Miracle-dz/UniFAR-FTUs huggingface dataset:
Gene Expression in Spontaneous Experimental Autoimmune Encephalomyelitis Is Linked to Human Multiple Sclerosis Risk Genes

Recent genome-wide association studies have identified over 230 genetic risk loci for multiple sclerosis. Current experimental autoimmune encephalomyelitis (EAE) models requiring active induction of disease may not be optimally suited for the characterization of the function of these genes. We have thus used gene expression profiling to study whether spontaneous opticospinal EAE (OSE) or MOG-induced EAE mirrors the genetic contribution to the pathogenesis of multiple sclerosis more faithfully. To this end, we compared gene expression in OSE and MOG EAE models and analyzed the relationship of both models to human multiple sclerosis risk genes and T helper cell biology. We observed stronger gene expression changes and an involvement of more pathways of the adaptive immune system in OSE than MOG EAE. Furthermore, we demonstrated a more extensive enrichment of human MS risk genes among transcripts differentially expressed in OSE than was the case for MOG EAE. Transcripts differentially expressed only in diseased OSE mice but not in MOG EAE were significantly enriched for T helper cell-specific transcripts. These transcripts are part of immune-regulatory pathways. The activation of the adaptive immune system and the enrichment of both human multiple sclerosis risk genes and T helper cell-specific transcripts were also observed in OSE mice showing only mild disease signs. These expression changes may, therefore, be indicative of processes at disease onset. In summary, more human multiple sclerosis risk genes were differentially expressed in OSE than was observed for MOG EAE, especially in TH1 cells. When studying the functional role of multiple sclerosis risk genes and pathways during disease onset and their interactions with the environment, spontaneous OSE may thus show advantages over MOG-induced EAE.
Effect of Korean red ginseng on blood pressure and nitric oxide production.

AIM To investigate the effect of crude saponin and nonsaponin fraction of Korean red ginseng (KRG) on the blood pressure and nitric oxide (NO) production in the conscious rats and cultured endothelial cell line, ECV 304 cells. METHODS Systolic blood pressure and heart rate were monitored in the conscious rats. Nitric oxide levels and the expression of nitric oxide synthase were measured by a spectrophotometric assay using Griess reagents and Western blotting, respectively. Nitric-oxide synthase activity was measured based on the conversion rate of [3H]arginine to [3H]citrulline. RESULTS Systolic blood pressure was decreased by crude saponin (100 mg/kg, i.v.) of KRG in the conscious control and one-kidney, one-clip Goldblatt hypertensive (1K, 1C-GBH) rats. The hypotensive effect induced by crude saponin of KRG reached maximum at 2-4 min and slowly recovered after 20 min to the initial level in both groups. Crude saponin of KRG induced tachycardia in the conscious rats but induced bradycardia in the anesthetized rats. In contrast to crude saponin of KRG, hypotensive effect induced by saponin-free fraction was minimal. Nitric oxide concentrations were increased by the treatment of crude saponin in conscious rats as well as in the cultured ECV 304 cells. The protein expression level of endothelial constitutive nitric-oxide synthase (eNOS) in the aorta of rats was not increased by crude saponin (100 mg/kg, i.p. for 3 d). However, nitric-oxide synthase activity was increased by crude saponin of KRG in the aortic homogenate of rats. CONCLUSION The hypotensive effect of red ginseng is mainly due to saponin fraction of KRG in the conscious rats, and this effect may be due to an increase in the nitric-oxide production by KRG.
Vaccine induced autoimmune Insulin Dependent Diabetes Mellitus (IDDM) in children

Pharmaceutical companies and health agencies within the U.S. government assure medical consumers that vaccines are safe and the benefits far outweigh the risks. Yet the Food and Drug Administration (FDA) receives 11,000 reports of serious adverse reactions, including death, to vaccines annually. The FDA estimates that less than 10% of serious adverse events are reported. Grieving parents of otherwise healthy children who have died from unexplainable causes following mandatory vaccinations have rallied together forming advocacy groups questioning the safety of vaccines. In recent years the components of vaccines, some of which are known to be carcinogens and neurotoxins, and their unknown long-term effects on children, have many wondering if vaccines may be a contributing factor to the increase in chronic childhood illnesses. This review of the literature investigates the possible relationship between the increasing number of childhood vaccines and concomitant increase in incidence of insulin dependent diabetes mellitus in children throughout the world. The biological mechanisms involved in the human immune system are not fully understood. While the evidence remains inconclusive to accept or reject a causal relationship, the hypothesis is plausible and warrants further investigation.
Functional Replacement of the Mouse E2A Gene with a Human HEB cDNA

