Miracle-dz/UniFAR-FTUs huggingface dataset:
Colitis Induced by Enteric Bacterial Antigen-Specific CD4+ T Cells Requires CD40-CD40 Ligand Interactions for a Sustained Increase in Mucosal IL-121

C3H/HeJBir is a mouse substrain that is highly susceptible to colitis. Their CD4+ T cells react to Ags of the commensal enteric bacteria, and the latter can mediate colitis when activated by these Ags and transferred to histocompatible scid recipients. In this study, multiple long-term C3H/HeJBir CD4+ T cell (Bir) lines reactive to commensal enteric bacterial Ags have been generated. All these were Ag specific, pauciclonal, and Th1 predominant; most induced colitis uniformly after transfer to scid recipients. Lesions were focal and marked by increased expression of IL-12p40 and IFN-γ mRNA and protein. Pathogenic Bir T cell lines expressed CD40 ligand (CD40L) when cultured with Ag-pulsed APCs in vitro. Production of IL-12 was also increased in such cultures, an effect that was Ag- and T cell-dependent and required costimulation by CD40, but not by B7. The two Bir T cell lines that did not induce lesions after transfer failed to significantly express CD40L or increase IL-12 when cultured with Ag-pulsed APCs. Administration of anti-CD40L blocked disease expression induced by pathogenic T cells. We conclude that interactions in the colon mucosa between CD40L-expressing Bir Th1 cells with APCs endogenously loaded with commensal bacterial Ags are critical for sustained increases in local IL-12 production and progression to colitis.
Automatic categorization of figures in scientific documents

Figures are very important non-textual information contained in scientific documents. Current digital libraries do not provide users tools to retrieve documents based on the information available within the figures. We propose architecture for retrieving documents by integrating figures and other information. The initial step in enabling integrated document search is to categorize figures into a set of pre-defined types. We propose several categories of figures based on their functionalities in scholarly articles. We have developed a machine-learning-based approach for automatic categorization of figures. Both global features, such as texture, and part features, such as lines, are utilized in the architecture for discriminating among figure categories. The proposed approach has been evaluated on a testbed document set collected from the CiteSeer scientific literature digital library. Experimental evaluation has demonstrated that our algorithms can produce acceptable results for real- world use. Our tools can be integrated into a scientific-document digital library
Involvement of glutamine, arginine, and polyamines in the action of ornithine α‐ketoglutarate on macrophage functions in stressed rats

The ability of ornithine α‐ketoglutarate (OKG) to enhance macrophage cytotoxicity in stress situations has been described, but the mechanisms involved remain unclear. It is known that OKG administration generates glutamine (GLN), arginine (ARG), and polyamines. This study will (1) evaluate the effect of OKG on tumor necrosis factor α (TNF‐α) secretion and nitric oxide (NO) production in macrophages from glucocorticoid (DEX)‐treated rats, and determine whether these effects can be reproduced by GLN or ARG supplementations, and (2) use in vivo metabolic inhibitors methionine sulfoximine (inhibitor of GLN synthetase), S‐methylthiourea (inhibitor of inducible nitric oxide synthase), and difluoromethylornithine (inhibitor of ornithine decarboxylase) to assess the roles of GLN, ARG, and polyamines in OKG action. Controls a mixture of nonessential amino acids (NEAA). GLN, ARG, and OKG all restored TNF‐α secretion by macrophages of glucocorticoid‐treated rats. The same results were obtained with GLN and ARG supplementation. However, the use of inhibitors clearly showed that OKG does not modulate TNF‐α secretion by GLN, ARG, or polyamine pathways. We also observed that OKG enhanced NO release by stimulated macrophages (DEX‐OKG, 1.77 ± 0.64 vs. DEX‐NEAA, 0.29 ± 0.29 nmol/106 cells, P < 0.05). Using inhibitors, it appears that this action of OKG is probably mediated via polyamine synthesis and GLN. However, an oral administration of an equimolar amount of GLN failed to reproduce the OKG‐mediated effect, possibly because OKG generates more GLN in the systemic circulation than GLN itself when these substances are given orally. Our results underline the complexity of the mechanism of action of OKG, which can differ according to the functions of even a single cell type. J. Leukoc. Biol. 67: 834–840; 2000.
The Equatorial Undercurrent and Its Origin in the Region Between Mindanao and New Guinea

