Miracle-dz/UniFAR-FTUs huggingface dataset:
Serum IgA Responses against Pertussis Proteins in Infected and Dutch wP or aP Vaccinated Children: An Additional Role in Pertussis Diagnostics

Background Whooping cough is a respiratory disease caused by Bordetella pertussis, which induces mucosal IgA antibodies that appear to be relevant in protection. Serum IgA responses are measured after pertussis infection and might provide an additional role in pertussis diagnostics. However, the possible interfering role for pertussis vaccinations in the induction of serum IgA antibodies is largely unknown. Methods/Principal Findings We compared serum IgA responses in healthy vaccinated children between 1 and 10 years of age with those in children who despite vaccinations recently were infected with Bordetella pertussis. All children have been vaccinated at 2, 3, 4 and 11 months of age with either the Dutch whole-cell pertussis (wP) vaccine or an acellular pertussis (aP) vaccine and additionally received an aP booster vaccination at 4 years of age. Serum IgA responses to pertussis toxin (PT), filamentous heamagglutinin (FHA) and pertactin (Prn) were measured with a fluorescent multiplex bead-based immuno-assay. An ELISPOT-assay was used for the detection of IgA-memory B-cells specific to these antigens. Serum IgA levels to all pertussis vaccine antigens were significantly higher in infected children compared with healthy children. High correlations between anti-PT, anti-FHA or anti-Prn IgA and IgG levels were found in infected children and to some degree in wP primed children, but not at all in aP primed children. Highest numbers of IgA-pertussis-specific memory B-cells were observed after infection and generally comparable numbers were found after wP and aP vaccination. Conclusions This study provides new insight in the diagnostic role for serum IgA responses against PT in vaccinated children. Since aP vaccines induce high serum IgG levels that interfere with pertussis diagnostics, serum IgA-PT levels will provide an additional diagnostic role. High levels of serum IgA for PT proved specific for recent pertussis infection with reasonable sensitivity, whereas the role for IgA levels against FHA and Prn in diagnosing pertussis remains controversial.
Pancreatic somatostatinoma diagnosed preoperatively: report of a case.

CONTEXT Somatostatinoma is a rare neoplasm of the pancreas. Preoperative diagnosis is often difficult. CASE REPORT We report a 72-year-old woman with a pancreatic head tumor measuring 37 mm in diameter, and enlargement of the lymph nodes on the anterior surface of the pancreatic head and the posterior surface of the horizontal part of the duodenum. Laboratory data showed an elevated plasma somatostatin concentration. Examination of a biopsy specimen of the pancreatic head mass obtained by endoscopic ultrasound-guided fine needle aspiration (EUS-FNA) showed histopathological features of a neuroendocrine tumor. Immunohistochemical staining showed that the tumor cells were positive for somatostatin, leading to a preoperative diagnosis of pancreatic somatostatinoma. The patient underwent pylorus-preserving pancreaticoduodenectomy. The plasma somatostatin concentration decreased progressively after surgery. CONCLUSIONS A rare case of pancreatic somatostatinoma with lymph node metastases was presented. Immunohistochemical analysis of a biopsy specimen obtained by EUS-FNA was useful for preoperative diagnosis.
Top Grafting Longleaf x Slash Pine F 1 Hybrids on Mature Longleaf and Slash Pine Interstocks

-Top grafting is used to accelerate the breeding cycle of loblolly pine (Pinus taeda L). Scions, collected from seedlings as young as 1 year from seed, are grafted onto mature interstocks of the same or a related species. Male and female strobili production often begins 1 or 2 years after grafting, thus potentially decreasing the generation time by several years over conventional accelerated breeding methods. We are interested in applying top grafting to our breeding program involving interspecific hybrids, in particular longleaf x slash pine (Pinus palustris Mill. x Pinus elliottii Englem. var. elliottii) hybrids and their backcross generations. Towards this end, we grafted scions from 16 longleaf x slash pine F1 selections onto two longleaf and two slash pine interstock trees of different genotype. The F1 selections were 6 years old and none showed any signs of strobili development prior to, or during the experiment. A total of 100 grafts were made on to each interstock species. Scion survival after the second year was significantly higher on slash (72%) pine interstocks than on longleaf pine (18%). However there were no differences in male or female strobili production per living scion between the interstock species. Scions grew longer and produced more branches on slash pine interstocks than they did on longleaf. Given the relatively poor survival of the scions grafted onto longleaf interstocks and the reasonably good strobili production of scions grafted onto slash, we recommend using slash pine as the interstock species for top grafting longleaf x slash F1 hybrids.
Morphology and rheology of compatibilized polymer blends: Diblock compatibilizers vs crosslinked reactive compatibilizers

