free survival is unclear in contemporary metastatic non-clear cell renal cell carcinoma (non-ccmRCC) patients. OBJECTIVE: To assess the role of CNT in non-ccmRCC patients. DESIGN, SETTING, AND PARTICIPANTS: Within Surveillance, Epidemiology, and End Results registry (2001-2014), we identified patients with non-ccmRCC. INTERVENTION: CNT versus no CNT in non-ccmRCC patients...
December 8, 2017: European Urology Focus
https://www.readbyqxmd.com/read/29229334/broad-range-chemical-profiling-of-natural-deep-eutectic-solvent-extracts-using-a-high-performance-thin-layer-chromatography-based-method
#10
Xiaojie Liu, Samantha Ahlgren, Henrie A A J Korthout, Luis F Salomé-Abarca, Lina M Bayona, Robert Verpoorte, Young Hae Choi
Natural deep eutectic solvents (NADES) made mainly with abundant primary metabolites are being increasingly applied in green chemistry. The advantages of NADES as green solvents have led to their use in novel green products for the food, cosmetics and pharma markets. However, one of the main difficulties encountered in the development of novel products and their quality control arises from their low vapour pressure and high viscosity. These features create the need for the development of new analytical methods suited to this type of sample...
December 6, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/29229310/tumor-volume-predicts-local-recurrence-in-early-rectal-cancer-treated-with-radical-resection-a-retrospective-observational-study-of-270-patients
#11
Yanhui Jiang, Kaiyun You, Xingsheng Qiu, Zhuofei Bi, Huaqian Mo, Liting Li, Yimin Liu
OBJECTIVE: Radical resection is regarded as the primary treatment for early rectal cancer, and tumor volume is an independent predictor of many other types of cancer. The purpose of the present study is to assess the effect of tumor volume on the survival of patients with early rectal cancer treated with radical surgery. METHODS: A total of 270 patients with histologically confirmed stage T1/2 N0 rectal cancer who underwent radical resection between September 2006 and September 2014 were enrolled in this study...
December 8, 2017: International Journal of Surgery
https://www.readbyqxmd.com/read/29228928/association-between-high-density-lipoprotein-cholesterol-level-and-pulmonary-function-in-healthy-korean-adolescents-the-js-high-school-study
#12
Ji Hye Park, Seyeon Mun, Dong Phil Choi, Joo Young Lee, Hyeon Chang Kim
BACKGROUND: Accumulating evidence suggests that high-density lipoprotein (HDL) cholesterol is associated with pulmonary function and pulmonary disorders. The aim of this study was to evaluate the association between HDL cholesterol and pulmonary function in healthy adolescents. METHODS: This cross-sectional study was based on data collected for the JS High School study. The analysis included 644 adolescents (318 male and 326 female) aged 15-16 years old and free from asthma or chronic obstructive pulmonary disease...
December 11, 2017: BMC Pulmonary Medicine
https://www.readbyqxmd.com/read/29228910/the-prognosis-of-invasive-micropapillary-carcinoma-compared-with-invasive-ductal-carcinoma-in-the-breast-a-meta-analysis
#13
Yun Wu, Ning Zhang, Qifeng Yang
BACKGROUND: Invasive micropapillary carcinoma (IMPC) of the breast is a rare variant of invasive ductal carcinoma (IDC). The prognosis of IMPC compared with that of IDC remains controversial; we conducted a meta-analysis to evaluate the prognostic difference between IMPC and IDC. METHODS: We searched the PubMed, Cochrane Library, and EMBASE databases for relevant studies comparing overall survival (OS), disease-specific survival (DSS), relapse-free survival (RFS), local-regional recurrence-free survival (LRRFS) or distant metastasis-free survival (DMFS) rates between IMPC and IDC...
December 11, 2017: BMC Cancer
https://www.readbyqxmd.com/read/29228775/effects-of-ceramide-and-dihydroceramide-stereochemistry-at-c-3-on-the-phase-behavior-and-permeability-of-skin-lipid-membranes
#14
Andrej Kovacik, Petra Pullmannová, Jaroslav Maixner, Katerina Vavrova
Ceramides (Cer) are key components of the skin permeability barrier. Sphingosine-based CerNS and dihydrosphingosine-based CerNdS (dihydroCer) have two chiral centers; however, the importance of the correct stereochemistry in the skin barrier Cer is unknown. We investigated the role of the configuration at C-3 of CerNS and CerNdS in the organization and permeability of model skin lipid membranes. Unnatural L-threo-CerNS and L-threo-CerNdS with 24-C acyl chains were synthesized and, along with their natural D-erythro isomers, incorporated into membranes composed of major stratum corneum lipids (Cer, free fatty acids, cholesterol and cholesteryl sulfate)...