Herein, the spatial characteristics of the Equatorial Undercurrent (EUC) in the region between Mindanao and New Guinea and the origins of the EUC and the North Equatorial Countercurrent (NECC) were investigated using a combination of high-resolution Argo hydrographic data and numerical modeling. The Mindanao Current (MC) results in the formation of a strong EUC-depth eastward current that splits into two branches near the Halmahera Eddy west of 132 degrees E, with one branch directly flowing eastward without experiencing the Halmahera Eddy rotation effect, and the other branch flowing southwestward and then turning northeastward. The EUC and NECC were difficult to distinguish between 132 degrees E and 136 degrees E, since the former combined with the latter to form a continuous equator-tilted current. At similar to 137 degrees E, the EUC axis started turning toward the equator, and an isolated EUC core was observed at 143 degrees E and similar to 200-m depth. The Pacific EUC was shown to originate at similar to 130 degrees E, where it featured an isolated current core with a maximum velocity of 5-10cm/s at similar to 1 degrees N and 200- to 400-m depth. The EUC and NECC in the western tropical Pacific were found to have the same water sources, namely, the MC and the New Guinea Coastal Undercurrent, with the shallow parts (centered at similar to 100-m depth) of MC and New Guinea Coastal Undercurrent finally reaching the NECC and their deeper parts (centered at similar to 200-m depth) finally reaching the EUC.
Periodontal status of patients with reduced immunocapacity.

The periodontal status of patients with reduced immunocapacity was assessed. Gingival inflammation, periodontal destruction, and plaque accumulation were compared in three groups--renal transplant patients, dialysis patients, and normal individuals. The levels of all parameters were similar in the three groups indicating that immunosuppression does not affect the clinical appearance of periodontal disease when measurements are made in a single examination. In the transplant group, however, there is a lack of correlation between P.I. and G.I. and between P.I. and P.D. I. , indicating a dissociation between plaque accumulation and the tissue response. Long-term longitudinal studies of periodontal disease in such patients are needed in order to obtain more meaningful information on the role of the immune system in affecting the rate of periodontal destruction. This study suggests that nonimmune mechanisms such as the direct effect of bacterial products on supporting tissues can account for at least some of the clinical manifestations of periodontal disease.
Tumblr Blog Recommendation with Boosted Inductive Matrix Completion

Popular microblogging sites such as Tumblr have attracted hundreds of millions of users as a content sharing platform, where users can create rich content in the form of posts that are shared with other users who follow them. Due to the sheer amount of posts created on such services, an important task is to make quality recommendations of blogs for users to follow. Apart from traditional recommender system settings where the follower graph is the main data source, additional side-information of users and blogs such as user activity (e.g., like and reblog) and rich content (e.g., text and images) are also available to be exploited for enhanced recommendation performance. In this paper, we propose a novel boosted inductive matrix completion method (BIMC) for blog recommendation. BIMC is an additive low-rank model for user-blog preferences consisting of two components; one component captures the low-rank structure of follow relationships and the other captures the latent structure using side-information. Our model formulation combines the power of the recently proposed inductive matrix completion (IMC) model (for side-information) together with a standard matrix completion (MC) model (for low-rank structure). Furthermore, we utilize recently developed deep learning techniques to obtain semantically rich feature representations of text and images that are incorporated in BIMC. Experiments on a large-scale real-world dataset from Tumblr illustrate the effectiveness of the proposed BIMC method.
MÜŞTERİLERİN INTERNET BANKACİLİĞİNİ KULLANMASINI ETKİLEYEN FAKTÖRLER: KAYSERİ İLİNDE BİR UYGULAMA