Reactive compatibilization is commonly used when blending immiscible homopolymers. The compatibilizers formed from the interfacial coupling of two types of reactive chains often have a graft copolymer architecture. Here we consider the case where both reactive chains are multifunctional, leading to a crosslinked copolymer at the interface. Experiments were conducted on a model blend of ∼30% polydimethylsiloxane drops in a polyisoprene matrix. Compatibilizer was formed by an interfacial reaction between amine-functional polydimethylsiloxane and maleic anhydride-functional polyisoprene. Both species were multifunctional, and therefore capable of interfacial crosslinking. Optical microscopy showed some unusual features including drop clusters, nonspherical drops, and some drops with apparently nonsmooth surfaces. All these features suggest that a crosslinked “skin” covers the interface of the drops. Rheologically, the reactively compatibilized blend showed gel-like behavior in oscillatory experiments, enhanc.
Androgen Receptor Splice Variants and Resistance to Taxane Chemotherapy

Abstract : During the first reporting period, we have made significant progress in understanding the fundamental difference in nuclear translocation mechanism between full-length androgen receptor (AR-FL) and AR splice variants (AR-Vs). We found that the AR-FL is associated with the microtubule cytoskeleton and is transported by the microtubules prior to its nuclear translocation. On the other hand, AR-V7 and ARv567es have weak microtubule-binding activities and use a microtubule-independent mechanism for intracellular transport. Through a series of deletion analyses, we have mapped the microtubule-binding activity to two regions in the AR ligand-binding domain. In addition, we found that AR-V7 and ARv567es interfere with docetaxelmediated AR-FL cytoplasmic retention, possibly by forming heterodimers with AR-FL and decreasing its microtubule-binding activity. These findings provide evidence that constitutively active AR-Vs maintain the AR signaling axis by evading the inhibitory effects of microtubule-targeting agents, suggesting that these AR-Vs play a role in resistance to taxane chemotherapy.
Idiopathic intracranial hypertension: 12 cases treated by venous sinus stenting

Background: The high pressures documented in the intracranial venous sinuses in idiopathic intracranial hypertension (IIH) could be the result of focal stenotic lesions in the lateral sinuses obstructing cranial venous outflow. Objective: To explore the relation between venous sinus disease and IIH. Methods: 12 patients with refractory IIH had dilatation and stenting of the venous sinuses after venography and manometry had shown intracranial venous hypertension proximal to stenoses in the lateral sinuses. Intrasinus pressures were recorded before and after the procedure and correlated with clinical outcome. Results: Intrasinus pressures were variably reduced by stenting. Five patients were rendered asymptomatic, two were improved, and five were unchanged. Conclusions: The importance of venous sinus disease in the aetiology of IIH is probably underestimated. Lateral sinus stenting shows promise as an alternative treatment to neurosurgical intervention in intractable cases.
A uORF Represses the Transcription Factor AtHB1 in Aerial Tissues to Avoid a Deleterious Phenotype1

An upstream ORF encoded in an homeodomain-leucine zipper I gene and regulated by a chloroplast signal causes ribosome stalling in aerial tissues that had been exposed to light. AtHB1 is an Arabidopsis (Arabidopsis thaliana) homeodomain-leucine zipper transcription factor that participates in hypocotyl elongation under short-day conditions. Here, we show that its expression is posttranscriptionally regulated by an upstream open reading frame (uORF) located in its 5′ untranslated region. This uORF encodes a highly conserved peptide (CPuORF) that is present in varied monocot and dicot species. The Arabidopsis uORF and its maize (Zea mays) homolog repressed the translation of the main open reading frame in cis, independent of the sequence of the latter. Published ribosome footprinting results and the analysis of a frame-shifted uORF, in which the repression capability was lost, indicated that the uORF causes ribosome stalling. The regulation exerted by the CPuORF was tissue specific and did not act in the absence of light. Moreover, a photosynthetic signal is needed for the CPuORF action, since plants with uncoupled chloroplasts did not show uORF-dependent repression. Plants transformed with the native AtHB1 promoter driving AtHB1 expression did not show differential phenotypes, whereas those transformed with a construct in which the uORF was mutated exhibited serrated leaves, compact rosettes, and, most significantly, short nondehiscent anthers and siliques containing fewer or no seeds. Thus, we propose that the uncontrolled expression of AtHB1 is deleterious for the plant and, hence, finely repressed by a translational mechanism.
Inoculation of Schizolobium parahyba with Mycorrhizal Fungi and Plant Growth-Promoting Rhizobacteria Increases Wood Yield under Field Conditions

