bluuebunny/crossref_metadata_2025_split huggingface dataset:
Symptom Frequencies and Intensities in Hospitalized Patients With Advanced Cancer Having Depressive Disorder
Authors: Liu Yong , Liu Fei , Yu Yang , Li Qing , Jin Xin , Li Jin 
Published: June 2016

Aim: To explore the frequencies and intensities of depressive symptoms associated with hospitalized patients with advanced cancer. Methods: A total of 196 hospitalized patients with advanced cancer were surveyed with the Edmonton Symptom Assessment System and Self-Rating Depression Scale (SDS). The χ2 test and Wilcoxon rank-sum test were used to compare the frequency and intensity of symptoms between patients with and without depressive disorders. Spearman rank correlation was used to test the correlation between depression and symptoms. Results: Of the 196 enrolled patients, 115 (59%) were males. The median age of the patients was 58 (19-80) years. Seventy-six (39%) patients were diagnosed with depression (SDS ≥ 53). Patients with depressive disorders exhibited pain, drowsiness, and nausea along with a higher frequency and intensity of poor self-perception, appetite loss, anxiety, dyspnea, and fatigue. Depressive symptoms were positively correlated with the symptoms. Conclusion: Depressive disorders are very common and severe in hospitalized patients with advanced cancer. Identifying the frequencies and intensities of the symptoms enables early intervention to improve patients’ quality of life.
Uncertainty in daylight calculations
Authors: Tregenza PR 
Published: June 2016

There is uncertainty in every daylighting calculation, an inherent and unavoidable imprecision which exists in addition to any error due to inaccuracy in a numerical model. It occurs because neither the future state of a building nor the future luminance pattern of the sky can be predicted with certainty. This paper examines the propagation of error in a daylight coefficient calculation and concludes that the overall effect of uncertainty in the various parameters is significant and must be taken into account in practice. The theory of daylight coefficients is extended. The daylight factor under a uniform sky is shown to be equal to twice the mean of the daylight coefficients, making it possible to compare criteria used in climate-based simulation with older daylighting standards. Simple examples are used as illustrations, with theoretical working and numerical experimentation. Guidelines are given for good practice.
Diabetic peripheral neuropathic pain is a stronger predictor of depression than other diabetic complications and comorbidities
Authors: D’Amato Cinzia , Morganti Roberto , Greco Carla , Di Gennaro Federica , Cacciotti Laura , Longo Susanna , Mataluni Giorgia , Lauro Davide , Marfia Girolama A , Spallone Vincenza 
Published: June 2016

Aims: To investigate the independent effect on depression of painless diabetic polyneuropathy, painful diabetic polyneuropathy, and general and diabetes-related comorbidities. Methods: In 181 patients, the presence of painless diabetic polyneuropathy, painful diabetic polyneuropathy, comorbidities and depression was assessed using the Michigan Neuropathy Screening Instrument Questionnaire, the Michigan Diabetic Neuropathy Score, nerve conduction studies, the Douleur Neuropathique en 4 Questions, the Charlson Comorbidity Index and the Beck Depression Inventory-II. Results: In all, 46 patients met the criteria of confirmed painless diabetic polyneuropathy and 25 of painful diabetic polyneuropathy. Beck Depression Inventory-II scores indicative of mild–moderate–severe depression were reached in 36 patients (19.7%). In a multiple logistic regression analysis (including age, sex, body mass index, being unemployed, duration, haemoglobin A1c, insulin treatment, systolic blood pressure, nephropathy, retinopathy, Charlson Comorbidity Index and painful diabetic polyneuropathy), female sex (odds ratio: 5.9, p = 0.005) and painful diabetic polyneuropathy (odds ratio: 4.6, p = 0.038) were the only independent predictors of depression. Multiple regression analysis, including Douleur Neuropathique en 4 Questions and Michigan Diabetic Neuropathy Score instead of painful diabetic polyneuropathy, showed that Douleur Neuropathique en 4 Questions, in addition to female sex, was a significant predictor of depressive symptoms severity ( p =0.005). Conclusion: Painful diabetic polyneuropathy is a greater determinant of depression than other diabetes-related complications and comorbidities. Painful symptoms enhance depression severity more than objective insensitivity.
Early occupational performance intervention enhances outcome after distal radius fracture: A nonrandomized controlled trial
Authors: Dahlqvist Åsa , Rosén Birgitta 
Published: June 2016