Arastirmada, musterilerin, internet bankaciligini kullanmasini etkileyen faktorler incelenmistir. Arastirma kapsaminda, once mevcut literatur ozetlenmis, sonrasinda Kayseri’deki tuketicilerin, internet bankaciligini kullanmasini etkileyen faktorleri belirleme amaciyla bir anket uygulamasi yapilmistir. Arastirma sonuclarina gore, internet bankaciligini tercih edenler, genellikle daha genc, yuksek egitimli ve yuksek gelir seviyesine sahip insanlardan olusmaktadir. Internet bankaciliginin tercih edilmesi icin bir cok neden vardir ve bu nedenlerin hemen hepsi, ornek kutle tarafindan onemli olarak algilanmaktadir. Internet bankaciliginin kullanimina engel olarak ise, sadece riskli oldugu seklindeki algilama ve bilgi eksikligi konulan gorulmektedir. Aynca internet baglantisi olanlann ve interneti daha sik kullananlarin internet bankaciligini cok daha yuksek oranlarda tercih etmeleri, internet kullaniminin yayginlasmasiyla internet bankaciliginin kullaniminin da giderek artacagi seklinde degerlendirilebilir
Arboreal Clambering and the Evolution of Self-Conception

A fundamentally new psychology related to the ability to conceive of limited aspects of the self may have envolved in the ancestor of the great ape/human clade. Existing models of the evolution of primate intelligence do not provide an adequate explanation of the apparent restriction of this phenomenon. We propose that the capacity for self-conception envolved as a psychological mechanims enabling large-bodied, highly arboreal apes to cope with problems posed by the need to negotiate their way through a habitat that was fragile due to their body size. First, we briefly outline the case for believing that a new psychology related to self-conception envolved during the Miocene in the ancestor of the great ape/human clade. Next, we examine the existing models of the evolution of primate intelligence and assess their ability to account for the evolution of self-conception. Finally, we offer details of our alternative model, along with a series of predictions that can be derived from it.
Visual business recognition: a multimodal approach

In this paper we investigate a new problem called visual business recognition. Automatic identification of businesses in images is an interesting task with plenty of potential applications especially for mobile device users. We propose a multimodal approach which incorporates business directories, textual information, and web images in a unified framework. We assume the query image is associated with a coarse location tag and utilize business directories for extracting an over complete list of nearby businesses which may be visible in the image. We use the name of nearby businesses as search keywords in order to automatically collect a set of relevant images from the web and perform image matching between them and the query. Additionally, we employ a text processing method customized for business recognition which is assisted by nearby business names; we fuse the information acquired from image matching and text processing in a probabilistic framework to recognize the businesses. We tested the proposed algorithm on a challenging set of user-uploaded and street view images with promising results for this new application.
Temporal Analysis of Sucrose-induced Phosphorylation Changes in Plasma Membrane Proteins of Arabidopsis*S

Sucrose is the main product of photosynthesis and the most common transport form of carbon in plants. In addition, sucrose is a compound that serves as a signal affecting metabolic flux and development. Here we provide first results of externally induced phosphorylation changes of plasma membrane proteins in Arabidopsis. In an unbiased approach, seedlings were grown in liquid medium with sucrose and then depleted of carbon before sucrose was resupplied. Plasma membranes were purified, and phosphopeptides were enriched and subsequently analyzed quantitatively by mass spectrometry. In total, 67 phosphopeptides were identified, most of which were quantified over five time points of sucrose resupply. Among the identified phosphorylation sites, the well described phosphorylation site at the C terminus of plasma membrane H+-ATPases showed a relative increase in phosphorylation level in response to sucrose. This corresponded to a significant increase of proton pumping activity of plasma membrane vesicles from sucrose-supplied seedlings. A new phosphorylation site was identified in the plasma membrane H+-ATPase AHA1 and/or AHA2. This phosphorylation site was shown to be crucial for ATPase activity and overrode regulation via the well known C-terminal phosphorylation site. Novel phosphorylation sites were identified for both receptor kinases and cytosolic kinases that showed rapid increases in relative intensities after short times of sucrose treatment. Seven response classes were identified including non-responsive, rapid increase (within 3 min), slow increase, and rapid decrease. Relative quantification of phosphorylation changes by phosphoproteomics provides a means for identification of fast responses to external stimuli in plants as a basis for further functional characterization.
A bidirectional relationship between depression and the autoimmune disorders – New perspectives from the National Child Development Study