ABSTRACT The mammalian E2A, HEB, and E2-2 genes encode a unique class of basic helix-loop-helix (bHLH) transcription factors that are evolutionarily conserved and essential for embryonic and postnatal development. While the structural and functional similarities among the gene products are well demonstrated, it is not clear why deletion of E2A, but not HEB or E2-2, leads to a complete arrest in B-lymphocyte development. To understand the molecular basis of the functional specificity between E2A and HEB/E2-2 in mammalian development, we generated and tested a panel of E2A knockin mutations including subtle mutations in the E12 and E47 exons and substitution of both E12 and E47 exons with a human HEB cDNA. We find that the alternatively spliced E12 and E47 bHLH proteins of the E2A gene play similar and additive roles in supporting B lymphopoiesis. Further, we find that HEB driven by the endogenous E2A promoter can functionally replace E2A in supporting B-cell commitment and differentiation toward completion. Finally, the postnatal lethality associated with E2A disruption is fully rescued by the addition of HEB. This study suggests that the functional divergence among E12, E47, and HEB in different cell types is partially defined by the context of gene expression.
A review of studies on the effect of iron deficiency on cognitive development in children.

Studies on the effect of iron deficiency on children's cognition and behavior are selectively reviewed, looking for evidence of a causal relationship. Most correlational studies have found associations between iron-deficiency anemia and poor cognitive and motor development and behavioral problems. Longitudinal studies consistently indicate that children anemic in infancy continue to have poorer cognition, school achievement, and more behavior problems into middle childhood. However, the possible confounding effects of poor socioeconomic backgrounds prevent causal inferences from being made. In anemic children <2 y old, short-term trials of iron treatment have generally failed to benefit development. Most longer trials lacked randomized placebo groups and failed to produce benefits. Only one small randomized controlled trial (RCT) has shown clear benefits. It therefore remains uncertain whether the poor development of iron-deficient infants is due to poor social backgrounds or irreversible damage or is remediable with iron treatment. Similarly, the few preventive trials have had design problems or produced no or questionable benefits only. For children >2 y old, the evidence from RCT is reasonably convincing but not conclusive. RCT of iron treatment are warranted especially in younger children.
Mapping the montane landscape of Nikko area in Japan using ASTER images by integration of spectral and spatio-temporal information

This study explored the integration of spectral and spatio-temporal information, and investigated the contribution to landscape mapping of spatio-temporal information including DEM, slope, aspect, NDVI, ratio vegetation index, FVC by an example of Nikko montane area. The results demonstrated that spatio-temporal information could effectively improve the performance of montane landscape mapping. Finally, the quality landscape mapping of Nikko montane area in 2006 was achieved by an integration of spectral and spatio-temporal information with an overall accuracy of 83.42%.
Platelets and Metastasis: New Implications of an Old Interplay

During the process of hematogenous metastasis, tumor cells interact with platelets and their precursors megakaryocytes, providing a selection driver for the metastatic phenotype. Cancer cells have evolved a plethora of mechanisms to engage platelet activation and aggregation. Platelet coating of tumor cells in the blood stream promotes the successful completion of multiple steps of the metastatic cascade. Along the same lines, clinical evidence suggests that anti-coagulant therapy might be associated with reduced risk of metastatic disease and better prognosis in cancer patients. Here, we review experimental and clinical literature concerning the contribution of platelets and megakaryocytes to cancer metastasis and provide insights into the clinical relevance of anti-coagulant therapy in cancer treatment.
Strain-specific genes of Helicobacter pylori: distribution, function and dynamics.

