Miracle-dz/UniFAR-FTUs huggingface dataset:
Identification of Cancer Stem-Like Side Population Cells in Purified Primary Cultured Human Laryngeal Squamous Cell Carcinoma Epithelia

Cancer stem-like side population (SP) cells have been identified in many solid tumors; however, most of these investigations are performed using established cancer cell lines. Cancer cells in tumor tissue containing fibroblasts and many other types of cells are much more complex than any cancer cell line. Although SP cells were identified in the laryngeal squamous cell carcinoma (LSCC) cell line Hep-2 in our pilot study, it is unknown whether the LSCC tissue contains SP cells. In this study, LSCC cells (LSCCs) were primary cultured and purified from a surgically resected LSCC specimen derived from a well-differentiated epiglottic neoplasm of a Chinese male. This was followed by the verification of epithelium-specific characteristics, such as ultrastructure and biomarkers. A distinct SP subpopulation (4.45±1.07%) was isolated by Hoechst 33342 efflux analysis from cultured LSCCs by using a flow cytometer. Cancer stem cell (CSC)-associated assays, including expression of self-renewal and CSC marker genes, proliferation, differentiation, spheroid formation, chemotherapy resistance, and tumorigenicity were then conducted between SP and non-SP (NSP) LSCCs. In vitro and in vivo assays revealed that SP cells manifested preferential expression of self-renewal and CSC marker genes, higher capacity for proliferation, differentiation, and spheroid formation; enhanced resistance to chemotherapy; and greater xenograft tumorigenicity in immunodeficient mice compared with NSP cells. These findings suggest that the primary cultured and purified LSCCs contain cancer stem-like SP cells, which may serve as a valuable model for CSC research in LSCC.
Stereotactic Body Radiation Therapy for Hepatocellular Carcinoma: Prognostic Factors of Local Control, Overall Survival, and Toxicity

Purpose Stereotactic body radiation therapy (SBRT) for hepatocellular carcinoma (HCC) has been evaluated in several recent studies. The CyberKnife® is an SBRT system that allows for real-time tracking of the tumor. The purpose of this study was to evaluate the prognostic factors for local control and overall survival following this treatment. Patients and Methods 75 patients with 96 liver-confined HCC were treated with SBRT at the Oscar Lambret Comprehensive Cancer Center. Fiducials were implanted in the liver before treatment and were used as markers to track the lesion’s movement. Treatment response was scored according to RECIST v1.1. Local control and overall survival were calculated using the Kaplan and Meier method. A stepwise multivariate analysis (Cox regression) of prognostic factors was performed for local control and overall survival. Results There were 67 patients with Child-Turcotte-Pugh (CTP) Class A and eight patients with CTP Class B. Treatment was administered in three sessions. A total dose of 40–45 Gy to the 80% isodose line was delivered. The median follow-up was 10 months (range, 3–49 months). The local control rate was 89.8% at 1 and 2 years. Overall survival was 78.5% and 50.4% at 1 and 2 years, respectively. Toxicity mainly consisted of grade 1 and grade 2 events. Higher alpha-fetoprotein (aFP) levels were associated with less favorable local control (HR=1.001; 95% CI [1.000, 1.002]; p=0.0063). A higher dose was associated with better local control (HR=0.866; 95% CI [0.753, 0.996]; p=0.0441). A Child-Pugh score higher than 5 was associated with worse overall survival (HR= 3.413; 95% CI [1.235, 9.435]; p=0.018). Conclusion SBRT affords good local tumor control and higher overall survival rates than other historical controls (best supportive care or sorafenib). High aFP levels were associated with lesser local control, but a higher treatment dose improved local control.
Mannitol, a novel bacterial compatible solute in Pseudomonas putida S12

