gebhart/patrepeval huggingface dataset:
Creatinine clearance after cimetidine administration in a new short procedure: comparison with plasma and renal clearances of iohexol (2019)

Our study shows a high level of agreement between Cim-CreatClr and P-iohexClr. These results suggest that this short Cim-CreatClr procedure is a valid method for GFR measurement, which might be useful, in particular, in situations in which P-iohexClr is not suitable or not available.
Splicing impact of deep exonic missense variants in CAPN3 explored systematically by minigene functional assay (2020)

Improving the accuracy of variant interpretation during diagnostic sequencing is a major goal for genomic medicine. To explore an often-overlooked splicing effect of missense variants, we developed the functional assay ("minigene") for the majority of exons of CAPN3, the gene responsible for limb girdle muscular dystrophy. By systematically screening 21 missense variants distributed along the gene, we found that eight clinically relevant missense variants located at a certain distance from the exon-intron borders (deep exonic missense variants) disrupted normal splicing of CAPN3 exons. Several recent machine learning-based computational tools failed to predict splicing impact for the majority of these deep exonic missense variants, highlighting the importance of including variants of this type in the training sets during the future algorithm development. Overall, 24 variants in CAPN3 gene were explored, leading to the change in the American College of Medical Genetics and Genomics classification of seven of them when results of the "minigene" functional assay were considered. Our findings reveal previously unknown splicing impact of several clinically important variants in CAPN3 and draw attention to the existence of deep exonic variants with a disruptive effect on gene splicing that could be overlooked by the current approaches in clinical genetics.
Complete hydatidiform mole in women aged 40 to 49 years. (2012)

All women in their 40s with complete mole are at high risk for GTN and might benefit from aggressive upfront therapy. Those patients with hCG levels >175,000 mIU/mL constitute an "ultra-high-risk" group for whom prophylactic chemotherapy or hysterectomy should be especially considered.
Electronic precompensation of optical nonlinearity (2005)

We introduce digital precompensation for optical nonlinearities. A 10-Gb/s transmitter subsystem is described. Experimental results, across 320 and 1280 km of standard single-mode fiber (G.652) without any optical compensators, show substantial elimination of self-phase modulation. Some of the limits of this method are explored.
Hereditary Ferritinopathy: A Novel Mutation, Its Cellular Pathology, and Pathogenetic Insights (2005)

We report a family of French Canadian and Dutch ancestry with hereditary ferritinopathy (neuroferritinopathy) and a novel mutation (C insertion at nt646-647 in exon 4) in the ferritin light chain gene, resulting in a longer than normal protein. Our failure to immunostain most of the abnormal ferritin deposits in the proband with a conformation-dependent monoclonal antibody to ferritin light chain supported a previously postulated conformational change of ferritin light chain in this disease. The posterior putamen and cerebellum were the primary pathologic loci in our proband, but asymptomatic hepatocytic intranuclear accumulations of iron and ferritin also were present. Both neurons and glia displayed highly distinctive, if not pathognomonic, swollen to vacuolated nuclei containing ferritin and iron. Hyaline deposits, again staining for both ferritin and iron, were additional morphologic features that may be unique to the ferritinopathies. The iron, at least in putamen where there was a nearly 40-fold increase, appeared to be both in the ferrous (Fe2+) and ferric (Fe3+) form; it was the most likely cause of the observed neuronal and glial apoptosis. We found morphologic evidence of both lipid peroxidation and abnormal nitration of proteins in putaminal neurons and glia, confirming the expected oxidative stress due to this excessive iron. Biochemical and immunohistochemical abnormalities in mitochondria also were demonstrated, probably due to an imbalance in iron homeostasis that had a deleterious effect on the respiratory chain.
Effects Of Water-based Exercise Program Among Frail Elderly Women With Lower Limb Pain (2009)