Whole-genome clustering of the two available genome sequences of Helicobacter pylori strains 26695 and J99 allows the detection of 110 and 52 strain-specific genes, respectively. This set of strain-specific genes was compared with the sets obtained with other computational approaches of direct genome comparison as well as experimental data from microarray analysis. A considerable number of novel function assignments is possible using database-driven sequence annotation, although the function of the majority of the identified genes remains unknown. Using whole-genome clustering, it is also possible to detect species-specific genes by comparing the two H.pylori strains against the genome sequence of Campylobacter jejuni. It is interesting that the majority of strain-specific genes appear to be species specific. Finally, we introduce a novel approach to gene position analysis by employing measures from directional statistics. We show that although the two strains exhibit differences with respect to strain-specific gene distributions, this is due to the extensive genome rearrangements. If these are taken into account, a common pattern for the genome dynamics of the two Helicobacter strains emerges, suggestive of certain spatial constraints that may act as control mechanisms of gene flux.
Antimicrobial Susceptibility among Pathogens Collected from Hospitalized Patients in the United States and In Vitro Activity of Tigecycline, a New Glycylcycline Antimicrobial

ABSTRACT The activities of tigecycline and comparators against isolates collected from 76 U.S. centers between January 2004 and September 2005 were assessed. Tigecycline MIC90s were ≤2 μg/ml for Klebsiella pneumoniae, Klebsiella oxytoca, Escherichia coli, Enterobacter aerogenes, Enterobacter cloacae, Serratia marcescens, Acinetobacter baumannii, Staphylococcus aureus, Enterococcus faecalis, Enterococcus faecium, and Streptococcus agalactiae.
Comparison of higher order aberrations after LASIK and LASEK for myopia.

PURPOSE To compare the change in higher order aberrations (HOAs) after LASIK and laser epithelial keratomileusis (LASEK). METHODS This prospective comparative study measured HOAs preoperatively and 3 months postoperatively in 65 eyes (41 patients) that underwent LASIK and 65 eyes (50 patients) that underwent LASEK. Preoperative refraction was limited to myopia up to -5.00 diopters (D) and astigmatism <or=-0.75 D. Patients were matched for age, manifest refraction, and HOAs. All procedures were wavefront-guided using the VISX S4 Star excimer laser (Abbott Medical Optics). Laser in situ keratomileusis flap creation was performed with a Moria ONE Use-Plus disposable microkeratome creating a nasal hinge. Laser epithelial keratomileusis flap creation was performed with 18% v/v unpreserved ethanol instilled for 40 seconds. The epithelium was displaced with an epi-peeler, creating a 6- to 8-mm superior hinge. Higher order aberrations were measured with the NIDEK OPD-Scan II. RESULTS Statistically significant (P<.05) changes in five Zernike polynomial terms following LASIK ( Z4-4, Z40, Z44, Z5-3, Z60) were noted. There was a decrease in Zernike term Z5-3 and increases in the remaining four Zernike terms. Statistically significant changes in five Zernike polynomial terms following LASEK ( Z3-1, Z40, Z5-5, Z5-1, Z60) were noted. There was a decrease in Zernike term Z3-1 and increases in the remaining four Zernike terms. CONCLUSIONS Wavefront-guided LASIK and LASEK caused increases in spherical aberration, with LASIK additionally causing increases in two fourth order HOAs and LASEK additionally causing increases to two fifth order HOAs. As the same laser treatment was applied, it is presumed that the differences relate to the method of flap creation.
Prevalence and outcome of invasive fungal infections in 1,963 thoracic organ transplant recipients: a multicenter retrospective study. Italian Study Group of Fungal Infections in Thoracic Organ Transplant Recipients.