Schizolobium parahyba var. amazonicum (Huber ex Ducke) occurs naturally in the Brazilian Amazon. Currently, it is being planted extensively because of its fast growth and excellent use in forestry. Consequently, there is great interest in new strategies to increase wood production. The interaction between soil microorganisms and plants, specifically in the roots, provides essential nutrients for plant growth. These interactions can have growth-promoting effects. In this way, this study assessed the effect of the inoculation with arbuscular mycorrhizal fungi (AMF) and plant growth-promoting rhizobacteria (PGPR) on growth of S. parahyba var. amazonicum under field conditions. We used two native species of arbuscular mycorrhizal fungi, Claroideoglomus etunicatum (Ce), and Acaulospora sp. (Ac); two native strains of Rhizobium sp. (Rh1 and Rh2); and a non-native strain of Burkholderia sp. Different combinations of microorganisms were supplemented with chemical fertilizers (doses D1 and D2) in two planting methods, seed sowing and seedling planting. In seed sowing, the results showed that treatments with Ce/Rh1/Fertilizer D2 and Ac/No PGPR/Fertilizer D2 increased wood yield. In seedling planting, two combinations (Ac/Rh2/Fertilizer D1 and Ac/Rh1/Fertilizer D1) were more effective in increasing seedling growth. In these experiments, inoculation with AMF and PGPR increased wood yield by about 20% compared to the application of fertilizer alone.
Quantitative analysis of interindividual variation of glutathione S-transferase expression in human pancreas and the ambiguity of correlating genotype with phenotype.

Analysis of glutathione S-transferases (GSTs) of the alpha, mu, and pi classes by reverse-phase high-performance liquid chromatography and electrospray-ionization mass spectrometry in 43 samples of normal human pancreas demonstrated a wide variation in expression of subunits P1, A1, A2, A4, M1, M2, and M3 and the presence of a novel form designated GST "A5. " GSTA2 consisted of three forms that were differentially expressed between individuals in a manner consistent with allelic polymorphism at the hGSTA2 locus. Expression, in terms of microg GST subunit/mg cytosolic protein, varied by 6-15-fold for subunits P1, A2, and M3 and 17-30-fold in the case of GSTs A1 and M2. Less consistently expressed were GSTs M1a, M1b, A4, and A5. Among these, GSTM1 expression (excluding M1-null samples) varied 12-fold between samples, whereas GST A4 and A5 expression varied approximately 50-100-fold between samples, well beyond the range of other subunits, suggesting that their expression is highly inducible. Linear correlations (P < 0.001-0.003) existed between levels of the most consistently expressed GST, GSTP1, and total GSTs, GSTA2 and M3, and in GSTM1-positive samples, between GSTM1, M3, and P1. The correlation between GST subunits P1 and M3 was bimodal according to M1 genotype, reflecting the presence of the regulatory element in hGSTM3*B that is linked with the hGSTM1*A genotype. It is concluded that although a degree of regulation of expression of GSTs occurs in human pancreas, the variability of phenotype is high and might obscure the effects of genetic polymorphisms on individual cancer susceptibility. Interindividual variation of GST expression is, therefore, a factor that should be taken account of in epidemiological studies.
Amelioration of human lupus-like phenotypes in MRL/lpr mice by overexpression of interleukin 27 receptor α (WSX-1)