Background Depression and the autoimmune disorders are comorbid—the two classes of disorders overlap in the same individuals at a higher frequency than chance. The immune system may influence the pathological processes underlying depression; understanding the origins of this comorbidity may contribute to dissecting the mechanisms underlying these disorders. Method We used population cohort data from the 1958 British birth cohort study (the National Child Development Study) to investigate the ages at onset of depression and 23 autoimmune disorders. We used self-report data to ascertain life-time history of depression, autoimmune disorders and their ages at onset. We modelled the effect of depression onset on subsequent autoimmune disorder onset, and vice versa, and incorporated polygenic risk scores for depression and autoimmune disorder risk. Results In our analytic sample of 8174 individuals, 315 reported ever being diagnosed with an autoimmune disorder (3.9%), 1499 reported ever experiencing depression (18.3%). There was significant comorbidity between depression and the autoimmune disorders (OR = 1.66, 95% CI = 1.27–2.15). Autoimmune disorder onset associated with increased subsequent hazard of depression onset (HR = 1.39, 95% CI = 1.11–1.74, P = 0.0037), independently of depression genetic risk. Finally, depression increased subsequent hazard of autoimmune disorder onset (HR = 1.40, 95% CI = 1.09–1.80, P = 0.0095), independently of autoimmune disorder genetic risk. Discussion Our results point to a bidirectional relationship between depression and the autoimmune disorders. This suggests that shared risk factors may contribute to this relationship, including both common environmental exposures that increase baseline inflammation levels, and shared genetic factors.
Comparison of the expression and activity of the lipogenic pathway in human and rat adipose tissue Published, JLR Papers in Press, August 1, 2003. DOI 10.1194/jlr.M300235-JLR200

Lipogenesis is considered less active in human than in rat adipose tissue. This could be explained by different nutritional conditions, namely high-carbohydrate (HCHO) diet in rats and high-fat (HF) diet in humans. Adipose tissue was sampled (postabsorptive state) in rats and humans receiving HCHO or HF diets, ad libitum fed humans, and obese subjects. We measured 1) mRNA concentrations of fatty acid synthase (FAS), acetyl-CoA carboxylase 1 (ACC1), sterol regulatory element binding protein 1c (SREBP-1c), and carbohydrate response element binding protein (ChREBP), 2) SREBP-1c protein, and 3) FAS activity. FAS, ACC1, ChREBP, and SREBP1-c mRNA concentrations were unaffected by diet in humans or in rats. FAS and ACC1 mRNA levels were lower in humans than in rats (P < 0.05). FAS activity was unaffected by diet and was lower in humans (P < 0.05). SREBP-1c mRNA concentrations were similar in rats and humans, but the precursor and mature forms of SREBP-1c protein were less abundant in humans (P < 0.05). ChREBP mRNA concentrations were lower in humans than in rats. In conclusion, the lipogenic capacity of adipose tissue is lower in humans than in rats. This is not related to differences in diet and is probably explained by lower abundance of SREBP-1c protein. A decreased expression of ChREBP could also play a role.
The clinical pattern of primary hyperoxaluria in pediatric patient at Queen Rania Abdulla Children Hospital.