BACKGROUND Fungal infections (FI) after solid organ transplantation (Tx) remain a major cause of morbidity and mortality. Aspergillus and Candida account for more than 80% of FI. METHODS One thousand nine hundred and sixty-three patients undergoing thoracic organ Tx [1,852 heart and 111 lung (35 heart-lung Tx, 30 double-lung Tx, 46 single-lung Tx)] in 12 Italian Centers between November 1985 and January 1997 were included in the study. RESULTS Fifty-one patients (41 heart Tx - 2.2%; 9 heart-lung Tx - 25.7%; 1 single-lung Tx - 2.2%) developed 53 invasive FI at a median of 58 days (range 6-2479) after Tx. Aspergillosis was the most frequent FI in our series accounting for 64.1% (34/53) of all FI [A fumigatus, n=29 (85.3%); A nidulans, n=2 (5.9%); A niger, n=2 (5.9%); A terreus, n=1 (2.9%)]; 30 (88.2%) patients developed invasive lung aspergillosis, 2 (5.9%) a tracheobronchitis, 1 (2.9%) a skin infection, and 1 (2.9%) a sternal wound infection. Twelve patients (22.6%) developed candidiasis [C albicans, n=8 (66.6%); C krusei, n=1 (8.3%); C glabrata, n=1 (8.3%); C parapsilosis, n=1 (8.3%); C sake, n=1 (8.3%)]. There were seven episodes (58.3%) of candidemia, two (16.7%) esophagitis, two (16.7%) gastritis, and one (8.3%) tracheobronchitis. Mortality was 29.4% for patients developing aspergillosis and 33.3% for those experiencing candidiasis. Furthermore, four patients developed the following: one C neoformans meningitis, one Sporothrix cyanescens pneumonia, one Rhizopus spp. tracheobronchitis, and one Trichosporon beigelii disseminated infection. Three additional patients were diagnosed affected by deep mould infection by histology alone. CONCLUSIONS Deep-seated FI were relatively rare in our series, although their mortality rate is still very high.
Fc receptor is not required for inducing antibodies but plays a critical role in conferring protection after influenza M2 vaccination

The ectodomain of matrix protein 2 (M2e) of influenza virus is considered a rational target for a universal influenza A vaccine. To better understand M2e immune‐mediated protection, Fc receptor common γ chain deficient (FcRγ−/−) and wild‐type mice were immunized with a tandem repeat of M2e presented on virus‐like particles (M2e5x VLP). Levels of M2e‐specific antibodies that were induced in FcRγ−/− mice after immunization with M2e5x VLP were similar to those in wild‐type mice. In addition, M2e antibodies induced in FcRγ−/− mice were found to be equally protective as those induced in wild‐type mice. However, M2e5x VLP‐immunized FcRγ−/− mice were not well protected, as shown by severe weight loss, higher lung viral titres and interleukin‐6 inflammatory cytokine production upon influenza virus challenge compared with M2e5x VLP‐immunized wild‐type mice. Importantly, FcRγ−/− mice that were immunized with inactivated influenza virus induced haemagglutination inhibition activity and were well protected without a significant weight loss. Interestingly, interferon‐γ‐producing CD4 T and CD8 T cells were found to be prevalent in lungs from M2e5x VLP‐immunized FcRγ−/− mice, which appeared to be correlated with a faster recovery after infection. These results indicate that Fc receptors play a primary role in conferring M2e‐specific antibody‐mediated protection whereas T cells may contribute to the recovery at later stages of infection.
Food webs are more than the sum of their tritrophic parts

Many studies have aimed to understand food webs by investigating components such as trophic links (one consumer taxon eats one resource taxon), tritrophic interactions (one consumer eats an intermediate taxon, which eats a resource), or longer chains of links. We show here that none of these components (links, tritrophic interactions, and longer chains), individually or as an ensemble, accounts fully for the properties of the next higher level of organization. As a cell is more than its molecules, as an organ is more than its cells, and as an organism is more than its organs, in a food web, new structure emerges at every organizational level up to and including the whole web. We demonstrate the emergence of properties at progressively higher levels of structure by using all of the directly observed, appropriately organized, publicly available food web datasets with relatively complete trophic link data and with average body mass and population density data for each taxon. There are only three such webs, those of Tuesday Lake, Michigan, in 1984 and 1986, and Ythan Estuary, Scotland. We make the data freely available online with this report. Differences in web patterns between Tuesday Lake and Ythan Estuary, and similarities of Tuesday Lake in 1984 and 1986 despite 50% turnover of species, suggest that the patterns we describe respond to major differences between ecosystem types.
Analysis of Histological Heterogeneity in Renal Cell Carcinoma: Tumor Size‐Related Histological Change and its Prognostic Significance

Background: It is well recognized that the histology of renal cell carcinoma (RCC) is often heterogenous. It is also believed that the prognosis of patients with large tumors is generally poorer than those with small tumors. However, there has been no detailed study on changes in histological features of RCCs associated with tumor growth. This study was conducted to investigate whether there are any specific histological changes related to tumor size and to study the prognostic value of histological parameters in RCCs.
Biological properties of lemongrass: an overview.

