gebhart/patrepeval huggingface dataset:
Data from Zonal Heterogeneity for Gene Expression in Human Pancreatic Carcinoma (2023)

&lt;div&gt;Abstract&lt;p&gt;Using Affymetrix HG-U133 Plus 2.0 array and laser capture microdissection techniques, we determined whether different zones of the same pancreatic tumor exhibited differential expression of genes. Human L3.6pl pancreatic cancer cells were implanted into the pancreas of nude mice. Three weeks later when tumors were 7 to 9 mm in diameter, gene expression patterns in tumor cells within the central and peripheral zones were compared, and 1,222 genes showed statistically significant differences. Bioinformatic functional analysis revealed that 346 up-regulated genes in the peripheral zone were related to cytoskeleton organization and biogenesis, cell cycle, cell adhesion, cell motility, DNA replication, localization, integrin-mediated signaling pathway, development, morphogenesis, and IκB kinase/nuclear factor-κB cascade; 876 up-regulated genes in the central zone were related to regulation of cell proliferation, regulation of transcription, transmembrane receptor protein tyrosine kinase signaling pathways, response to stress, small GTPase-mediated signal transduction, hexose metabolism, cell death, response to external stimulus, carbohydrate metabolism, and response to wounding. The reliability of the microarray results were confirmed by &lt;i&gt;in situ&lt;/i&gt; hybridization analysis of the expression of two genes. Collectively, the data showed zonal heterogeneity for gene expression profiles in tumors and suggest that characterization of zonal gene expression profiles is essential if microarray analyses of genetic profiles are to produce reproducible data, predict disease prognosis, and allow design of specific therapeutics. [Cancer Res 2007;67(16):7597–604]&lt;/p&gt;&lt;/div&gt;
3-D spheroid culture of bone marrow mesenchymal stem cell of rhesus monkey with improved multi-differentiation potential to epithelial progenitors and neuron in vitro (2011)

Our 3-D spheroid culture system provides a useful technique to gain insight into the mechanisms of bone mesenchymal stem cells differentiation, and may have potential applications for the treatment of ocular surface and optic nerve disease.
Studies on Pig Serum Lipoproteins<subtitle>I. Separation and Properties of Low-density Lipoproteins<xref ref-type="fn" rid="fn1"><sup>1</sup></xref></subtitle> (1975)

The low-density lipoproteins in pig serum were separated into two subclasses (LDL1 and LDL2) by 2 to 7% pore size gradient gel electrophoresis. Preparative gel electrophoresis in 2 to 4% gradient gel made it possible to isolate these components as distinct entities. After delipidation by chromatography on Sepharose 4B in the presence of SDS, both apo-LDL1 and apo-LDL2 were found to have a molecular weight of 2.6X10(5). However, when these apoproteins were incubated in 10% sodium dodecyl sulfate, fragmentation occurred and the minimum fragment molecular weight was estimated to be 2.4X10(4). No essential difference was found in the amino acid compositions or fragmentation patterns of the apoproteins. However, the amounts of carbohydrates in the two apoproteins were different (7.09% in apo-LDL1 and 5.08% in apo-LDL2). The carbohydrate composition was 0.8% sialic acid, 2.38% N-acetyl-glucosamine, and 4.01% neutral sugars in apo-LDL1 and 0.5, 1.75, and 2.83% in apo-LDL2, respectively. In both apoproteins, mannose, galactose, and fucose were present in almost the same molar ratio of 4-5 : 2-3 : 1.
Temperature monitoring during radiofrequency catheter ablation of accessory pathways. (1992)

BACKGROUNDAnimal studies have suggested that the temperature of the electrode-tissue interface during radiofrequency catheter ablation accurately predicts lesion size. The purpose of the current study was to evaluate the utility of continuous temperature monitoring during radiofrequency catheter ablation in patients with Wolff-Parkinson-White syndrome.METHODS AND RESULTSTwenty patients with manifest preexcitation were included in the study. The ablation catheter was positioned on the ventricular side of the mitral annulus for left-sided accessory pathways and on the atrial side of the tricuspid annulus for right-sided and septal accessory pathways. A thermistor imbedded in the distal electrode of the ablation catheter allowed continuous temperature monitoring during each energy application. To define the relation between power and temperature, radiofrequency current was applied several times at each site using outputs of 20, 30, 40, and 50 W. The accessory pathways were successfully ablated in each of the...
Bis(phosphine)cobalt Dialkyl Complexes for Directed Catalytic Alkene Hydrogenation (2014)

