LLukas22/scidocs huggingface dataset:
Use of a standardized diagnostic approach improves the prognostic information of histopathologic factors in pancreatic and periampullary adenocarcinoma

BACKGROUND
Variability in reported histopathology parameters in operated periampullary adenocarcinomas may affect the prognostic weight of the parameters. Standardized axial sectioning produces a higher incidence of involved margins and also seems to produce a lower relative incidence of pancreatic compared with distal bile duct origin and a higher incidence of involved lymph nodes, compared with non-standardized procedure. The aims of this study were to 1) assess how a previously not described standardized pathology procedure, with longitudinal sectioning along the distal bile duct, affects reported tumour origin, margin status and involved lymph nodes, compared with non-standardized procedure, 2) assess if re-evaluation of microscopic slides affects the prognostic value of margin status and 3) compare the results of this standardized procedure with reported results of other standardized and non-standardized procedures.


METHODS
One hundred seventy-five consecutive pancreaticoduodenectomy specimens with primary adenocarcinomas, operated during 2001 - 2011 at the University hospitals of Lund and Malmö, Sweden, were re-evaluated histologically, and parameters relevant for classification and prognosis were assessed, with 1 mm as a threshold for involved or uninvolved margins. Follow-up lasted until 31 December 2013. Five-year overall survival (OS) and hazard ratios (HR) were calculated for the margin status stated in the original reports and margin status after re-evaluation.


RESULTS
Compared with non-standardized cases (n = 129), standardized cases (n = 46) had more involved lymph nodes in the specimens (median 3 vs 1), a higher fraction of distal bile duct origin (39% vs 21%) and a higher fraction of involved margins (74% vs 47%). The prognostic value of uninvolved margins increased by re-evaluation of slides (p < 0.001) and the adjusted HR for involved margins increased from 1.6 (95% CI 1.1 - 2.4) to 3.3 (95% CI 1.5 - 7.0). Uninvolved margins remained a significant predictor of OS in adjusted analysis.


CONCLUSIONS
Both the method of sectioning the specimen and the microscopic assessment affect prognostic pathology parameters significantly. The results of the herein described standardized method are similar to the results of other standardized procedures. The 1-mm threshold for involved margins in pancreaticoduodenectomies is relevant for OS, and margin status is an independent prognostic parameter.


VIRTUAL SLIDES
The virtual slides for this article can be found here: http://www.diagnosticpathology.diagnomx.eu/vs/1056639379120615.
Vehicle Colour Recognition System using CCTV Cameras

Vehicle Color Recognition System is the implementation of automatic detection of predominant color of vehicles from the traffic images captured through CCTV cameras installed at crossings. This document presents a new effective method for extracting color of vehicle using MATLAB, Firstly vehicle is cropped automatically from the traffic image and then color of individual vehicle is picked according to the probability of frequency of RGB intensity of each pixel. The dominant color is presented as vehicle color in the output. Keywords— MATLAB, Vehicle Color Recognition, CCTV, Intensity
Computer generated images vs. digital photographs: A synergetic feature and classifier combination approach

The development of powerful and low-cost hardware devices allied with great advances on content editing and authoring tools have promoted the creation of computer generated images (CG) to a degree of unrivaled realism. Differentiating a photo-realistic computer generated image from a real photograph (PG) can be a difficult task to naked eyes. Digital forensics techniques can play a significant role in this task. As a matter of fact, important research has been made by the scientific community in this regard. Most of the approaches focus on single image features aiming at detecting differences between real and computer generated images. However, with the current technology advances, there is no universal image characterization technique that completely solves this problem. In our work, we (1) present a complete study of several CG versus PG approaches; (2) create a large and heterogeneous dataset to be used as a training and validation database; (3) implement representative methods of the literature; and (4) devise automatic ways for combining the best approaches. We compared the implemented methods using the same validation environment showing their pros and cons with a common benchmark protocol. We collected approximately 4850 photographs and 4850 CGs with large diversity of image content and quality. We implemented a total of 13 methods. Results show that this set of methods can achieve up to 93% of accuracy when used without any form of machine learning fusion. The same methods, when combined through the implemented fusion schemes, can achieve an accuracy rate of 97%, representing a reduction of 57% of the classification error over the best individual result. 2013 Elsevier Inc. All rights reserved.
Effects of increased wholegrain consumption on immune and inflammatory markers in healthy low habitual wholegrain consumers.