The use of herbal preparations remained the main approach of folk medicine to the treatment of ailments and debilitating diseases. Initial intensive researches conducted on Lemongrass extracts (tea) may have showed conflicting evidences, however the resurgence in claims of folk medicine practitioners necessitated further inquiry into the efficacy of the tea. Lemongrass tea contains several biocompounds in its decoction, infusion and essential oil extracts. Anti-oxidant, anti-inflammatory, anti-bacterial, anti-obesity, antinociceptive, anxiolytic and antihypertensive evidences of lemongrass tea were clearly elucidated to support initial pharmacological claims. Lemongrass tea was non-toxic, non-mutagenic and receives wide acceptance among alternative medicine practitioners in several developing countries. This review therefore presents previous research activities, technologies and information surrounding bioactivities of lemongrass tea. Areas of future researches which may elucidate mechanisms of the biological properties of lemongrass extracts were highlighted.
Spatio-temporal analysis of the relationship between climate and 1 Hand , foot , and mouth disease in Shandong Province , China , 2 2008-2012 3 4

4 Yunxia Liu 5 Email: yunxialiu@163.com 6 7 Xianjun Wang 8 Email: xjwang62@163.com 9 10 Chunkun Pang 3 11 Email: ckpang@163.com 12 13 Zhongshang Yuan 1 14 Email: yuanzhongshang@163.com 15 16 Hongkai Li 17 Email: lihongkaiyouxiang@163.com 18 19 Fuzhong Xue 20 Corresponding author 21 Email: xuefzh@sdu.edu. cn 22 23 1 Department of Epidemiology and Biostatistics, School of Public Health, Shandon g University, 24 Jinan, Shandong, China 25 2 Shandong Center for Disease Control and Prevention, Jinan, Shandong, China 26 3 Institute office, Shandong Academy of Medical Science, Jinan, Shandong, China 27
Arabidopsis plasma membrane protein crucial for Ca2+ influx and touch sensing in roots

Plants can sense and respond to mechanical stimuli, like animals. An early mechanism of mechanosensing and response is speculated to be governed by as-yet-unidentified sensory complexes containing a Ca2+-permeable, stretch-activated (SA) channel. However, the components or regulators of such complexes are poorly understood at the molecular level in plants. Here, we report the molecular identification of a plasma membrane protein (designated Mca1) that correlates Ca2+ influx with mechanosensing in Arabidopsis thaliana. MCA1 cDNA was cloned by the functional complementation of lethality of a yeast mid1 mutant lacking a putative Ca2+-permeable SA channel component. Mca1 was localized to the yeast plasma membrane as an integral membrane protein and mediated Ca2+ influx. Mca1 also increased [Ca2+]cyt upon plasma membrane distortion in Arabidopsis. The growth of MCA1-overexpressing plants was impaired in a high-calcium but not a low-calcium medium. The primary roots of mca1-null plants failed to penetrate a harder agar medium from a softer one. These observations demonstrate that Mca1 plays a crucial role in a Ca2+-permeable SA channel system that leads to mechanosensing in Arabidopsis. We anticipate our findings to be a starting point for a deeper understanding of the molecular mechanisms of mechanotransduction in plants.
Spectra of graphs and the spectral criterion for property (T)

For a finite connected graph $X$, we consider the graph $RX$ obtained from $X$ by associating a new vertex to every edge of $X$ and joining by edges the extremities of each edge of $X$ to the corresponding new vertex. We express the spectrum of the Laplace operator on $RX$ as a function of the corresponding spectrum on $X$. As a corollary, we show that $X$ is a complete graph if and only if $\lambda_1(RX)>\frac{1}{2}$. We give a re-interpretation of the correspondence $X\mapsto RX$ in terms of the right-angled Coxeter group defined by $X$.