Introduction Distal radius fractures are common in women aged over 50. Common complications are pain, oedema, and finger stiffness, which can impact the ability to perform many daily activities. An exercise program for mobility and strength is a traditional early treatment. Little is known about the influence of occupational performance intervention in the early stage. The aim was to evaluate the effect of early intervention at the emergency department focusing on occupational performance in women over 50 years with distal radius fracture. Methods A nonrandomized controlled trial, with an intervention group ( n = 24) and a control group ( n = 24). The intervention group had a dialogue with an occupational therapist highlighting activity issues in the present situation. The control group got treatment as usual. Patient reported outcome measures were used as assessment at an estimated baseline, 1 week, 4 to 5 weeks, and 7 to 8 weeks after injury with COPM, DASH, and a single question about perceived independence of occupational performance. Change over time and differences between groups were calculated. Results Both groups improved their occupational performance significantly during the 2 months follow up, but the intervention group valued their improved ability and independence significantly higher than the control group. Some of the participants in the intervention group scored within normative values for women with DASH, already at 4 to 5 weeks and 7 to 8 weeks after the injury. Conclusions The results indicate potential importance of very early occupational performance intervention at the emergency department, as a valuable complement to traditional treatment of distal radius fracture.
DOT1L as a therapeutic target for the treatment of DNMT3A-mutant acute myeloid leukemia
Authors: Rau Rachel E. , Rodriguez Benjamin A. , Luo Min , Jeong Mira , Rosen Allison , Rogers Jason H. , Campbell Carly T. , Daigle Scott R. , Deng Lishing , Song Yongcheng , Sweet Steve , Chevassut Timothy , Andreeff Michael , Kornblau Steven M. , Li Wei , Goodell Margaret A. 
Published: June 2016

Key Points
Data from Dnmt3a−/− mice implicate Dot1l as a critical mediator of the malignant gene expression program of Dnmt3a-mediated leukemia. Pharmacologic inhibition of DOT1L exerts potent antileukemic activity in DNMT3A-mutant human acute myeloid leukemia in vitro and in vivo.
The genetics of nodal marginal zone lymphoma
Authors: Spina Valeria , Khiabanian Hossein , Messina Monica , Monti Sara , Cascione Luciano , Bruscaggin Alessio , Spaccarotella Elisa , Holmes Antony B. , Arcaini Luca , Lucioni Marco , Tabbò Fabrizio , Zairis Sakellarios , Diop Fary , Cerri Michaela , Chiaretti Sabina , Marasca Roberto , Ponzoni Maurilio , Deaglio Silvia , Ramponi Antonio , Tiacci Enrico , Pasqualucci Laura , Paulli Marco , Falini Brunangelo , Inghirami Giorgio , Bertoni Francesco , Foà Robin , Rabadan Raul , Gaidano Gianluca , Rossi Davide 
Published: June 2016

Key Points
PTPRD lesions are among the most recurrent alterations in NMZL and appear to be enriched in this lymphoma type across mature B-cell tumors. NMZL and SMZL genetics overlap with the exceptions of PTPRD lesions, supporting their distinction as independent entities.
Sequencing, de novo assembly and annotation of a pink bollworm larval midgut transcriptome
Authors: Tassone Erica E , Zastrow-Hayes Gina , Mathis John , Nelson Mark E , Wu Gusui , Flexner J Lindsey , Carrière Yves , Tabashnik Bruce E , Fabrick Jeffrey A 
Published: June 2016

Abstract

Background
The pink bollworm Pectinophora gossypiella (Saunders) (Lepidoptera: Gelechiidae) is one of the world's most important pests of cotton. Insecticide sprays and transgenic cotton producing toxins of the bacterium Bacillus thuringiensis (Bt) are currently used to manage this pest. Bt toxins kill susceptible insects by specifically binding to and destroying midgut cells, but they are not toxic to most other organisms. Pink bollworm is useful as a model for understanding insect responses to Bt toxins, yet advances in understanding at the molecular level have been limited because basic genomic information is lacking for this cosmopolitan pest. Here, we have sequenced, de novo assembled and annotated a comprehensive larval midgut transcriptome from a susceptible strain of pink bollworm.