Knee osteoarthritis and lumbar spinal stenosis are common musculoskeletal disorders in the elderly. Pain and impairment on those parts frequently leads to moderate to severe limitations of participation in daily life and decreased quality of life (QOL). Water-based exercise (WE) provides several water-specific benefits to reduce pain and improve functional decline. PURPOSE: To examine the effect of WE program on functional fitness and health-related QOL (HRQOL) among frail elderly women with lower limb pain on the community-based setting. METHODS: Participants were 51 elderly women (age = 72.1±4.6years) with confirmed knee and/or low back pain, which were randomly assigned to either WE group (WEG; n = 26) or wait-list control group (CG; n = 25). WEG first participated in a 12-week WE program. CG was provided the same program immediately after the intervention as a cross-over design. Timed up and go test (TUG), 5-meter walk test (5WT), one-legged standing with eyes open (OLS-O), 5-time sit and stand test (SS5), and grip test, and the Japanese version of SF-8 were assessed at baseline and post-intervention. Both groups completed the same assessment at 3 months after their own WE programs. Mixed factorial and repeated measures ANOVA were utilized for analyses. Effect sizes were calculated. RESULTS: No significant differences at baseline were found between WEG and CG in all variables. TUG (pre = 6.6±0.8s; post = 6.2±09), SS5 (10.4±2.4s; post = 9.1±1.6s), OLS-O, BP (pre = 41.9±6.6; post = 47.7±6.6), and PCS (pre = 42.1±6.2; post = 45.9±6.8) for WEG significantly improved from pre- to post-intervention (p<0.05) whereas did not change in CG (p>0.05). WEG significantly increased in GH following intervention (pre = 46.5±5.9; post = 50.0±6.9; p = 0.04) whereas the CG significantly decreased from pre- to post-intervention (pre = 48.8±5.5; post = 54.1±5.9 p = 0.02). Improvement of TUG, SS5, 5WT, OLS-O, BP, GH, and PCS significantly maintained for 3 months after WE programs (p<0.05). Effect sizes of each measure for the effectiveness of WE and its sustainability were small to moderate and moderate to large, respectively. CONCLUSIONS: WE can not only improve functional mobility and lower muscular strength, but also enhance general health perception and reduce bodily pain perception on HRQOL among elderly women with lower limb pain.
Improving the diagnostic efficiency of H1N1 2009 pandemic flu: analysis of predictive clinical signs through a prospective cohort. (2009)

In late June 2009, we set up a dedicated flu-like illness outpatient consultation in the Infectious Diseases and Tropical Medicine department of Marseille university hospital to detect the new A/H1N1 pandemic influenza and to contain efficiently the A/H1N1 infected patients. For 3 months, we compiled data corresponding to a total of 307 patients who presented with a flu-like syndrome. 31 of them were positive for H1N1 pandemic flu through real-time RT-PCR (rRT-PCR); among them, 19 were positive for a rapid influenza detection test (RIDT). We report here the significant clinical characteristics of A/H1N1 pandemic flu patients compared with other flu-like illnesses, which were used to improve the predictive value of the diagnosis in the current epidemiological situation. We found that regardless of the prevalence of A/H1N1 positive cases in the suspected patients, the absence of cough rejects the diagnosis of A/H1N1 infection in 100% of cases. Among patients referred for flu-like illness, those with cough should be tested for A/H1N1 by RIDT. In the current situation, the PPV and NPV of RIDT for H1N1 reached 90.5% and 95.8 %, respectively. It is important to notice that the 2 RIDT-positive that were negative for H1N1 were seasonal H3N2 influenza indicating that specificity and PPV of RIDT for all influenza was 100%. Therefore, positive RIDT does not require rRT-PCR confirmatory test. Only negative RIDT should be tested with rRT-PCR assay. Respecting this algorithm would have saved up to 70,000 Euros ( 100.000 USD) for the 307 patients and would have resulted in a significant gain of time to transmit the laboratory results to the clinical ward.
Review: Optimal dosing strategies for maximising the clinical response to metformin in type 2 diabetes (2001)