Objective: In the present work, we investigate the role of interleukin (IL)27/IL27 receptor α (Rα) (WSX-1) in the development of autoimmune disorders in the MRL/lpr mouse, which is considered as an experimental model of systemic lupus erythaematosus (SLE) in humans. Methods: We generated two strains of WSX-1 transgenic mice in the MRL/lpr background with different expression levels of WSX-1, and investigated the effect of WSX-1 overexpression on survival, glomerulonephritis and immunological properties. Results: In comparison with wild type (WT) MRL/lpr and transgenic (Tg) low (TgL) mice, Tg high (TgH) mice exhibited a prolonged lifespan and no apparent development of autoimmune nephritis. Production of anti-dsDNA antibody and total IgG and IgG2a were significantly lower in TgH mice than those of TgL and WT mice. The expressed amounts of interferon (IFN)γ and IL4 mRNA by CD4+ T cells from Tg mice decreased in a dose-dependent fashion. CD4+ splenic lymphocytes in TgH mice were more subject to the IL27-mediated suppression of cytokine production. In vitro stimulation of CD4+ T cells by IL27 resulted in over phosphorylation of STAT3 in TgH cells than in WT cells. Conclusion: WSX-1 overexpression in the MRL/lpr background rendered the autoimmune prone mice protected from the development of autoimmune diseases. Our results suggest that IL27 signalling may be a therapeutic target against autoimmune diseases, including human SLE.
A NICMOS search for obscured supernovae in starburst galaxies

The detection of obscured supernovae (SNe) in near-infrared monitoring campaigns of starburst galaxies has shown that a significant fraction of SNe is missed by optical surveys. However, the number of SNe detected in ground-based near-IR observations is still significantly lower than the number of SNe extrapolated from the FIR luminosity of the hosts. A possibility is that most SNe occur within the nuclear regions, where the limited angular resolution of ground-based observations prevents their detection. This issue prompted us to exploit the superior angular resolution of NICMOS-HST to search for obscured SNe within the first kpc from the nucleus of strong starbursting galaxies. A total of 17 galaxies were observed in SNAPSHOT mode. Based on their FIR luminosity, we did not expect to detect fewer than ~$ 12$ SNe. However, no confirmed SN event was found. From our data we derived an observed nuclear SN rate <0.5 SN/yr per galaxy. The shortage of SN detections can be explained by a combination of several effects. The most important are: i) the existence of a strong extinction, $A_{\rm V}\ga 11$; ii) most SNe occur within the first $0.5\arcsec$ (which corresponds in our sample to about 500 pc) where even NICMOS is unable to detect SN events.
Hyperoxia inhibits proliferation of Mv1Lu epithelial cells independent of TGF-β signaling.

High concentrations of O2 inhibit epithelial cell proliferation that resumes on recovery in room air. To determine whether growth arrest is mediated by transforming growth factor-β (TGF-β), changes in cell proliferation during exposure to hyperoxia were assessed in the mink lung epithelial cell line Mv1Lu and the clonal variant R1B, which is deficient for the type I TGF-β receptor. Mv1Lu cells treated with TGF-β accumulated in the G1 phase of the cell cycle as determined by propidium iodide staining, whereas proliferation of R1B cells was unaffected by TGF-β. In contrast, hyperoxia inhibited proliferation of both cell lines within 24 h of exposure through an accumulation in the S phase. Mv1Lu cells treated with TGF-β and exposed to hyperoxia accumulated in the G1 phase, suggesting that TGF-β can inhibit the S phase accumulation observed with hyperoxia alone. Cyclin A was detected in cultures exposed to room air or growth arrested by hyperoxia while decreasing in cells growth arrested in the G1 phase by TGF-β. Finally, hyperoxia failed to activate a TGF-β-dependent transcriptional reporter in both Mv1Lu and R1B cells. These findings reveal that simple growth arrest by hyperoxia involves a defect in S phase progression that is independent of TGF-β signaling.
Quantification of intrinsic residual viral replication in treated HIV-infected patients

The intrinsic rate of viral replication in HIV-infected patients treated with antiretroviral combination therapy is estimated by using a mathematical model of viral dynamics. This intrinsic replication is found to be episodic, varying considerably in quantity between patients (even among those achieving long-term undetectable levels of viremia) and is always reduced by increasing the potency of the antiviral drug regimen. The analysis reveals that even in conditions of perfect patient adherence and drug penetration a substantial level of residual viral replication is expected. The rate of evolution in the viral quasispecies, and thus also the probability of new drug-resistant viral strains being created, is proportional to the total amount of residual viral replication. Under most circumstances, the viral population continues to turn over rapidly during therapy, albeit at a much reduced level.
SURVEYING THE DYNAMIC RADIO SKY WITH THE LONG WAVELENGTH DEMONSTRATOR ARRAY