Findings
A de novo transcriptome assembly for the midgut of P. gossypiella was generated containing 46,458 transcripts (average length of 770 bp) derived from 39,874 unigenes. The size of the transcriptome is similar to published midgut transcriptomes of other Lepidoptera and includes up to 91 % annotated contigs. The dataset is publicly available in NCBI and GigaDB as a resource for researchers.

Conclusions
Foundational knowledge of protein-coding genes from the pink bollworm midgut is critical for understanding how this important insect pest functions. The transcriptome data presented here represent the first large-scale molecular resource for this species, and may be used for deciphering relevant midgut proteins critical for xenobiotic detoxification, nutrient digestion and allocation, as well as for the discovery of protein receptors important for Bt intoxication.
Genome sequence of the olive tree, Olea europaea
Authors: Cruz Fernando , Julca Irene , Gómez-Garrido Jèssica , Loska Damian , Marcet-Houben Marina , Cano Emilio , Galán Beatriz , Frias Leonor , Ribeca Paolo , Derdak Sophia , Gut Marta , Sánchez-Fernández Manuel , García Jose Luis , Gut Ivo G , Vargas Pablo , Alioto Tyler S , Gabaldón Toni 
Published: June 2016

Abstract

Background
The Mediterranean olive tree (Olea europaea subsp. europaea) was one of the first trees to be domesticated and is currently of major agricultural importance in the Mediterranean region as the source of olive oil. The molecular bases underlying the phenotypic differences among domesticated cultivars, or between domesticated olive trees and their wild relatives, remain poorly understood. Both wild and cultivated olive trees have 46 chromosomes (2n).

Findings
A total of 543 Gb of raw DNA sequence from whole genome shotgun sequencing, and a fosmid library containing 155,000 clones from a 1,000+ year-old olive tree (cv. Farga) were generated by Illumina sequencing using different combinations of mate-pair and pair-end libraries. Assembly gave a final genome with a scaffold N50 of 443 kb, and a total length of 1.31 Gb, which represents 95 % of the estimated genome length (1.38 Gb). In addition, the associated fungus Aureobasidium pullulans was partially sequenced. Genome annotation, assisted by RNA sequencing from leaf, root, and fruit tissues at various stages, resulted in 56,349 unique protein coding genes, suggesting recent genomic expansion. Genome completeness, as estimated using the CEGMA pipeline, reached 98.79 %.

Conclusions
The assembled draft genome of O. europaea will provide a valuable resource for the study of the evolution and domestication processes of this important tree, and allow determination of the genetic bases of key phenotypic traits. Moreover, it will enhance breeding programs and the formation of new varieties.
Dual wavelength excitation for the time-resolved photoluminescence imaging of painted ancient Egyptian objects
Authors: Comelli Daniela , Capogrosso Valentina , Orsenigo Christian , Nevin Austin 
Published: June 2016

Abstract

Background
The scientific imaging of works of art is crucial for the assessment of the presence and distribution of pigments and other materials on surfaces. It is known that some ancient pigments are luminescent: these include pink red-lakes and the blue and purple pigments Egyptian Blue (CaCuSi4O10), Han blue (BaCuSi4O10) and Han purple (BaCuSi2O6). Indeed, the unique near-infrared luminescence emission of Egyptian blue allows the imaging of its distribution on surfaces.

Results
We focus on the imaging of the time-resolved photoluminescence of ancient Egyptian objects in the Burri Collection from the Civic Museum of Crema and of the Cremasco (Italy). Time-resolved photoluminescence images have been acquired using excitation at 355 nm for detecting the ns-emission of red lakes and binding media; by employing 532 nm excitation Egyptian blue is probed, and the spatial distribution of its long-lived microsecond emission is imaged. For the first time we provide data on the photoluminescence lifetime of Egyptian blue directly from objects. Moreover, we demonstrate that the use of a pulsed laser emitting at two different wavelengths increases the effectiveness of the lifetime imaging technique for mapping the presence of emissions from pigments on painted surfaces. Laser-induced luminescence spectra from different areas of the objects and traditional digital imaging, using led-based lamps, long pass filters and a commercial photographic camera, complement the results from photoluminescence lifetime imaging. We demonstrate the versatility of a new instrumental setup, capable of recording decay emission kinetics with lifetimes from nanosecond to microseconds.