PURPOSE
Wholegrain (WG) consumption is associated with reduced risk of cardiovascular disease, but clinical data on inflammation and immune function is either conflicting or limited. The objective of this study was to assess the impact of increasing WG consumption to at least 80 g/day on markers of inflammation and glucose metabolism and on phenotypic and functional aspects of the immune system, in healthy, middle-aged adults with low habitual WG intake.


METHODS
Subjects consumed a diet high in WG (>80 g/day) or low in WG (<16 g/day, refined grain diet) in a crossover study, with 6-week intervention periods, separated by a 4-week washout. Adherence to the dietary regimes was achieved by dietary advice and provision of a range of food products, with compliance verified by analysis of plasma alkylresorcinols (ARs).


RESULTS
On the WG intervention, WG consumption reached 168 g/day (P < 0.001), accompanied by an increase in plasma ARs (P < 0.001) and fibre intake (P < 0.001), without affecting other aspects of dietary intake. On the WG arm, there were trends for lower ex vivo activation of CD4(+) T cells and circulating concentrations of IL-10, C-reactive protein, C-peptide, insulin and plasminogen activator inhibitor-1. The percentage of CD4(+) central memory T cells and circulating levels of adipsin tended to increase during the WG intervention.


CONCLUSIONS
Despite the dramatic increase in WG consumption, there were no effects on phenotypic or functional immune parameters, markers of inflammation or metabolic markers.
The role of metal complexation in the solubility and stability of humic acid

Abstract Humic acid (HA) obtained from a variety of sources displays somewhat varied chemical composition and residual metal content. In spite of extensive purification procedures as much as 0.5% metal (by weight) can remain in the humic acid. In some cases, particularly for Cu 2+ , the metal binding appears site specific, while in others the cupric ion is less strongly bound. Furthermore, the iron content of the samples appears to be dependent on the source and purification procedure. Quantitative removal or exchange of the residual metal is expected to alter the stability and solubility properties of the HA. The treatment of highly purfied HA with Chelex® resin has afforded a material in which the amount of the so-called residual metal has been reduced by 40% or more. This reduction in metal content appears to affect solution aggregation phenomena and consequently the rate of flocculation. Metal removal depends on pre-treatment conditions of the HA sample and is highly pH and temperature dependent. These observations suggest that chemical transformations of HA at high pH and moderate temperature may affect the equilibrium state between the bound metal in HA and the metal-Chelex® complex. The apparently selective removal of metal suggests a specific role of the metal.
Agent-Centric Risk Assessment: Accident Anticipation and Risky Region Localization

For survival, a living agent (e.g., human in Fig. 1(a)) must have the ability to assess risk (1) by temporally anticipating accidents before they occur (Fig. 1(b)), and (2) by spatially localizing risky regions (Fig. 1(c)) in the environment to move away from threats. In this paper, we take an agent-centric approach to study the accident anticipation and risky region localization tasks. We propose a novel soft-attention Recurrent Neural Network (RNN) which explicitly models both spatial and appearance-wise non-linear interaction between the agent triggering the event and another agent or static-region involved. In order to test our proposed method, we introduce the Epic Fail (EF) dataset consisting of 3000 viral videos capturing various accidents. In the experiments, we evaluate the risk assessment accuracy both in the temporal domain (accident anticipation) and spatial domain (risky region localization) on our EF dataset and the Street Accident (SA) dataset. Our method consistently outperforms other baselines on both datasets.
Kinematics of robot manipulators in the motor algebra