December 11, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/29228760/development-and-validation-of-a-prognostic-nomogram-for-colorectal-cancer-after-radical-resection-based-on-individual-patient-data-from-three-large-scale-phase-iii-trials
#15
Michitaka Honda, Koji Oba, Takashi Akiyoshi, Hiromichi Maeda, Kosuke Kashiwabara, Mitsuro Kanda, Shuhei Mayanagi, Toru Aoyama, Chikuma Hamada, Sotaro Sadahiro, Yosuke Fukunaga, Masashi Ueno, Junichi Sakamoto, Shigetoyo Saji, Takaki Yoshikawa
Background: Few prediction models have so far been developed and assessed for the prognosis of patients who undergo curative resection for colorectal cancer (CRC). Materials and Methods: We prepared a clinical dataset including 5,530 patients who participated in three major randomized controlled trials as a training dataset and 2,263 consecutive patients who were treated at a cancer-specialized hospital as a validation dataset. All subjects underwent radical resection for CRC which was histologically diagnosed to be adenocarcinoma...
November 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29228695/regulatory-activity-based-risk-model-identifies-survival-of-stage-ii-and-iii-colorectal-carcinoma
#16
Gang Liu, Chuanpeng Dong, Xing Wang, Guojun Hou, Yu Zheng, Huilin Xu, Xiaohui Zhan, Lei Liu
Clinical and pathological indicators are inadequate for prognosis of stage II and III colorectal carcinoma (CRC). In this study, we utilized the activity of regulatory factors, univariate Cox regression and random forest for variable selection and developed a multivariate Cox model to predict the overall survival of Stage II/III colorectal carcinoma in GSE39582 datasets (469 samples). Patients in low-risk group showed a significant longer overall survival and recurrence-free survival time than those in high-risk group...
November 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29228649/combination-of-dual-serum-fluorescence-afp-and-hepatic-function-tests-is-valuable-to-identify-hcc-in-afp-elevated-liver-diseases
#17
Ting Wang, Kun-He Zhang, Piao-Ping Hu, Qin-Si Wan, Fang-Li Han, Jian-Ming Zhou, De-Qiang Huang, Nong-Hua Lv
Serum alpha-fetoprotein (AFP) levels elevated in benign liver diseases (BLD) represent a challenge in hepatocellular carcinoma (HCC) diagnosis. The present study aimed to develop a simple method to identify HCC in AFP-elevated liver diseases based on combining serum fluorescence and general clinical data. Serum specimens and clinical data were collected from 201 HCC and 117 BLD (41 liver cirrhosis, 76 chronic hepatitis) patients with abnormal serum AFP levels. Dual serum fluorescence (autofluorescence and cell-free DNA-related fluorescence) intensities were sequentially measured and expressed as 6 fluorescence indicators...
November 17, 2017: Oncotarget
https://www.readbyqxmd.com/read/29228370/a-nf-%C3%AE%C2%BAb-signature-predicts-low-grade-glioma-prognosis-a-precision-medicine-approach-based-on-patient-derived-stem-cells
#18
Tamara Ius, Yari Ciani, Maria Elisabetta Ruaro, Miriam Isola, Marisa Sorrentino, Michela Bulfoni, Veronica Candotti, Cecilia Correcig, Evgenia Bourkoula, Ivana Manini, Enrico Pegolo, Damiano Mangoni, Stefania Marzinotto, Slobodanka Radovic, Barbara Toffoletto, Federica Caponnetto, Andrea Zanello, Laura Mariuzzi, Carla Di Loreto, Antonio Paolo Beltrami, Silvano Piazza, Miran Skrap, Daniela Cesselli
Background: While recent genome wide association studies have suggested novel low-grade glioma (LGG) stratification models based on a molecular classification, we explored the potential clinical utility of patient-derived cells. Specifically, we assayed glioma-associated stem cells (GASC) that are patient-derived stem cells representative of the glioma microenvironment. Methods: By next generation sequencing, we analyzed the transcriptional profile of GASC derived from patients that underwent anaplastic transformation either within 48 months (GASC-BAD) or ≥7 years (GASC-GOOD) after surgery...
December 7, 2017: Neuro-oncology
https://www.readbyqxmd.com/read/29228193/deepsf-deep-convolutional-neural-network-for-mapping-protein-sequences-to-folds
#19
Jie Hou, Badri Adhikari, Jianlin Cheng
Motivation: Protein fold recognition is an important problem in structural bioinformatics. Almost all traditional fold recognition methods use sequence (homology) comparison to indirectly predict the fold of a target protein based on the fold of a template protein with known structure, which cannot explain the relationship between sequence and fold. Only a few methods had been developed to classify protein sequences into a small number of folds due to methodological limitations, which are not generally useful in practice...
December 8, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29228185/dncon2-improved-protein-contact-prediction-using-two-level-deep-convolutional-neural-networks
#20
Badri Adhikari, Jie Hou, Jianlin Cheng
Motivation: Significant improvements in the prediction of protein residue-residue contacts are observed in the recent years. These contacts, predicted using a variety of coevolution-based and machine learning methods, are the key contributors to the recent progress in ab initio protein structure prediction, as demonstrated in the recent CASP experiments. Continuing the development of new methods to reliably predict contact maps is essential to further improve ab initio structure prediction...
December 8, 2017: Bioinformatics
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