The aim of this study was to identify the compatible solutes accumulated by Pseudomonas putida S12 subjected to osmotic stress. In response to reduced water activity, P. putida S12 accumulated Nalpha-acetylglutaminylglutamine amide (NAGGN) simultaneously with a novel compatible solute identified as mannitol (using 13C- and 1H-nuclear magnetic resonance, liquid chromatography-mass spectroscopy and high-performance liquid chromatography methods) to maximum concentrations of 74 and 258 micromol g (dry weight) of cells(-1), respectively. The intracellular amounts of each solute varied with both the type and amount of osmolyte applied to induce osmotic stress in the medium. Both solutes were synthesized de novo. Addition of betaine to the medium resulted in accumulation of this compound and depletion of both NAGGN and mannitol. Mannitol and NAGGN were accumulated when sucrose instead of salts was used to reduce the medium water activity. Furthermore, both compatible solutes were accumulated when glucose was substituted by other carbon sources. However, the intracellular quantities of mannitol decreased when fructose, succinate, or lactate were applied as a carbon source. Mannitol was also raised to high intracellular concentrations by other salt-stressed Pseudomonas putida strains. This is the first study demonstrating a principal role for the de novo-synthesized polyol mannitol in osmoadaptation of a heterotrophic eubacterium.
Heterogeneous Photocatalysis: Recent Advances and Applications

Semiconductor heterogeneous photocatalysis, the subject of this review, is a versatile, low-cost and environmentally benign treatment technology for a host of pollutants. These may be of biological, organic and inorganic in origin within water and air. The efficient and successful application of photocatalysis demands that the pollutant, the catalyst and source of illumination are in close proximity or contact with each other. The ability of advanced oxidation technology to remove low levels of persistent organic pollutants as well as microorganisms in water has been widely demonstrated and, progressively, the technology is now being commercialized in many areas of the world including developing nations. This review considers recent developments in the research and application of heterogeneous semiconductor photocatalysis for the treatment of low-level concentrations of pollutants in water and air using titanium dioxide as a “model” semiconductor. The review considers charge transport characteristics on the semiconductor surface, photocatalyst reactor design and organic degradation mechanistic pathways. The effects of photoreactor operating parameters on the photocatalytic process are discussed in addition to mineralization and disinfection kinetics.
CCR5-Mediated Human Immunodeficiency Virus Entry Depends on an Amino-Terminal gp120-Binding Site and on the Conformational Integrity of All Four Extracellular Domains

ABSTRACT The human immunodeficiency virus type 1 coreceptor activity of CCR5 depends on certain polar and charged residues in its amino-terminal domain. Since studies of chimeric receptors have indicated that the extracellular loops of CCR5 are also involved in viral fusion and entry, we have explored the role of bulky, polar and nonpolar residues in these regions. Selected amino acids in the three extracellular loops were individually changed to alanines, and the coreceptor activities of the mutant CCR5 proteins were tested in a luciferase reporter virus-based entry assay. We found that the cysteines in the extracellular loops of CCR5 are essential for coreceptor activity. However, only minor (two- to threefold) effects on coreceptor function were noted for all of the other alanine substitutions. We also demonstrated that when the first 19 residues of the amino-terminal region were separated from the rest of CCR5, by insertion of glycine/serine spacers between proline 19 and cysteine 20, coreceptor function decreased. Together with our previous studies, these data indicate that both an amino-terminal gp120-binding site and extracellular domain geometry play a role in viral entry.
Cord Blood Leptin and Adiponectin as Predictors of Adiposity in Children at 3 Years of Age: A Prospective Cohort Study