Planar, low-spin cobalt(II) dialkyl complexes bearing bidentate phosphine ligands, (P–P)Co(CH2SiMe3)2, are active for the hydrogenation of geminal and 1,2-disubstituted alkenes. Hydrogenation of more hindered internal and endocyclic trisubstituted alkenes was achieved through hydroxyl group activation, an approach that also enables directed hydrogenations to yield contrasteric isomers of cyclic alkanes.
Factor XI deficiency and its management (2000)

Factor XI deficiency has a more variable bleeding tendency than haemophilia A or B. Individuals with severe deficiency have only a mild bleeding tendency, which is typically provoked by surgery, but the risk of bleeding is not restricted to individuals with severe deficiency. The bleeding tendency varies between individuals with similar factor XI levels, and sometimes the bleeding tendency of an individual may vary. The reasons for this are not fully understood, although in cases of severe deficiency there is some correlation between phenotype and genotype. Factor XI is activated by thrombin. The role of factor XI in physiological processes has become clearer since this fact was discovered, and the discovery has contributed to a revised model of blood coagulation. Factor XI deficiency occurs in all racial groups, but is particularly common in Ashkenazi Jews. The factor XI gene is 23 kilobases long. Two mutations are responsible for most factor XI deficiency in the Ashkenazi population, but a number of other mutations have now been reported in other racial groups. Individuals with factor XI deficiency may need specific therapy for surgery, accidents, and dental extractions. Several therapies are available which include fresh frozen plasma, factor XI concentrates, fibrin glue, antifibrinolytic drugs, and desmopressin. Each has advantages and risks to be considered. Factor XI concentrate may be indicated for procedures with a significant risk of bleeding especially in younger patients with severe deficiency, but its use in older patients has been associated with thrombotic phenomena. If fresh frozen plasma is to be used it is preferable to obtain one of the virally inactivated products. Fibrin glue is a useful treatment which deserves further study.
Direct Method for the Estimation of Modeling Perturbations in the Simulation of Fusion Blankets (1984)

Student’s t-distribution is used for the direct estimation of the modeling and geometrical perturbations in the Monte Carlo simulation of fusion blankets. A test of hypothesis is carried out for the equivalence of the means for the reference and perturbed systems at different confidence levels. If the test is failed, intervals for the difference of means or perturbation can be directly deduced. No variance reduction is attempted in the application of this methodology. Application of the methodology to the neutronic and photonic analysis of the conceptual HYFIRE high-temperature process heat fusion reactor blanket is carried out. The use of a two-dimensional model for the analysis versus one-dimensional models leads to differences in the estimated system parameters (e.g., breeding ratio) ranging from 1.5 to 7% at the 70% confidence level. Accounting for the penetrations, using three-versus two-dimensional models, affects those system parameters in the range of 12.8 to 20.9% at the same confidence level. These uncertainties are judged significantly large and need to be accounted for in future reactor designs.
Synthesis of Quaternary Ammonium Salts of Chitosan Bearing Halogenated Acetate for Antifungal and Antibacterial Activities (2018)