Conclusions
While the combined wavelength approach for the imaging of emissions from different materials has been demonstrated for the study of ancient Egyptian pigments (both organic and inorganic), the method could be extended to the analysis of modern pigments and paintings.
Emerging roles of the processing of nucleic acids and Toll-like receptors in innate immune responses to nucleic acids
Authors: Miyake Kensuke , Shibata Takuma , Ohto Umeharu , Shimizu Toshiyuki 
Published: June 2016

Abstract
Nucleic acid (NA) is continuously degraded in lysosomes, cytoplasm, and nucleus. NA degradation has a key role in preventing hazardous activation of NA sensors. DNA degradation by lysosomal and cytoplasmic DNases prevents homeostatic activation of cytoplasmic DNA sensing pathways. Crude NA, however, is not sufficient for stimulating NA sensors. mRNAs and rRNAs need to be processed by inositol-requiring enzyme 1 (IRE-1) or RNase L before stimulating cytoplasmic RNA sensors. Activation of cytoplasmic RNA sensors by processed RNAs is tightly controlled by their degradation through the machineries, such as RNA editing, by adenosine (A) deaminases that act on RNA 1 (ADAR1) and the RNA exosome. Impaired degradation of processed RNAs in humans causes activation of cytoplasmic RNA sensors, leading to Aicardi-Goutières syndrome or trichohepatoenteric syndrome. Lysosomal TLRs are also dependent on NA processing in lysosomes. Digestion of dsDNA by DNase II is required for TLR9 response to ssDNA. TLR7 and TLR8 respond to ribonucleosides and oligoribonucleotides, instead of ssRNA itself, indicating requirement for RNA processing. NA-sensing TLRs themselves need to be processed by lysosomal proteases. Without processing, TLR8 and TLR9 fail to form dimers. In addition to NA degradation, the processing of NAs and TLRs by a variety of enzymes is an emerging concept on the control of innate immune responses to NAs.
The Biomechanical Effects of Resuscitation Colloids on the Compromised Lung Endothelial Glycocalyx
Authors: Job Kathleen M. , O’Callaghan Ryan , Hlady Vladimir , Barabanova Alexandra , Dull Randal O. 
Published: June 2016

BACKGROUND:
The endothelial glycocalyx is an important component of the vascular permeability barrier, forming a scaffold that allows serum proteins to create a gel-like layer on the endothelial surface and transmitting mechanosensing and mechanotransduction information that influences permeability. During acute inflammation, the glycocalyx is degraded, changing how it interacts with serum proteins and colloids used during resuscitation and altering its barrier properties and biomechanical characteristics. We quantified changes in the biomechanical properties of lung endothelial glycocalyx during control conditions and after degradation by hyaluronidase using biophysical techniques that can probe mechanics at (1) the aqueous/glycocalyx interface and (2) inside the glycocalyx. Our goal was to discern the location-specific effects of albumin and hydroxyethyl starch (HES) on glycocalyx function.

METHODS:
The effects of albumin and HES on the mechanical properties of bovine lung endothelial glycocalyx were studied using a combination of atomic force microscopy and reflectance interference contrast microscopy. Logistic regression was used to determine the odds ratios for comparing the effects of varying concentrations of albumin and HES on the glycocalyx with and without hyaluronidase.

RESULTS:
Atomic force microscopy measurements demonstrated that both 0.1% and 4% albumin increased the thickness and reduced the stiffness of glycocalyx when compared with 1% albumin. The effect of HES on glycocalyx thickness was similar to albumin, with thickness increasing significantly between 0.1% and 1% HES and a trend toward a softer glycocalyx at 4% HES. Reflectance interference contrast microscopy revealed a concentration-dependent softening of the glycocalyx in the presence of albumin, but a concentration-dependent increase in stiffness with HES. After glycocalyx degradation with hyaluronidase, stiffness was increased only at 4% albumin and 1% HES.