OBJECTIVES. Leptin and adiponectin are adipocyte-secreted hormones that regulate energy homeostasis and metabolism. Because their roles in the neonatal period and in early childhood are poorly understood, we aimed in this prospective cohort study to determine the extent to which umbilical cord blood leptin and adiponectin concentrations predict measures of adiposity and growth at 3 years of age. PATIENTS AND METHODS. We studied 588 children participating in the prospective prebirth cohort study Project Viva. We examined associations of cord blood leptin and adiponectin levels with weight changes during the first 6 months of life, 3-year circulating leptin and adiponectin concentrations, and the following adiposity-related outcomes at 3 years of age: BMI z score, height-for-age z score, and sums of triceps and subscapular skinfold thicknesses to represent overall adiposity, as well as subscapular/triceps skinfold ratio to represent central adiposity. RESULTS. Cord blood leptin and adiponectin were each directly associated with the duration of gestation and birth weight for gestational age z scores. Cord blood leptin levels were negatively associated with change in weight-for-length, weight-for-age, and length-for-age z scores between birth and 6 months of age. Similarly, cord blood adiponectin was negatively associated with change in weight-for-length and weight-for-age z scores. After adjusting for several maternal and child factors related to obesity, each 10 ng/mL increment of cord blood leptin was associated with a reduction in BMI z score and higher leptin levels at 3 years but not with skinfold thicknesses. Each 10 μg/mL increment of cord blood adiponectin was positively associated with a higher subscapular skinfold thickness/triceps skinfold thickness ratio at 3 years. CONCLUSIONS. Lower cord blood leptin levels are associated with smaller size at birth but more pronounced weight gain in the first 6 months of life and higher BMI at 3 years of age. Cord blood adiponectin levels are also directly associated with birth weight for gestational age, inversely associated with weight gain in the first 6 months of life, and predict an increase in central adiposity at age 3 years.
Acetazolamide slows VA/Q matching after changes in regional blood flow.

Inhibition of carbonic anhydrase (CA) by acetazolamide increases ventilation-perfusion (VA/Q) heterogeneity (E. R. Swenson, H. T. Robertson, and M. P. Hlastala. J. Clin. Invest. 92: 702-709, 1993), possibly because of slowing of CO2/H(+)-dependent mechanisms of VA/Q matching with temporal fluctuations of regional ventilation and perfusion. To study this concept, we imposed abrupt changes in regional perfusion by lobar or left main pulmonary artery occlusions (PAOs) in anesthetized mechanically ventilated dogs before and after CA inhibition (20 mg/kg iv acetazolamide). The rate of ventilation redistribution and change in VA/Q distributions with changes in perfusion were measured by planar gamma imaging of the lungs during continuous inhalation of 81mKr gas ventilation scanning and the multiple inert-gas elimination technique. PAO for 5 min caused regional Kr activity to fall by 30 +/- 5% (SD) with a half time (t1/2) of 75 +/- 10 s. With release of the occlusion, counts returned to baseline with t1/2 of 79 +/- 12 s. Acetazolamide increased these respective t1/2 values (161 +/- 16 and 180 +/- 17 s). Consistent with these kinetics, VA/Q mismatch was greater with lobar PAO at 2 min but not at 10 min with CA inhibition compared with that caused by lobar PAO alone. Cyclical lobar PAO and release (10 cycles of 1-min occlusion and 1-min release) caused more VA/Q heterogeneity during CA inhibition. The arterial-to-alveolar inert-gas area difference rose minimally from 0.18 to 0.23 (P < 0.05) with cyclical PAO and from 0.24 to 0.48 (P < 0.01) after CA inhibition. (ABSTRACT TRUNCATED AT 250 WORDS)
Knowing better and losing even more: the use of knowledge in hazards management

Abstract Although loss of life from natural hazards has been declining, the property losses from those causes have been increasing. At the same time the volume of research on natural hazards and the books reviewing findings on the subject have also increased. Several major changes have occurred in the topics addressed. Emphasis has shifted from hazards to disasters. There has been increasing attention to vulnerability. Views of causation have changed. Four possible explanations are examined for the situation in which more is lost while more is known: (1) knowledge continues to be flawed by areas of ignorance; (2) knowledge is available but not used effectively; (3) knowledge is used effectively but takes a long time to have effect; and (4) knowledge is used effectively in some respects but is overwhelmed by increases in vulnerability and in population, wealth, and poverty.
Increasing chlamydia screening tests in general practice: a modified Zelen prospective Cluster Randomised Controlled Trial evaluating a complex intervention based on the Theory of Planned Behaviour

