bluuebunny/crossref_metadata_2025_split huggingface dataset:
Pax Nigeriana and the Responsibility to Protect
Authors: Adebajo Adekeye 
Published: October 2010

AbstractThe essay traces the roots of R2P in African political thought—through individuals such as Kenya's Ali Mazrui, Ghana's Kwame Nkrumah, Tanzania's Salim Ahmed Salim, South Africa's Nelson Mandela and abo Mbeki, and Egypt's Boutros Boutros-Ghali— and considers the bid by West Africa's regional hegemon, Nigeria, to play a leadership role on the continent in relation to the norm. It argues that the regional West African giant has exhibited a 'missionary zeal' in assuming the role of a benevolent 'older brother' responsible for protecting younger siblings—whether these are Nigeria's immediate neighbours, fellow Africans, or black people in the African Diaspora. Without Nigeria's military support and economic and political clout, the ECOWAS Ceasefire Monitoring Group (ECOMOG)—which intervened in civil wars in Liberia and Sierra Leone in the 1990s—would simply not have existed. Despite the lack of a clearly agreed UN or pan-African mandate, Nigeria's interventions - under the auspices of ECOMOG - effectively operationalised R2P in the region and eventually won continental and international support. However, Nigeria's recent foreign adventures have often been launched in the face of strong domestic opposition and a failure by military and civilian regimes to apply R2P domestically. The essay concludes by considering Nigeria's need to build a stable democracy and promote effective regional integration, if it wishes to benefit from its peacekeeping successes in the region and pursue a continued leadership role in relation to R2P.
Probing Perceptual Antinomies with the Watercolor Illusion and Explaining How the Brain Resolves Them
Authors: Pinna Baingio , Tanca Maria , Grossberg Stephen 
Published: October 2010

AbstractThe purpose of this work is to study how the brain solves perceptual antinomies, induced by the watercolor illusion in the color and in the figure–ground segregation domain, when they are present in different parts of the same object. The watercolor illusion shows two main effects: a long-range coloration and an object–hole effect across large enclosed areas (Pinna, 1987, 2005, 2008a, b; Pinna and Grossberg, 2005; Pinna et al., 2001). This illusion strongly enhances the unilateral belongingness of the boundaries (Rubin, 1915) determining grouping and figure–ground segregation more strongly than the well-known Gestalt principles. Due to the watercolor illusion, both the figure and the background assume new properties becoming, respectively, a bulging object and a hole both with a 3-D volumetric appearance (object–hole effect). When the coloration and the object–hole effects induced by the watercolor illusion are opposite (antinomic) within different portions of the same shape, some questions emerge: Do the antinomies split the shape in two parts (a half shape appears as an object and the other half as a hole) or are they solved through a new emergent perceptual result beyond the single effects? Is there a predominance of one component over the other that is less visible or totally invisible? What is perceptible and what is invisible? Is there a wholeness process under conditions where perceptual antinomies coexist? By imparting motion to a watercolored object that gradually should become a hole while overlapping another object placed behind, is the wholeness of the watercolor object weakened or reorganized in a new way? The results of phenomenological experiments suggested that the antinomies tend to be solved through two complement processes of phenomenal wholeness and partialness. These processes are explained in the light of the FACADE neural model of 3-D vision and figure–ground separation (Grossberg, 1994, 2003), notably of how complementary cortical boundary and surface representations interact with spatial attention to generate conscious percepts of 3-D form and motion.
On the creation of future probabilistic design weather years from UKCP09
Authors: Eames M. , Kershaw T. , Coley D. 
Published: October 2010