CONCLUSIONS:
Albumin and HES induced markedly different effects on glycocalyx mechanics and had notably different effects after glycocalyx degradation by hyaluronidase. We conclude that HES is not comparable with albumin for studies of vascular permeability and glycocalyx-dependent signaling. Characterizing the molecular and biomechanical effects of resuscitation colloids on the glycocalyx should clarify their indicated uses and permit a better understanding of how HES and albumin affect vascular function.
Contrasting Effects of the γ-Aminobutyric Acid Type A Receptor β3 Subunit N265M Mutation on Loss of Righting Reflexes Induced by Etomidate and the Novel Anesthetic Barbiturate R–mTFD-MPAB
Authors: Amlong Corey A. , Perkins Mark G. , Houle Timothy T. , Miller Keith W. , Pearce Robert A. 
Published: June 2016

BACKGROUND:
Previous studies have shown that etomidate modulates γ-aminobutyric acid type A receptors by binding at the β+-α− subunit interface within the transmembrane domain of receptors that incorporate β2 or β3 subunits. Introducing an asparagine-to-methionine (N265M) mutation at position 265 of the β3 subunit, which sits within the etomidate-binding site, attenuates the hypnotic effect of etomidate in vivo. It was reported recently that the photoactivatable barbiturate R–mTFD-MPAB also acts on γ-aminobutyric acid type A receptors primarily by binding to a homologous site at the γ-β interface. Given this difference in drug-binding sites established by the in vitro experiments, we hypothesized that the β3-N265M–mutant mice would not be resistant to the anesthetic effects of R–mTFD-MPAB in vivo, whereas the same mutant mice would be resistant to the anesthetic effects of R-etomidate.

METHODS:
We measured the effects of IV injection of etomidate and R–mTFD-MPAB on loss and recovery of righting reflex in wild-type mice and in mice carrying the β3-N265M mutation.

RESULTS:
Etomidate-induced hypnosis, as measured by the duration of loss of righting reflex, was attenuated in the N265M knock-in mice, confirming prior results. By contrast, recovery of balance and coordinated movement, as measured by the ability to maintain all 4 paws on the ground, was unaffected by the mutation. Neither hypnosis nor impairment of coordinated movement produced by the barbiturate R–mTFD-MPAB was affected by the mutation.

CONCLUSIONS:
The findings confirmed our hypothesis that mutating the etomidate-binding site would not alter the response to the barbiturate R-mTFD-MPAB. Furthermore, we confirmed previous studies indicating that etomidate-induced hypnosis is mediated in part by β3-containing receptors. We also extended previous findings by showing that etomidate-impaired balance and coordinated movement are not mediated by β3-containing receptors, thus implicating β2-containing receptors in this end point.
Lovastatin lactone may improve irritable bowel syndrome with constipation (IBS-C) by inhibiting enzymes in the archaeal methanogenesis pathway
Authors: Muskal Steven M. , Sliman Joe , Kokai-Kun John , Pimentel Mark , Wacher Vince , Gottlieb Klaus 
Published: June 2016

Methane produced by the methanoarchaeonMethanobrevibacter smithii(M. smithii) has been linked to constipation, irritable bowel syndrome with constipation (IBS-C), and obesity. Lovastatin, which demonstrates a cholesterol-lowering effect by the inhibition of HMG-CoA reductase, may also have an anti-methanogenesis effect through direct inhibition of enzymes in the archaeal methanogenesis pathway. We conducted protein-ligand docking experiments to evaluate this possibility. Results are consistent with recent clinical findings.METHODS: F420-dependent methylenetetrahydromethanopterin dehydrogenase (mtd), a key methanogenesis enzyme was modeled for two different methanogenic archaea:M. smithiiandMethanopyrus kandleri. Once protein models were developed, ligand-binding sites were identified. Multiple ligands and their respective protonation, isomeric and tautomeric representations were docked into each site, including F420-coenzyme (natural ligand), lactone and β-hydroxyacid forms of lovastatin and simvastatin, and other co-complexed ligands found in related crystal structures.RESULTS: 1) Generally, for each modeled site the lactone form of the statins had more favorable site interactions compared to F420; 2) The statin lactone forms generally had the most favorable docking scores, even relative to the native template PDB ligands; and 3) The statin β-hydroxyacid forms had less favorable docking scores, typically scoring in the middle with some of the F420 tautomeric forms. Consistent with these computational results were those from a recent phase II clinical trial (NCT02495623) with a proprietary, modified-release lovastatin-lactone (SYN-010) in patients with IBS-C, which showed a reduction in symptoms and breath methane levels, compared to placebo.CONCLUSION: The lactone form of lovastatin exhibits preferential binding over the native-F420 coenzyme ligandin silicoand thus could inhibit the activity of the keyM. smithiimethanogenesis enzymemtdin vivo. Statin lactones may thus exert a methane-reducing effect that is distinct from cholesterol lowering activity, which requires HMGR inhibition by statin β-hydroxyacid forms.