In the literature we find a variety of mathematical approaches for solving problems in robotics which we will review now briefly. Denavit and Hartenberg [60] introduced the mostly used kinematic notation for lower pair mechanisms based on matrix algebra, Walker [243] used the epsilon algebra for the treatment of the manipulator kinematics, Gu and Luh [99] utilized dual– matrices for computing the Jacobians useful for kinematics and robot dynamics and Pennock and Yang [188] derived closed–form solutions for the inverse kinematics problem for various types of robot manipulators employing dual–matrices. McCarthy [171] used the dual form of the Jacobian for the analysis of multi–links similarly. Funda and Paul [87] gave a detailed computational analysis of the use of screw transformations in robotics. These authors explained that since the dual quaternion can represent the rotation and translation transformations simultaneously it is more effective than the unit quaternion formalism for dealing with the kinematics of robot chains. Kim and Kumar [132] computed a closed–form solution of the inverse kinematics of a 6 degree of freedom robot manipulator in terms of line transformations using dual quaternions. Aspragathos and Dimitros [9] confirmed once again
QTL analysis for early yield in a pseudo F 2 population of cassava

Genetic mapping of early bulking in a full-sib population of cassava was continued in a selfed family of 268 cassava plants derived from a single progeny of the full-sib population. The pseudo F2 population was analysed with 122 segregating SSR markers. A previously constructed linkage map of cassava consisting of 22 linkage groups covering 1236.7 cM, with an average marker distance of 18 cM was used for this study. The F2 population was evaluated for components of early yield, namely dry root yield (DR) at 7 months, harvest index (HI), and weight of fresh foliage (FF). Interval mapping, with singleand two-QTL models, was used to identify QTLs. The single-QTL model identified three QTLs each for DR, FF, and HI. The two-QTL model approach identified groups of QTLs that together explained 33% for FF, 43.5% for DR and 36% for HI. The identification of QTLs involved in early yield is an important step toward understanding quantitative genetic variation of early yield and implies reconsideration of breeding strategies for improvement of this complex trait.
Detailed anatomy of a left accessory aberrant colic artery

In an aged human female cadaver a left accessory aberrant colic artery (LAACA) was observed and studied. It originated from the superior mesenteric artery at 3 cm proximal to the middle colic artery, at the inferior border of pancreas, passing over Treitz’s muscle and continued covered by the superior duodenal fold where it crossed the inferior mesenteric vein. Further, it continued with a satellite vein anterior to the left renal vein and the anterior branch of the renal artery. The LAACA divided into an ascending branch and a descending one, anastomosed with the middle colic and proper left colic arteries; between its two primary branches and the splenic flexure of colon, a hypovascular area was observed. The surgical relevance of the LAACA detailed anatomy mainly relates to specific procedures performed in left colectomies and nephrectomies.
Leoligin, the major lignan from Edelweiss, inhibits intimal hyperplasia of venous bypass grafts

AIMS
Despite the lower patency of venous compared with arterial coronary artery bypass grafts, approximately 50% of grafts used are saphenous vein conduits because of their easier accessibility. In a search for ways to increase venous graft patency, we applied the results of a previous pharmacological study screening for non-toxic compounds that inhibit intimal hyperplasia of saphenous vein conduits in organ cultures. Here we analyse the effects and mechanism of action of leoligin [(2S,3R,4R)-4-(3,4-dimethoxybenzyl)-2-(3,4-dimethoxyphenyl)tetrahydrofuran-3-yl]methyl (2Z)-2-methylbut-2-enoat, the major lignan from Edelweiss (Leontopodium alpinum Cass.).


METHODS AND RESULTS
We found that leoligin potently inhibits vascular smooth muscle cell (SMC) proliferation by inducing cell cycle arrest in the G1-phase. Leoligin induced cell death neither in SMCs nor, more importantly, in endothelial cells. In a human saphenous vein organ culture model for graft disease, leoligin potently inhibited intimal hyperplasia, and even reversed graft disease in pre-damaged vessels. Furthermore, in an in vivo mouse model for venous bypass graft disease, leoligin potently inhibited intimal hyperplasia.