Weather data are used extensively by building scientists and engineers to study the performance of their designs, help compare design alternatives and ensure compliance with building regulations. Given a changing climate, there is a need to provide data for future years so that practising engineers can investigate the impact of climate change on particular designs and examine any risk the commissioning client might be exposed to. In addition, such files are of use to building scientists in developing generic solutions to problems such as elevated internal temperatures and poor thermal comfort. With the publication of the UK Climate Projections (UKCP09) such data can be created for future years up to 2080 and for various probabilistic projections of climate change by the use of a weather generator. Here, we discuss a method for the creation of future probabilistic reference years for use within thermal models. In addition, a comparison is made with the current set of future weather years based on the UKCIP02 projections. When used within a dynamic thermal simulation of a building, the internal environments created by the current set of future weather files lie within the range of the internal environments created by the probabilistic reference years generated by the weather generator. Hence, the main advantages of the weather generator are seen to lie in its potentially greater spatial resolution, its ability to inform risk analysis and that such files, unlike ones based on observed data, carry no copyright. Practical applications: The methodology presented in this article will allow academics and buildings engineers to create realistic hourly future weather files using the future climate data of UKCP09 weather generator. This will allow the creation of consistent future weather years for use in areas such as building thermal simulation.
The creation of wind speed and direction data for the use in probabilistic future weather files
Authors: Eames M. , Kershaw T. , Coley D. 
Published: October 2010

Pseudo weather data with a high temporal resolution are of use in many fields including the modelling of agricultural systems, the placement of wind turbines and building thermal simulations. With the publication of the 2009 UK Climate Projections (UKCP09) such data can be created for future years and for various predictions of climate change. Unfortunately such — UKCP09 — data does not include information about wind speed or direction due to a lack of robustness. Here we demonstrate a methodology for generating such wind data on an hourly time grid from a consideration of the potential evapotranspiration reported by the UKCP09 weather generator and information related to the correlation between observed wind speed, direction and time of year. We find our pseudo wind data is consistent with the historic observed wind. Furthermore, when used within a dynamic thermal simulation of a building, the use of such pseudo wind data generates a consistent internal environment in terms of ventilation rates, temperatures and energy use that is indistinguishable from simulations completed using historic observed weather for both single-sided and cross-ventilated buildings. Practical applications: The methodology presented in this paper will allow academics and building engineers to create realistic hourly wind speed and direction data for inclusion with the future climate data of UKCP09. This will allow the creation of consistent future weather years for use in areas such as building thermal simulation.
Fifteen-Year Outcome of Endoscopic Anterior Cruciate Ligament Reconstruction With Patellar Tendon Autograft for “Isolated” Anterior Cruciate Ligament Tear
Authors: Hui Catherine , Salmon Lucy J. , Kok Alison , Maeno Shinichi , Linklater James , Pinczewski Leo A. 
Published: October 2010

Background: Few studies report the long-term results of anterior cruciate ligament rupture and single-incision endoscopic reconstructive surgery. Outcomes are often clouded by concomitant meniscal, chondral, or ligament injuries. Purpose: To determine the 15-year outcomes of anterior cruciate ligament ruptures treated with endoscopic anterior cruciate ligament reconstruction using middle-third patellar tendon autograft. Study Design: Case series; Level of evidence, 4. Methods: Between January 1993 and April 1994, 333 consecutive patients underwent anterior cruciate ligament reconstruction. Patients with associated ligamentous injury requiring surgery, previous meniscectomy, or meniscal injury requiring more than one-third meniscectomy; chondral injury diagnosed at arthroscopy; and an abnormal contralateral knee were excluded. Ninety patients met the inclusion criteria. Outcomes included range of motion, Lachman and pivot-shift tests, instrumented ligament testing, single-legged hop test, Lysholm Knee Score, the International Knee Documentation Committee evaluation, and radiographic assessment. Results: Thirty percent of patients had further anterior cruciate ligament injury. Twenty-four percent of patients (n = 22) sustained contralateral anterior cruciate ligament ruptures, and 8% (n = 7) ruptured the graft ( P = .009). Graft rupture was associated with a graft inclination angle <17° ( P = .02). Contralateral anterior cruciate ligament rupture was associated with age <18 years at time of primary injury ( P = .001). All patients had normal or nearly normal (International Knee Documentation Committee evaluation) Lachman and instrumented testing, and 91% had a negative pivot-shift result. Seventy percent of patients had kneeling pain. Median subjective International Knee Documentation Committee evaluation was 91 of 100. Fifty-one percent of patients had radiographic evidence of osteoarthritis (41% grade B; 10% grade C). Conclusion: Good results are maintained at 15 years after surgery with respect to ligamentous stability, subjective outcomes, and range of motion. Kneeling pain remains a significant problem. Concern remains regarding the incidence of further anterior cruciate ligament injury and the increasing number of patients with radiographic and clinical signs of osteoarthritis despite surgical stabilization.
The Chondrogenic Potential of Mesenchymal Cells and Chondrocytes from Osteoarthritic Subjects
Authors: Agar Gabriel , Blumenstein Sara , Bar-Ziv Yaron , Kardosh Rami , Schrift-Tzadok Michal , Gal-Levy Ronit , Fischler Tali , Goldschmid Revital , Yayon Avner 
Published: October 2010