Objective To determine if a structured complex intervention increases opportunistic chlamydia screening testing of patients aged 15–24 years attending English general practitioner (GP) practices. Methods A prospective, Cluster Randomised Controlled Trial with a modified Zelen design involving 160 practices in South West England in 2010. The intervention was based on the Theory of Planned Behaviour (TPB). It comprised of practice-based education with up to two additional contacts to increase the importance of screening to GP staff and their confidence to offer tests through skill development (including videos). Practical resources (targets, posters, invitation cards, computer reminders, newsletters including feedback) aimed to actively influence social cognitions of staff, increasing their testing intention. Results Data from 76 intervention and 81 control practices were analysed. In intervention practices, chlamydia screening test rates were 2.43/100 15–24-year-olds registered preintervention, 4.34 during intervention and 3.46 postintervention; controls testing rates were 2.61/100 registered patients prior intervention, 3.0 during intervention and 2.82 postintervention. During the intervention period, testing in intervention practices was 1.76 times as great (CI 1.24 to 2.48) as controls; this persisted for 9 months postintervention (1.57 times as great, CI 1.27 to 2.30). Chlamydia infections detected increased in intervention practices from 2.1/1000 registered 15–24-year-olds prior intervention to 2.5 during the intervention compared with 2.0 and 2.3/1000 in controls (Estimated Rate Ratio intervention versus controls 1.4 (CI 1.01 to 1.93). Conclusions This complex intervention doubled chlamydia screening tests in fully engaged practices. The modified Zelen design gave realistic measures of practice full engagement (63%) and efficacy of this educational intervention in general practice; it should be used more often. Trial registration The trial was registered on the UK Clinical Research Network Study Portfolio database. UKCRN number 9722.
Influence of pulsed resources and marine subsidies on insular rodent populations

Inputs of marine resources contribute to high consumer densities on small, barren islands in the arid Gulf of California, Mexico. Episodes of rainfall associated with El Nino Southern Oscillation (ENSO) events, however, stimulate plant growth and seed production and replenish soil detritus and seed banks. We studied the effects of marine inputs and pulsed ENSO resources on rodent populations on islands before, during and after the strong 1997-1998 ENSO event. Stable isotope analysis was used to determine rodent diets. During dry years, P. maniculatus consumed marine prey near shore and on small islands, and were much more abundant in these areas than farther inland and on larger islands. Captures were particularly concentrated near shore on three islands inhabited by Chaetodipus rudinoris, a granivore that was numerous in inland areas. Following the ENSO, Peromyscus maniculatus increased in abundance by 408%, compared to only 160% for C. rudinoris, and new individuals invaded inland areas. P. maniculatus populations declined sharply the following year, however, whereas C. rudinoris populations remained relatively stable. In response to ENSO conditions, P. maniculatus ate more seeds on islands with C. rudinoris than on islands without C. rudinoris. P. maniculatus also increased less markedly and declined more quickly in abundance where C. rudinoris was present. We speculate that P. maniculatus is capable of rapid numerical response to resource pulses but depends on marine foods during dry years. C. rudinoris is restricted to islands with sufficient seed resources, but maintains stable populations by exploiting low-density seeds and caching seeds from wet years. On islands with both species, C. rudinoris restricts P. maniculatus to near-shore areas via interference, but spillover consumption of seeds by subsidized P. maniculatus may limit the response of C. rudinoris to ENSO resources. Combined with differences in life history and dispersal abilities, these ecological factors help explain the distinct biogeographic distributions of these rodents on Gulf islands.
Conditional and Unconditional Tests (and Sample Size) Based on Multiple Comparisons for Stratified 2 × 2 Tables

The Mantel-Haenszel test is the most frequent asymptotic test used for analyzing stratified 2 × 2 tables. Its exact alternative is the test of Birch, which has recently been reconsidered by Jung. Both tests have a conditional origin: Pearson's chi-squared test and Fisher's exact test, respectively. But both tests have the same drawback that the result of global test (the stratified test) may not be compatible with the result of individual tests (the test for each stratum). In this paper, we propose to carry out the global test using a multiple comparisons method (MC method) which does not have this disadvantage. By refining the method (MCB method) an alternative to the Mantel-Haenszel and Birch tests may be obtained. The new MC and MCB methods have the advantage that they may be applied from an unconditional view, a methodology which until now has not been applied to this problem. We also propose some sample size calculation methods.
Notes on image annotation