In this paper, quaternary ammonium salts of chitosan bearing halogenated acetate, including <i>N</i>,<i>N</i>,<i>N</i>-trimethyl chitosan chloroacetate (TMCSC), <i>N</i>,<i>N</i>,<i>N</i>-trimethyl chitosan dichloroacetate (TMCSDC), <i>N</i>,<i>N</i>,<i>N</i>-trimethyl chitosan trichloroacetate (TMCSTC), and <i>N</i>,<i>N</i>,<i>N</i>-trimethyl chitosan trifluoroacetate (TMCSTF), were prepared via <i>N</i>,<i>N</i>,<i>N</i>-trimethyl chitosan iodide (TMCSI). The obtained chitosan derivatives were characterized by FT-IR, ¹H NMR spectra, <sup>13</sup>C NMR spectra, and elemental analysis. Their antifungal property against <i>Fusarium oxysporum</i> f. sp. cucumebrium Owen (<i>F. oxysporum</i> f. sp. cucumebrium Owen), <i>Botrytis cinerea</i> (<i>B. cinerea</i>), and <i>Phomopsis asparagi</i> (<i>P. asparagi</i>) were evaluated by hyphal measurement method at concentrations ranging from 0.08 mg/mL to 0.8 mg/mL. Meanwhile, two common bacteria, <i>Escherichia coli</i> (<i>E. coli</i>) and <i>Staphylococcus aureus</i> (<i>S. aureus</i>), were selected as the model Gram-negative and Gram-positive bacteria to evaluate the antibacterial property of the chitosan derivatives by agar well diffusion method. The results showed that TMCSC, TMCSDC, TMCSTC, and TMCSTF had better antifungal and antibacterial activities than chitosan and TMCSI. In particular, a rule showed that the inhibitory activity decreased in the order: TMCSTF > TMCSTC > TMCSDC > TMCSC > TMCSI > chitosan, which was consistent with the electron-withdrawing property of different halogenated acetate. Apparently, the quaternary ammonium salts of chitosan with stronger electron withdrawing ability possessed relatively greater antifungal and antibacterial activities. This experiment provides a potentially feasible method for the further utilization of chitosan in fields of antifungal and antibacterial biomaterials.
Performance Characteristics of Hydrogen Peroxide Sensor Using Immobilized Manganese Dioxide Membrane. (2003)

前報ではMnO2粗粒子のポリ塩化ビニル固定化膜と溶存酸素センサからなる過酸化水素センサについて報告した（Nagata et al., 2000）．本研究では，400mesh節下のMnO2粒子をセンサの作製に使用した．このセンサを用いて，酸化性物質の共存ならびに種々の水質がセンサの定常応答値，Rs，におよぼす影響等を調べた．以下の結果を得た．1）400mesh館下のMnO2粒子を用いたことで，H2O2蒸留水溶液に対するセンサの感度は前報に比べて2倍以上向上し，その温度依存性は298Kを基準に288Kから308Kで10Kの上昇あたり約10%増加した．2）酸化性物質の蒸留水溶液に対するRsは無視小であった．酸化性物質とH2O2が共存する場合，Rsは4%以下の影響を受けた．水道水，NaClO水あるいは塩素水のH2O2水溶液に対するRsはH2O2の蒸留水溶液に対するRsよりも4–11%低下した．一方，H2O2の海水溶液では，H2O2の蒸留水溶液に対するRsとほぼ同値であった．
On-chip sensor selection for effective speed-binning (2014)

Advance in technology nodes of IC fabrication has introduced increased variation. This presents new challenges for delay testing. To address this challenge, speed-binning based on on-chip delay sensor measurements has been proposed as alternative to current speed-binning methods. This practice requires advanced data analysis techniques for the binning result to be accurate. In this paper, based on experiments with silicon data collected from on-chip delay sensors in a commercial design using a sub-65 nm process, we demonstrate that optimizing sensor selection can benefit speed-binning accuracy. An optimization algorithm is presented, and result showed it is capable of improving accuracy beyond 93%.
Electrochemical TEMPO-Catalyzed Multicomponent C(sp3)-H α-Carbamoylation of Free Cyclic Secondary Amines (2019)

We report here an original electrosynthetic method allowing the straightforward C(sp3)-H a-carbamoylation of free cyclic secondary amines. Based on a TEMPO-catalyzed indirect anodic oxidation and a multicomponent coupling, a wide variety of N-acyl alpha-carboxamides have been obtained in remarkably mild and sustainable reaction conditions.
Biosynthesis of L-Erythrose by Assembly of Two Key Enzymes in Gluconobacter oxydans (2017)

L-erythrose, a rare aldotetrose, possesses various pharmacological activities. However, efficient L-erythrose production is challenging. Currently, L-erythrose is produced by a two-step fermentation process from erythritol. Here, we describe a novel strategy for the production of L-erythrose in Gluconobacter oxydans (G. oxydans) by localizing the assembly of L-ribose isomerase (L-RI) to membrane-bound sorbitol dehydrogenase (SDH) via the protein-peptide interactions of the PDZ domain and PDZ ligand. To demonstrate this self-assembly, green fluorescent protein (GFP) replaced L-RI and its movement to membrane-bound SDH was observed by fluorescence microscopy. The final L-erythrose production was improved to 23.5 g/L with the stepwise metabolic engineering of G. oxydans, which was 1.4-fold higher than that obtained using coexpression of SDH and L-RI in G. oxydans. This self-assembly strategy shows remarkable potential for further improvement of L-erythrose production.
Neutrophil-to-lymphocyte ratio, Factor VIII and Antithrombin III: Inflammatory-clotting biomarkers in glioma (2021)