Recently revised consensus targets for glycaemic management in patients with type 2 diabetes are challenging and require optimisation of dosing strategies for oral antidiabetic therapies. The demonstration of significant cardiovascular outcome benefits in metformin-treated type 2 diabetic patients enrolled in the United Kingdom Prospective Diabetes Study has established this agent as the first line oral therapy after diet failure in newly presenting overweight people with type 2 diabetes mellitus. The antihyperglycaemic efficacy of metformin increases with increasing daily doses between 500 mg and the upper limits of the recommended daily dosage ( ≥ 2000 mg/day). Although metformin is associated with gastrointestinal side-effects in up to 20% of patients, this is not generally dose related. Transient dose reduction, slower titration and taking the dose with meals may ameliorate the problem. Risk of lactic acidosis due to metformin is negligible when this agent is prescribed correctly, and is unrelated to the plasma metformin concentration. Intensification of metformin therapy within the dose range represents a rational and practical therapeutic strategy for optimising glycaemic control in patients who are suitable for, and tolerant of, metformin treatment. The recently introduced 1000 mg metformin tablet should facilitate the use of higher doses and may help treatment compliance.
Supplementary Figure 5 from Clinicopathologic, Genomic, and Immunophenotypic Landscape of <i>ATM</i> Mutations in Non–Small Cell Lung Cancer (2023)

&lt;p&gt;Supplementary Figure 5. (A) Median distance of each missense mutation from the closest intron start. (B) Median distance of each missense mutation from the closest intron end. (C) Proportion of cases with ATM loss and ATM intact expression by IHC in NSCLC samples with ATM mutation and ATM loss-of-heterozygosity (LOH).&lt;/p&gt;
Hyperchloremia and postoperative acute kidney injury: a retrospective analysis of data from the surgical intensive care unit (2018)

Exposure to perioperative hyperchloremia is not associated with postoperative AKI in surgical ICU patients. However, in patients with moderate-to-severe chronic kidney disease (stage ≥ 3), a substantial perioperative increase in serum chloride levels may reflect a higher risk of AKI.
Cross-streamer wavefield reconstruction through wavelet domain learning (2020)

Seismic exploration in complex geologic settings and shallow geologic targets has led to a demand for higher spatial and temporal resolution in the final migrated image. Conventional marine seismic and wide-azimuth data acquisition lack near-offset coverage, which limits imaging in these settings. A new marine source-over-cable survey, with split-spread configuration, known as TopSeis, was introduced in 2017 to address the shallow-target problem. However, wavefield reconstruction in the near offsets is challenging in the shallow part of the seismic record due to the high temporal frequencies and coarse sampling that leads to severe spatial aliasing. We have investigated deep learning as a tool for the reconstruction problem, beyond spatial aliasing. Our method is based on a convolutional neural network (CNN) approach trained in the wavelet domain that is used to reconstruct the wavefield across the streamers. We determine the performance of the proposed method on broadband synthetic data and TopSeis field data from the Barents Sea. From our synthetic example, we find that the CNN can be learned in the inline direction and applied in the crossline direction, and that the approach preserves the characteristics of the geologic model in the migrated section. In addition, we compare our method to an industry-standard Fourier-based interpolation method, in which the CNN approach shows an improvement in the root-mean-square (rms) error close to a factor of two. In our field data example, we find that the approach reconstructs the wavefield across the streamers in the shot domain, and it displays promising characteristics of a reconstructed 3D wavefield.
Prediction of muscle activity during loaded movements of the upper limb (2015)

This reasonable accuracy suggests that ANNs could be used to provide an initial estimate of the complex patterns of muscle stimulation needed to produce a wide array of movements, including those involving object interaction, in paralyzed individuals.
Bioinformatics for medical diagnostics: assessment of microarray data in the context of clinical databases. (2003)

We present a workflow for exploratory analysis of microarray data together with clinical data consisting of four steps: definition of clinically meaningful research questions in a masterfile, generation of analysis files, selection and characterization of differentially expressed genes, and estimation of classification accuracy. We applied this workflow to large data sets from the field of cardiology and oncology (n~500 patients). Systematic data management of microarray data and clinical data helps to make results more transparent and comparable.
Pharmacological Studies in Isolated Smooth Muscle Cells. Isolation, configuration and contractile responses of single smooth muscle cells. (1993)