INTRODUCTION: Hyperoxaluria is a metabolic disorder that can lead to end stage renal disease (ESRD). It can be either inherited or acquired. Primary hyperoxaluria (PHO) is more common and characterized by an excessive production of oxalate leading to recurrent urolithiasis and progressive nephrocalcinosis. Due to the high rate of consanguineous marriage in Jordan this disease is commonly diagnosed in pediatric nephrology clinics. We aimed to demonstrate the clinical pattern and progression to ESRD in pediatric patients with hyperoxaluria at Queen Rania Abdulla Children Hospital. METHODS: Medical records of all patients followed up in the pediatric nephrology clinic with the diagnosis of PHO during the period between September 2007 and March 2013 were reviewed. RESULTS: There were 70 patients with the diagnosis of PHO, 52.9% were males. The median age at presentation was 3 years ± 3 months with the youngest child being two months old. Diagnosis was made in the first year of life in 15.7% of patients. The most common presenting symptom was hematuria, while 14% of patients were asymptomatic and detected by family screening after the diagnosis of an index case. At the time of initial presentation, 15.7% of patients had ESRD and 25% had impaired renal function. Kidney stones were found in 57% of cases and nephrocalcinosis was found in 37%. CONCLUSION: High index of suspicion is needed to diagnose PHO in children presenting with kidney stone or unexplained hematuria. Twenty-four hour urine collection for oxalate are required to make the proper diagnosis. Family screening, when appropriate, is indicated for early detection of PHO.
Maternal Cardiovascular Risk Profile After Placental Abruption

The prevalence of premature cardiovascular diseases (CVD) is increased in women with a history of maternal placental syndromes, including pregnancy-associated hypertensive disorders (eg, preeclampsia), fetal growth restriction, and placental abruption. Whereas previous studies have shown a high prevalence of CVD risk factors after pregnancies complicated by preeclampsia, this has not been studied for women with a history of placental abruption. To explore the association of placental abruption with CVD risk factors after delivery, we compared 75 women with a history of placental abruption with a control group of 79 women with uneventful pregnancies at 6 to 9 months postpartum for the presence of common CVD risk factors. In a subanalysis, data were stratified according to the presence or absence of concomitant hypertensive disease and further adjusted for potential confounders. Women with previous placental abruption had significantly higher mean systolic blood pressure, body-mass index, fasting blood glucose, C-reactive protein, total cholesterol, high-density lipoprotein-cholesterol, and low-density lipoprotein-cholesterol as compared with controls with only uneventful pregnancies. In the subanalysis, all differences remained significant for women with a history of placental abruption only (ie, without concomitant gestational hypertension), except for the associations with low-density lipoprotein-cholesterol and diastolic and systolic blood pressure. Most likely, the identified CVD risk factors predispose to placental abruption and development of premature CVD later in life.
Towards an approach to sustain web services high-availability using communities of web services

Purpose – In any critical system, high‐availability of software components like web services has so far been achieved through replication. Three replication strategies known as active, passive, and hybrid, describe for example how many replicas are needed, where to locate replicas, and how replicas interact with the original web service and among themselves if needed. The purpose of this paper is to show how replicates could be substituted with components that are similarly functional to the component that needs back‐up in case of failure.Design/methodology/approach – After examination of the different existing replication strategies, it was decided to test the suitability of the proposed web services high‐availability approach based on communities for each strategy. To this end, the specification of web services using two behaviors, namely control and operational, was deemed appropriate.Findings – The active replication strategy is the only strategy that could support the development of a web services hi.
At Risk: Natural Hazards, People's Vulnerability and Disasters

Many disasters are a complex mix of natural hazards and human action. At Risk argues that the social, political and economic environment is as much a cause of disasters as the natural environment. Published within the International Decade of Natural Hazard Reduction, this book suggests ways in which both the social and natural sciences can be analytically combined through a 'disaster pressure and release' model. Arguing that the concept of vulnerability is central to an understanding of disasters and their prevention or mitigation, the authors explore the extent and ways in which people gain access to resources. Individual chapters apply analytical concepts to famines and drought, biological hazards, floods, coastal storms, and earthquakes, volcanos and landslides - the hazards that become disasters'. Finally, the book draws practical and policy conclusions to promote a safer environment and reduce vulnerability.