One of the key difficulties in glioma treatment is our limited ability to consistently assess cancer response or progression either by neuroimaging or specific blood biomarkers. An ideal biomarker could be measured through non-invasive methods such as blood-based biomarkers, aiding both early diagnosis and monitoring disease evolution. This is a single-center, case-control, 10-year retrospective, longitudinal study. We evaluated routine coagulation factors in 138 glioma patients (45 Females/93 Males; median [range] age, 56.4 [27-82] years; 64 non-recurrent/74 recurrent) and, for comparison, in 56 relapsing-remitting MS patients (41 Females/15 Males; 40.8 [25-62] years, 35 stable/21 active) and 23 controls (16 Females/7 Males; 41.7 [24-62] years) as well as Neutrophil-to-lymphocyte ratio (NLR) in subgroups of 127 glioma patients, 33 MS patients and 23 healthy controls. Secondly, we assessed whether these indicators could be predictive of overall (OS) and progression-free survival (PFS) in glioma patients. NLR, d-dimer, Antithrombin III and Factor VIII were significantly higher in glioma patients compared to both MS patients and controls (p<0.0001 for all). ROC curves confirmed that either NLR, Antithrombin III or Factor VIII were moderately accurate biomarkers (0.7<AUC<0.9) for glioma patients compared to other two groups whereas d-dimer was a moderately accurate marker for glioma only when compared to controls. In multivariable analysis, NLR ≥ 4.3 (median) (HR 1.53 [95 % CI 1.04-2.26], p=0.03) together with the Karnofsky Performance Status (KPS) ≥ 80 (median) (0.46 [0.31-0.69], p<0.0001) and use of steroids (1.75 [1.19-2.57], p=0.004) resulted independent predictors of OS while only KPS was independently associated with PFS. Our study showed increased levels of either NLR, Antithrombin III, Factor VIII, or d-dimer in glioma patients compared to MS patients and controls, where the first three represented moderately accurate biomarkers for this cancer. Among these markers, only NLR was found to be predictive for OS along with severe disability and steroid therapy.
Abstract 3093: AR responsive miR-148a targets p27 and regulates the cell cycle in LNCaP cells. (2013)

Abstract Prostate cancer is a commonly diagnosed malignancy and represents the second leading cause of cancer-related death in US men. Prostate cancer is initially dependent on androgens for survival and androgen signaling is mediated by the androgen receptor (AR). Due to the androgen dependency of prostate cancer, castration-therapy is a common course of action to combat the progression of this disease. However, almost inevitably, androgen independent prostate cancer later arises for which few strongly effective treatment options exist. In many of these cases, despite the androgen refractive nature of the disease, AR signaling is still necessary for the survival of the cancer but the downstream mechanisms that allow the AR to influence cellular proliferation remain to be fully understood. Further research elucidating these pathways is needed to discover novel therapeutic options for this disease. It has been shown that the AR represses the function of the cyclin dependent kinase inhibitor p27 but the way in which this happens is not completely known and seems to be multi-pronged. Research from Murata et al. (2010) demonstrated that miR-148a is an androgen responsive microRNA. Furthermore, it was shown by Guo et al. (2011) that miR-148a targets p27 in gastric cancer. Here we attempt to link these lines of research and uncover a novel pathway in which the relationship between the AR and p27 is mediated by miR-148a. We validated previous results showing that inhibition of AR signaling leads to an increase in p27 expression at both the protein and mRNA levels in the androgen responsive prostate cancer cell line LNCaP. It was shown that AR inhibition leads to an ∼2 fold decrease in miR-148a expression. Using a microRNA mimic, we demonstrated the ability of miR-148a to target p27 expression at both the protein and mRNA levels. We next showed that the miR-148a mimic can rescue the attenuated androgen signaling phenotype by reducing p27 levels and further demonstrate that this treatment leads to positive regulation of the cell cycle. Interestingly, inhibition of function using an antagomir against miR-148a leads to attenuated growth in LNCaPs suggesting a putative therapeutic angle by targeting this pathway. These results demonstrate a novel pathway mediated by the AR in which a miRNA is expressed which potentiates the cell cycle by targeting p27. Citation Format: Alan Lombard, Steve Libertini, Maria Mudryj. AR responsive miR-148a targets p27 and regulates the cell cycle in LNCaP cells. [abstract]. In: Proceedings of the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract nr 3093. doi:10.1158/1538-7445.AM2013-3093 Note: This abstract was not presented at the AACR Annual Meeting 2013 because the presenter was unable to attend.
Retention of Platelet Fibrin Stabilizing Factor during the Platelet Release Reaction and Clot Retraction (1973)