We are under the illusion that seeing is effortless, but frequently the visual system is lazy and makes us believe that we understand something when in fact we don't. Labeling a picture forces us to become aware of the difficulties underlying scene understanding. Suddenly, the act of seeing is not effortless anymore. We have to make an effort in order to understand parts of the picture that we neglected at first glance. In this report, an expert image annotator relates her experience on segmenting and labeling tens of thousands of images. During this process, the notes she took try to highlight the difficulties encountered, the solutions adopted, and the decisions made in order to get a consistent set of annotations. Those annotations constitute the SUN database.
C-GROUP: A Visual Analytic Tool for Pairwise Analysis of Dynamic Group Membership

C-GROUP is a tool for analyzing dynamic group membership in social networks over time. Unlike most network visualization tools, which show the group structure within an entire network, or the group membership for a single actor, C-GROUP allows users to focus their analysis on a pair of individuals of interest. And unlike most dynamic social network visualization tools, which focus on the addition and deletion of nodes (actors) and edges (relationships) over time, C-GROUP focuses on changing group memberships over time. C-GROUP provides users with a flexible interface for defining (and redefining) groups interactively, and allows users to view the changing group memberships for the pair over time. This helps to highlight the similarities and differences between the individuals and their evolving group memberships. C-GROUP allows users to dynamically select the time granularity of the temporal evolution and supports two novel visual representations of the evolving group memberships. This flexibility gives users alternate views that are appropriate for different network sizes and provides users with different insights into the grouping behavior.
Enhanced Robotic Surgical Training Using Augmented Visual Feedback

The goal of this study was to enhance robotic surgical training via real-time augmented visual feedback. Thirty novices (medical students) were divided into 5 feedback groups (speed, relative phase, grip force, video, and control) and trained during 1 session in 3 inanimate surgical tasks with the da Vinci Surgical System. Task completion time, distance traveled, speed, curvature, relative phase, and grip force were measured immediately before and after training and during a retention test 2 weeks after training. All performance measures except relative phase improved after training and were retained after 2 weeks. Feedback-specific effects showed that the speed group was faster than other groups after training, and the grip force group applied less grip force. This study showed that the real-time augmented feedback during training can enhance the surgical performance and can potentially be beneficial for both training and surgery.
Regulation of neuroblast mitosis is determined by PACAP receptor isoform expression

Although neurogenesis in the embryo proceeds in a region- or lineage-specific fashion coincident with neuropeptide expression, a regulatory role for G protein-coupled receptors (GPCR) remains undefined. Pituitary adenylate cyclase activating polypeptide (PACAP) stimulates sympathetic neuroblast proliferation, whereas the peptide inhibits embryonic cortical precursor mitosis. Here, by using ectopic expression strategies, we show that the opposing mitogenic effects of PACAP are determined by expression of PACAP receptor splice isoforms and differential coupling to the phospholipase C (PLC) pathway, as opposed to differences in cellular context. In embryonic day 14 (E14) cortical precursors transfected with the hop receptor variant, but not cells transfected with the short variant, PACAP activates the PLC pathway, increasing intracellular calcium and eliciting translocation of protein kinase C. Ectopic expression of the hop variant in cortical neuroblasts transforms the antimitotic effect of PACAP into a promitogenic signal. Furthermore, PACAP promitogenic effects required PLC pathway function indicated by antagonist U-73122 studies in hop-transfected cortical cells and native sympathetic neuroblasts. These observations highlight the critical role of lineage-specific expression of GPCR variants in determining mitogenic signaling in neural precursors.
On the parameterized complexity of the generalized rush hour puzzle

We consider the parameterized complexity of a generalized version of the game Rush Hour 1 , which is a puzzle requiring the player to find a sequence of moves by vehicles to enable a special target vehicle to escape from a grid-shaped game board that may contain obstacles. Although the problem is PSPACE-complete, we demonstrate algorithms that work in polynomial time when either the total number of vehicles or the total number of moves is bounded by a constant. Our contributions are two-fold, entailing the application of ideas of parameterized complexity to games and to motion-planning problems (albeit motion-planning problems of a very constrained nature).