In studies on the intrinsic contraction mechanisms of smooth muscle, various factors such as cell-to-cell interaction, penetration of chemicals to the trigger regions, or extracellular spaces in the tissue may influence the results. The use of single smooth muscle cells in such investigations may help to eliminate these factors. Single smooth muscle cells can be isolated from guinea pig taenia coli by digesting the minced tissue with a combination of collagenase and soybean trypsin inhibitor. The cells are spindle shaped, 100-200 microns in length and 10 microns in diameter. Three kinds of techniques for determination of contractile responses of single smooth muscle cells have been established: 1) fixation method, 2) perfusion method, and 3) capillary adhesion method. Using these techniques, the cells appeared to be contracted in a dose-dependent manner (graded response), while another mode of the contractile response, the "all-or-none response", has also been proposed. Scanning and transmission electron micrographs of the single cells revealed several evaginations of various sizes and shapes on the surface and electron dense bodies at the neck of the evaginations. ED50 obtained with the single cells, prepared from taenia coli of guinea pigs with collagenase in the presence of trypsin inhibitor was similar to that obtained with the intact tissue. Digestion of the tissue with highly purified collagenase and papain yields a large number of single cells with higher sensitivity to agonists. Characteristics of cells isolated from ileal longitudinal muscle of guinea pig are similar to those of cells isolated from taenia coli. The magnitude of contraction and sensitivity to acetylcholine were different in each cell. Incubation of isolated tissues with various concentrations of agonists followed by measurement of cell length in the tissue showed that the heterogeneous responses of the cells were intrinsic characteristics of smooth muscle cells and not due to damage incurred during the isolation procedure. Since isolated smooth muscle cells possess contractility, these might preserve the characteristics of smooth muscle, so they can be used for smooth muscle research. It must be considered, however, that each cell in the smooth muscle tissue has different contractility.
Design of a Dynamic SMIL player (2003)

Synchronized Multimedia Integration Language (SMIL) 2.0 has a support for user interactions with its declarative event timing and temporal hyperlinking model. However, complex Web applications require more control over multimedia presentations. This is achieved with a support for a scripting language. The result is Dynamic SMIL, a combination of SMIL and a scripting language. We present the design and implementation of a player for Dynamic SMIL. It consists of a SMIL 2.0 player and a facility to run scripts with the help of XML Events. The SMIL player is also integrated into an XML browser, X-Smiles, thus enabling playing SMIL with XForms, XSL FO, SVG, and XHTML.
Studies on the structural and functional aspects of Rhodotorula gracilis d-amino acid oxidase by limited trypsinolysis (1995)

The structure-function relationships of purified Rhodotorula gracilis D-amino acid oxidase (in its holo-, apo- and holo-enzyme-benzoate complex forms) was analysed by digestion with trypsin. In all cases trypsin cleaves this 80 kDa dimeric enzyme at the C-terminal region, since the peptide bonds sensitive to proteinase attack are clustered in this region. Digestion of native enzyme with trypsin produced a nicked and truncated form of 38.3 kDa containing two polypeptides of 34 and 5 kDa starting from Met1 and Ala319 respectively, and with detachment of the Thr306-Arg318 and Glu365-Leu368 peptides. Our results show that this 'core', folded into a compact structure, is catalytically competent. The acquisition of this nicked form was marked by a shift from a dimeric to a monomeric active enzyme, a result never previously obtained. The deleted sequences, Thr306-Arg318 and Glu365-Leu368, are essential for the monomer-monomer interaction, and, in particular, the region encompassing Thr306-Arg318 should play an essential role in the dimerization process. interestingly, the Ser308-Lys321 sequence present in the lost peptide corresponds to a sequence not present in other known D-amino acid oxidases [Faotto, Pollegioni, Ceciliani, Ronchi and Pilone (1995) Biotechnol. Lett. 17, 193-198]. A role of the cleaved-off region for the thermostabilization of the enzyme is also discussed.
4 kbps improved pitch prediction CELP speech coding with 20 ms frame (2002)