Objective: The multipotential nature of stem or progenitor cells apparently makes them the ideal choice for any cell therapy, but this as yet remains to be proven. This study (30 subjects) was designed to compare the potential to repair articular cartilage of chondrocytes taken from different regions in osteoarthritic cartilage with that of mesenchymal stem cells prepared from bone marrow of the same subject. Design: Cartilage biopsies, bone marrow, and blood samples were taken from each of 30 individuals with chronic osteoarthritis (aged 62-85 years) undergoing total knee replacement. The chondrogenic potential of chondrocytes isolated from cartilage biopsies taken from different regions of osteoarthritic cartilage was compared with that of mesenchymal cells by quantitative analysis of several chondrocyte specific markers and an ex vivo cartilage differentiation assay. Results: Cartilage-derived articular chondrocytes are superior to bone marrow–derived cells when compared for their ex vivo chondrogenic potential. Interestingly, there was marked and significant difference in the expression of chondrocytic markers between chondrocytes derived from adjacent, visually distinct regions of the diseased cartilage. When cultured in the presence of a fibroblast growth factor 2 variant, all cell samples from both tissues showed a high degree of chondrogenic potential. Conclusions: Although bone marrow–derived mesenchymal cells, when supplemented with the appropriate chondrogenic factors, are a suitable source for autologous cartilage implantation, adult chondroprogenitor cells, particularly those from moderately affected regions of the osteoarthritic joints, demonstrate superior chondrogenic potential.
Comparative Analyses of the Secretome from Dedifferentiated and Redifferentiated Adult Articular Chondrocytes
Authors: Polacek Martin , Bruun Jack-Ansgar , Johansen Oddmund , Martinez Inigo 
Published: October 2010

Objective: The main goal of this study was to compare the secretion products derived from human articular chondrocytes established in either long-term monolayer cultures or in scaffold-free 3-dimensional (3-D) cultures. Methods: Stable isotope labeling of amino acids in cell culture (SILAC) was applied to investigate quantitatively the differences between proteins secreted from dedifferentiated and redifferentiated chondrocytes. Proteins in cell supernatants were resolved by 1-D gel electrophoresis and analyzed by mass spectrometry. The results from the proteomic analyses were validated by immunoblotting. Additionally, antibody arrays were used to screen culture supernatants for 79 different morphogens. Results: Quantitative SILAC showed that some relevant growth factors such as CTGF or GAS6 were elevated in monolayers, along with proteins characteristic of a dedifferentiated phenotype such as collagen type I and tenascin. In spheroids, data showed overexpression of some cartilage-specific proteins such as aggrecan, together with important matrix regulators such as chitinase-3–like protein and stromelysin-1. Antibody arrays revealed that chondrocytes in monolayer secrete higher levels of leukocyte-activating agents such as MCP-1 and GRO, whereas the spheroid configuration favors the production of cell morphogens such as MCSF and VEGF. Conclusion: Our results show that some classic dedifferentiation and redifferentiation markers are differentially expressed in 2-D or 3-D culture configurations. Other cell/matrix regulatory molecules are also found to be differentially expressed by chondrocytes in 2-D and 3-D conditions by SILAC and antibody arrays. Our data bring new information for understanding the biology of chondrocytes in general and the process of cartilage tissue reconstruction in particular.
Characterization of a rare IL-10–competent B-cell subset in humans that parallels mouse regulatory B10 cells
Authors: Iwata Yohei , Matsushita Takashi , Horikawa Mayuka , DiLillo David J. , Yanaba Koichi , Venturi Guglielmo M. , Szabolcs Paul M. , Bernstein Steven H. , Magro Cynthia M. , Williams Armistead D. , Hall Russell P. , St Clair E. William , Tedder Thomas F. 
Published: October 2010