CONCLUSION
Our data suggest that leoligin might represent a novel non-toxic, non-thrombogenic, endothelial integrity preserving candidate drug for the treatment of vein graft disease.
MPPT and output voltage control of Photovoltaic systems using a Single-Switch DC-DC converter

This paper presents the simultaneous Maximum Power Point Tracking (MPPT) and output voltage regulation of a stand-alone Photovoltaic-battery-load power system, based on a Single-Switch DC-DC converter. In the literature, the well-known two-stage buck converter cascaded with a buck-boost one is mentioned as the most suitable non-isolated DC-DC converter for such a Photovoltaic (PV) system. Based on an unified approach to develop Single-Stage power converters, we propose to use an equivalent Single Switch Converter (SSC) for the studied PV system, thus increasing its reliability and decreasing the overall system cost, thanks to the reduced number of switches. In the same spirit, the MPPT algorithm has been chosen among the most used ones. The Perturb and Observe (P&O) algorithm appears as the best compromise, performing good tracking factor, simple implementation and satisfactory accuracy. The resulting PV system has been modeled and simulated; the results confirm the effectiveness and the robustness of the simultaneous MPPT and output voltage regulation.
Medical decisions concerning the end of life: a discussion with Japanese physicians.

OBJECTIVES
Life-sustaining treatment at the end of life gives rise to many ethical problems in Japan. Recent surveys of Japanese physicians suggested that they tend to treat terminally ill patients aggressively. We studied why Japanese physicians were reluctant to withhold or withdraw life-support from terminally ill patients and what affected their decisions.


DESIGN AND PARTICIPANTS
A qualitative study design was employed, using a focus group interview with seven physicians, to gain an in-depth understanding of attitudes and rationales in Japan regarding medical care at the end of life.


RESULTS
Analysis revealed that physicians and patients' family members usually make decisions about life-sustaining treatment, while the patients' wishes are unavailable or not taken into account. Both physicians and family members tend to consider withholding or withdrawing life-sustaining treatment as abandonment or even killing. The strongest reason to start cardiopulmonary resuscitation- and to continue it until patients' family members arrive-seems to be the family members' desire to be at the bedside at the time of death. All physicians participating in our study regarded advance directives that provide information as to patients' wishes about life-sustaining treatment desirable. All expressed concern, however, that it would be difficult to forego or discontinue life-support based on a patient's advance directive, particularly when the patient's family opposed the directive.


CONCLUSION
Our group interview suggested several possible barriers to death with dignity and the appropriate use of advance directives in Japan. Further qualitative and quantitative research in this regard is needed.
Two new high-performance cycles for gas turbine with air bottoming

The objective of this research is to model steam injection in the gas turbine with Air Bottoming Cycle (ABC). Based on an exergy analysis, a computer program has been developed to investigate improving the performance of an ABC cycle by calculating the irreversibility in the corresponding devices of the system. In this study, we suggest two new cycles where an air bottoming cycle along with the steam injection are used. These cycles are: the Evaporating Gas turbine with Air Bottoming Cycle (EGT-ABC), and Steam Injection Gas turbine with Air Bottoming Cycle (STIG-ABC). The results of the model show that in these cycles, more energy recovery and higher air inlet mass flow rate translate into an increase of the efficiency and output turbine work. The EGT-ABC was found to have a lower irreversibility and higher output work when compared to the STIG-ABC. This is due to the fact that more heat recovery in the regenerator in the EGT-ABC cycle results in a lower exhaust temperature. The extensive modeling performed in this study reveals that, at the same up-cycle pressure ratio and turbine inlet temperature (TIT), a higher overall efficiency can be achieved for the EGT-ABC cycle. 2010 Elsevier Ltd. All rights reserved.
Staging and response assessment in lymphomas: the new Lugano classification.