This paper presents a search for radio transients at a frequency of 73.8 MHz (4 m wavelength) using the all-sky imaging capabilities of the Long Wavelength Demonstrator Array (LWDA). The LWDA was a 16-dipole phased array telescope, located on the site of the Very Large Array in New Mexico. The field of view of the individual dipoles was essentially the entire sky, and the number of dipoles was sufficiently small that a simple software correlator could be used to make all-sky images. From 2006 October to 2007 February, we conducted an all-sky transient search program, acquiring a total of 106 hr of data; the time sampling varied, being 5 minutes at the start of the program and improving to 2 minutes by the end of the program. We were able to detect solar flares, and in a special-purpose mode, radio reflections from ionized meteor trails during the 2006 Leonid meteor shower. We detected no transients originating outside of the solar system above a flux density limit of 500 Jy, equivalent to a limit of no more than about 10−2 events yr−1 deg−2, having a pulse energy density ≳1.5 × 10−20 J m−2 Hz−1 at 73.8 MHz for pulse widths of about 300 s. This event rate is comparable to that determined from previous all-sky transient searches, but at a lower frequency than most previous all-sky searches. We believe that the LWDA illustrates how an all-sky imaging mode could be a useful operational model for low-frequency instruments such as the Low Frequency Array, the Long Wavelength Array station, the low-frequency component of the Square Kilometre Array, and potentially the Lunar Radio Array.
Hierarchical Cluster Analysis of a Convection-Allowing Ensemble during the Hazardous Weather Testbed 2009 Spring Experiment. Part I: Development of the Object-Oriented Cluster Analysis Method for Precipitation Fields

Convection-allowingensembleforecastswithperturbationstomodelphysics,dynamics,andinitial(IC)and lateral boundary conditions (LBC) generated by the Center for the Analysis and Prediction of Storms for the NOAA Hazardous Weather Testbed (HWT) Spring Experiments provide a unique opportunity to understandtherelativeimpactofdifferentsourcesofperturbationon convection-allowingensemble diversity.Such impacts are explored in this two-part study through an object-oriented hierarchical cluster analysis (HCA) technique. In this paper, an object-oriented HCA algorithm, where the dissimilarity of precipitation forecasts is quantifiedwithanontraditional object-based threatscore(OTS),is developed. The advantages ofOTS-based HCA relative to HCA using traditional Euclidean distance and neighborhood probability-based Euclidean distance (NED) as dissimilarity measures are illustrated by hourly accumulated precipitation ensemble forecasts during a representative severe weather event. Clusters based on OTS and NED are more consistent with subjective evaluation than clusters based on traditional Euclidean distance because of the sensitivity of Euclidean distance to small spatial displacements. OTS improves the clustering further compared to NED. Only OTS accounts for important features of precipitation areas, such as shape, size, and orientation, and OTS is less sensitive than NED to precise spatial locationandprecipitationamount.OTSisfurtherimprovedbyusingafuzzymatchingmethod. Applicationof OTS-based HCA for regional subdomains is also introduced. Part II uses the HCA method developed in this paper to explore systematic clustering of the convection-allowing ensemble during the full 2009 HWT Spring Experiment period.
Ieee Transactions on Signal Processing (accepted) Sparse Channel Estimation for Multicarrier Underwater Acoustic Communication: from Subspace Methods to Compressed Sensing

—In this paper, we investigate various channel esti-mators that exploit channel sparsity in the time and/or Doppler domain for a multicarrier underwater acoustic system. We use a path-based channel model, where the channel is described by a limited number of paths, each characterized by a delay, Doppler scale, and attenuation factor, and derive the exact inter-carrier-interference (ICI) pattern. For channels that have limited Doppler spread we show that subspace algorithms from the array processing literature, namely Root-MUSIC and ESPRIT, can be applied for channel estimation. For channels with Doppler spread, we adopt a compressed sensing approach, in form of Orthogonal Matching Pursuit (OMP) and Basis Pursuit (BP) algorithms, and utilize overcomplete dictionaries with an increased path delay resolution. Numerical simulation and experimental data of an OFDM block-by-block receiver are used to evaluate the proposed algorithms in comparison to the conventional least-squares (LS) channel estimator. We observe that subspace methods can tolerate small to moderate Doppler effects, and outperform the LS approach when the channel is indeed sparse. On the other hand, compressed sensing algorithms uniformly outperform the LS and subspace methods. Coupled with a channel equalizer mitigating ICI, the compressed sensing algorithms can effectively handle channels with significant Doppler spread.