AbstractRegulatory B cells control inflammation and autoimmunity in mice, including the recently identified IL-10–competent B10 cell subset that represents 1% to 3% of spleen B cells. In this study, a comparable IL-10–competent B10 cell subset was characterized in human blood. B10 cells were functionally identified by their ability to express cytoplasmic IL-10 after 5 hours of ex vivo stimulation, whereas progenitor B10 (B10pro) cells required 48 hours of in vitro stimulation before they acquired the ability to express IL-10. B10 and B10pro cells represented 0.6% and approximately 5% of blood B cells, respectively. Ex vivo B10 and B10pro cells were predominantly found within the CD24hiCD27+ B-cell subpopulation that was able to negatively regulate monocyte cytokine production through IL-10–dependent pathways during in vitro functional assays. Blood B10 cells were present in 91 patients with rheumatoid arthritis, systemic lupus erythematosus, primary Sjögren syndrome, autoimmune vesiculobullous skin disease, or multiple sclerosis, and were expanded in some cases as occurs in mice with autoimmune disease. Mean B10 + B10pro-cell frequencies were also significantly higher in patients with autoimmune disease compared with healthy controls. The characterization of human B10 cells will facilitate their identification and the study of their regulatory activities during human disease.
Translocation t(14;16) and multiple myeloma: is it really an independent prognostic factor?
Authors: Avet-Loiseau Hervé , Malard Florent , Campion Loic , Magrangeas Florence , Sebban Catherine , Lioure Bruno , Decaux Olivier , Lamy Thierry , Legros Laurence , Fuzibet Jean-Gabriel , Michallet Mauricette , Corront Bernadette , Lenain Pascal , Hulin Cyrille , Mathiot Claire , Attal Michel , Facon Thierry , Harousseau Jean-Luc , Minvielle Stephane , Moreau Philippe ,   for the Intergroupe Francophone du Myélome
Published: October 2010

Abstract
Many trials in myeloma are stratified on cytogenetic abnormalities. Among them, the most commonly chosen are the t(4;14), the del(17p), and the t(14;16). If data are well established for t(4;14) and del(17p), very few data support the use of t(14;16). To address this issue, we retrospectively analyzed 1003 patients with newly diagnosed myeloma for this abnormality. We identified 32 patients with the t(14;16). Compared with patients lacking the t(14;16), we did not observe any difference in overall survival (P = .28). Moreover, in multivariate analyses, the t(14;16) was not prognostic (P = .39). In conclusion, our data do not support the use of t(14;16)-specific probes in the diagnostic panels of multiple myeloma.
Analysis of X-ray Structures of Matrix Metalloproteinases via Chaotic Map Clustering
Authors: Giangreco Ilenia , Nicolotti Orazio , Carotti Angelo , De Carlo Francesco , Gargano Gianfranco , Bellotti Roberto 
Published: October 2010

Abstract

Background
Matrix metalloproteinases (MMPs) are well-known biological targets implicated in tumour progression, homeostatic regulation, innate immunity, impaired delivery of pro-apoptotic ligands, and the release and cleavage of cell-surface receptors. With this in mind, the perception of the intimate relationships among diverse MMPs could be a solid basis for accelerated learning in designing new selective MMP inhibitors. In this regard, decrypting the latent molecular reasons in order to elucidate similarity among MMPs is a key challenge.

Results
We describe a pairwise variant of the non-parametric chaotic map clustering (CMC) algorithm and its application to 104 X-ray MMP structures. In this analysis electrostatic potentials are computed and used as input for the CMC algorithm. It was shown that differences between proteins reflect genuine variation of their electrostatic potentials. In addition, the analysis has been also extended to analyze the protein primary structures and the molecular shapes of the MMP co-crystallised ligands.