Staging and response criteria were initially developed for Hodgkin lymphoma (HL) over 60 years ago, but not until 1999 were response criteria published for non-HL (NHL). Revisions to these criteria for both NHL and HL were published in 2007 by an international working group, incorporating PET for response assessment, and were widely adopted. After years of experience with these criteria, a workshop including representatives of most major international lymphoma cooperative groups and cancer centers was held at the 11(th) International Conference on Malignant Lymphoma (ICML) in June, 2011 to determine what changes were needed. An Imaging Task Force was created to update the relevance of existing imaging for staging, reassess the role of interim PET-CT, standardize PET-CT reporting, and to evaluate the potential prognostic value of quantitative analyses using PET and CT. A clinical task force was charged with assessing the potential of PET-CT to modify initial staging. A subsequent workshop was help at ICML-12, June 2013. Conclusions included: PET-CT should now be used to stage FDG-avid lymphomas; for others, CT will define stage. Whereas Ann Arbor classification will still be used for disease localization, patients should be treated as limited disease [I (E), II (E)], or extensive disease [III-IV (E)], directed by prognostic and risk factors. Since symptom designation A and B are frequently neither recorded nor accurate, and are not prognostic in most widely used prognostic indices for HL or the various types of NHL, these designations need only be applied to the limited clinical situations where they impact treatment decisions (e.g., stage II HL). PET-CT can replace the bone marrow biopsy (BMBx) for HL. A positive PET of bone or bone marrow is adequate to designate advanced stage in DLBCL. However, BMBx can be considered in DLBCL with no PET evidence of BM involvement, if identification of discordant histology is relevant for patient management, or if the results would alter treatment. BMBx remains recommended for staging of other histologies, primarily if it will impact therapy. PET-CT will be used to assess response in FDG-avid histologies using the 5-point scale, and included in new PET-based response criteria, but CT should be used in non-avid histologies. The definition of PD can be based on a single node, but must consider the potential for flare reactions seen early in treatment with newer targeted agents which can mimic disease progression. Routine surveillance scans are strongly discouraged, and the number of scans should be minimized in practice and in clinical trials, when not a direct study question. Hopefully, these recommendations will improve the conduct of clinical trials and patient management.
Report on Diophantine approximations

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Antioxidant, Anti-inflammatory, and Antiulcer Potential of Manuka Honey against Gastric Ulcer in Rats

Gastric ulcers are among the most common diseases affecting humans. This study aimed at investigating the gastroprotective effects of manuka honey against ethanol-induced gastric ulcers in rats. The mechanism by which honey exerts its antiulcer potential was elucidated. Four groups of rats were used: control, ethanol (ulcer), omeprazole, and manuka honey. Stomachs were examined macroscopically for hemorrhagic lesions in the glandular mucosa, histopathological changes, and glycoprotein detection. The effects of oxidative stress were investigated using the following indicators: gastric mucosal nitric oxide (NO), reduced glutathione (GSH), lipid peroxide (MDA, measured as malondialdehyde) glutathione peroxidase (GPx), superoxide dismutase (SOD), and catalase. Plasma tumour necrosis factor-α, interleukin-1β, and IL-6 were also measured. Manuka honey significantly decreased the ulcer index, completely protected the mucosa from lesions, and preserved gastric mucosal glycoprotein. It significantly increased gastric mucosal levels of NO, GSH, GPx, and SOD. Manuka honey also decreased gastric mucosal MDA and plasma TNF-α, IL-1β, and IL-6 concentrations. In conclusion, manuka honey likely exerted its antiulcer, effect by keeping enzymatic (GPx and SOD) and nonenzymatic (GSH and NO) antioxidants as well as inflammatory cytokines (TNF-α, IL-1β, and IL-6) in a reduced form, inhibited lipid peroxidation (MDA), and preserved mucous glycoproteins levels.