This paper proposes a new pitch prediction method for 4 kbps CELP (code excited LPC) speech coding. In the conventional CELP speech coding, synthetic speech quality deteriorates rapidly at 4 kbps, especially for female and children's speech with short pitch period. The important reason is that when the pitch period is shorter than the subframe length, simple repetition of the past excitation signal based on the estimated lag, not the true pitch prediction, is usually used in the adaptive codebook operation. The proposed pitch prediction method can carry out the true pitch prediction by utilizing the current subframe excitation codevector signal, when the pitch prediction parameters are determined. For further improvement, a split weighting method and a low-complexity harmonic and spectral perceptually-weighting method have also been developed. The informal listening test result shows that the 4 kbps coder with 20 msec subframe, utilizing all of the proposed improvements, achieves 0.2 MOS higher results than the coder without them.
Novel dandelion-like beta-manganese dioxide microstructures and their magnetic properties (2006)

Single-crystalline dandelion-like β-MnO(2) three-dimensional microstructures have been successfully prepared for the first time via a simple hydrothermal process based on the direct reaction between Mn(NO(3))(2) and H(2)O(2). H(2)O(2) plays an important role in the formation of the dandelion-like morphology. The formation mechanism of the dandelion-like nanostructures was investigated and discussed based on the experimental results. Magnetic measurements show that the Néel temperature of the as-obtained product is 100 K, which is about 6 K higher than that of the corresponding bulk β-MnO(2) crystals.
Dual-mode of assembly of anthracene-based imidazolium salts both in non-polar organic solvents and in aqueous solution (2011)

Amphiphilic anthracene derivatives showed solvent-polarity-dependent fluorescence. Monomer emission and aggregation-induced emission (AIE) were observed in polar and non-polar organic solvents, respectively. AIE became predominant in aqueous solution in the case of hexafluorophosphate as a counter anion.
Prevalence of rotavirus and norovirus antibodies in non‐human primates (2004)

Rotavirus and norovirus are associated with a substantial burden of diarrheal disease in humans and some animals, but their role in acute viral gastroenteritis in non-human primates has not been established. We examined sera from five species of Old and New World monkeys and chimpanzees for antibodies to rotavirus and norovirus by enzyme immunoassays using RRV and three recombinant human norovirus capsid proteins, respectively. Most (88%) of the 3 Old World monkey species (mangabey, pigtail, and rhesus) and apes were seropositive for rotavirus. Norovirus antibody was prevalent in the three monkey species, with 53% (44/83) and 58% (48/83) seropositive for GI and GII strains, respectively. Eleven (92%) of the 12 chimpanzees tested were seropositive for GI norovirus. Given the high rate of infection with both viruses, the role of these agents in causing acute gastroenteritis in non-human primates and the value of these animals as models of infection and disease need to be assessed.
Antitumor Effect of a Novel Proapoptotic Peptide that Impairs the Phosphorylation by the Protein Kinase 2 (Casein Kinase 2) (2004)

Protein Kinase (casein kinase 2, CK2) is a serine-threonine kinase that is frequently dysregulated in many human tumors. Therefore we hypothesized that peptides capable of binding to the CK2 acidic domain may exhibit potential anticancer properties. By screening a random cyclic peptide phage display library, we have identified a novel peptide, P15, that abrogated CK2 phosphorylation by blocking the substrate in vitro. To verify its potential antineoplastic effect, P15 was fused to the cell-penetrating peptide derived from the HIV-Tat protein. Interestingly, P15-Tat induced apoptosis as evidenced by rapid caspase activation and cellular cytotoxicity in a variety of tumor cell lines. Furthermore, direct injection of P15-Tat into C57BL6 mice bearing day 7-established solid tumors, resulted in substantial regression of the tumor mass. Our findings describe a new proapoptotic cyclic peptide that blocks the CK2 phosphorylation and exhibits antitumor effect in vivo, indicating that the P15 peptide may potentially be used clinically to treat solid tumors or as an adjuvant for cancer therapy.