Conclusions
The CMC algorithm was shown to be a valuable tool in knowledge acquisition and transfer from MMP structures. Based on the variation of electrostatic potentials, CMC was successful in analysing the MMP target family landscape and different subsites. The first investigation resulted in rational figure interpretation of both domain organization as well as of substrate specificity classifications. The second made it possible to distinguish the MMP classes, demonstrating the high specificity of the S1' pocket, to detect both the occurrence of punctual mutations of ionisable residues and different side-chain conformations that likely account for induced-fit phenomena. In addition, CMC demonstrated a potential comparable to the most popular UPGMA (Unweighted Pair Group Method with Arithmetic mean) method that, at present, represents a standard clustering bioinformatics approach. Interestingly, CMC and UPGMA resulted in closely comparable outcomes, but often CMC produced more informative and more easy interpretable dendrograms. Finally, CMC was successful for standard pairwise analysis (i.e., Smith-Waterman algorithm) of protein sequences and was used to convincingly explain the complementarity existing between the molecular shapes of the co-crystallised ligand molecules and the accessible MMP void volumes.
A statistical approach to finding overlooked genetic associations
Authors: Rider Andrew K , Siwo Geoffrey , Chawla Nitesh V , Ferdig Michael , Emrich Scott J 
Published: October 2010

Abstract

Background
Complexity and noise in expression quantitative trait loci (eQTL) studies make it difficult to distinguish potential regulatory relationships among the many interactions. The predominant method of identifying eQTLs finds associations that are significant at a genome-wide level. The vast number of statistical tests carried out on these data make false negatives very likely. Corrections for multiple testing error render genome-wide eQTL techniques unable to detect modest regulatory effects.
We propose an alternative method to identify eQTLs that builds on traditional approaches. In contrast to genome-wide techniques, our method determines the significance of an association between an expression trait and a locus with respect to the set of all associations to the expression trait. The use of this specific information facilitates identification of expression traits that have an expression profile that is characterized by a single exceptional association to a locus.
Our approach identifies expression traits that have exceptional associations regardless of the genome-wide significance of those associations. This property facilitates the identification of possible false negatives for genome-wide significance. Further, our approach has the property of prioritizing expression traits that are affected by few strong associations. Expression traits identified by this method may warrant additional study because their expression level may be affected by targeting genes near a single locus.

Results
We demonstrate our method by identifying eQTL hotspots in Plasmodium falciparum (malaria) and Saccharomyces cerevisiae (yeast). We demonstrate the prioritization of traits with few strong genetic effects through Gene Ontology (GO) analysis of Yeast. Our results are strongly consistent with results gathered using genome-wide methods and identify additional hotspots and eQTLs.

Conclusions
New eQTLs and hotspots found with this method may represent regions of the genome or biological processes that are controlled through few relatively strong genetic interactions. These points of interest warrant experimental investigation.
CCRaVAT and QuTie - enabling analysis of rare variants in large-scale case control and quantitative trait association studies
Authors: Lawrence Robert , Day-Williams Aaron G , Elliott Katherine S , Morris Andrew P , Zeggini Eleftheria 
Published: October 2010

Abstract

Background
Genome-wide association studies have been successful in finding common variants influencing common traits. However, these associations only account for a fraction of trait heritability. There has been a shift in the field towards studying low frequency and rare variants, which are now widely recognised as putative complex trait determinants. Despite this increasing focus on examining the role of low frequency and rare variants in complex disease susceptibility, there is a lack of user-friendly analytical packages implementing powerful association tests for the analysis of rare variants.

Results
We have developed two software tools, CCRaVAT (Case-Control Rare Variant Analysis Tool) and QuTie (Quantitative Trait), which enable efficient large-scale analysis of low frequency and rare variants. Both programs implement a collapsing method examining the accumulation of low frequency and rare variants across a locus of interest that has more power than single variant analysis. CCRaVAT carries out case-control analyses whereas QuTie has been developed for continuous trait analysis.

Conclusions
CCRaVAT and QuTie are easy to use software tools that allow users to perform genome-wide association analysis on low frequency and rare variants for both binary and quantitative traits. The software is freely available and provides the genetics community with a resource to perform association analysis on rarer genetic variants.