Summary Platelet FSF was found to be retained by rabbit, pig or human platelets during the release reaction induced by thrombin, collagen or plasmin and during a 2 hours incubation of platelet rich fibrin clots.
Evaluation of delivery agents used for introduction of small interfering RNAs into feline corneal cells (2013)

The tested anti-FHV-1-specific siRNAs could potentially be used as a treatment for FHV-1 if a successful means of in vivo delivery can be achieved.
Proyección de un hato de ganado de carne, bajo el parámetro capacidad de carga (1992)

La administracion tecnica de las haciendas ganaderas, es y debe ser un proceso completo, que involucra toda la gama de la problematica de la produccion, labor esta que amerita toda la importancia que de por si posee.
Dentro de todo ese complejo proceso, hay un punto fundamental, cual es la fase de la prevision, y en la produccion de ganado de carne en el pais, es ese precisamente uno de los “cuellos de botella” que mayores cuidados reclama por parte del tecnico o productor
En la produccion de ganado de carne, bajo los sistemas actualmente utilizados en Colombia, dicha fase de la prevision, se concentrara, casi exclusivamente en la correcta concatenacion de la capacidad de carga real o estimada de la superficie forrajera total, bajo un sistema de pastoreo determinado o bajo todos ellos y la proyeccion real del hato que se tendra o se debera tejer en esa superficie forrajera total, sin olvidar, ni por un instante la composicion ideal de ese hato, segun las funciones economicas o tecnicas que el hato deba cumplir, de acuerdo con los objetivos del plan de produccion previamente trazado.
Es por tanto, objetivo principal de este articulo, el trazar una linea de enfoque o conducta en la busqueda de soluciones a este tipo de problemas, dentro de la produccion pecuaria en el pais y en las condiciones actuales de produccion
Highly Photoactive, Low Bandgap TiO2 Nanoparticles Wrapped by Graphene (2012)

Highly photoactive, graphene-wrapped anatase TiO(2) nanoparticles are synthesized through one-step hydrothermal reduction of graphene oxide (GO) and TiO(2) crystallization from GO-wrapped amorphous TiO(2) NPs. Graphene-TiO(2) nanoparticles exhibit a red-shift of the band-edge and a significant reduction of the bandgap (2.80 eV). Graphene-TiO(2) nanoparticles possess excellent photocatalytic properties under visible light for the degradation of methylene blue.
High-resolution in vivo Wistar rodent brain atlas based on T1 weighted image (2016)

Image based atlases for rats brain have a significant impact on pre-clinical research. In this project we acquired T1-weighted images from Wistar rodent brains with fine 59<i>&mu;</i>m isotropical resolution for generation of the atlas template image. By applying post-process procedures using a semi-automatic brain extraction method, we delineated the brain tissues from source data. Furthermore, we applied a symmetric group-wise normalization method to generate an optimized template of T1 image of rodent brain, then aligned our template to the Waxholm Space. In addition, we defined several simple and explicit landmarks to corresponding our template with the well known Paxinos stereotaxic reference system. Anchoring at the origin of the Waxholm Space, we applied piece-wise linear transformation method to map the voxels of the template into the coordinates system in Paxinos' stereotoxic coordinates to facilitate the labelling task. We also cross-referenced our data with both published rodent brain atlas and image atlases available online, methodologically labelling the template to produce a Wistar brain atlas identifying more than 130 structures. Particular attention was paid to the cortex and cerebellum, as these areas encompass the most researched aspects of brain functions. Moreover, we adopted the structure hierarchy and naming nomenclature common to various atlases, so that the names and hierarchy structure presented in the atlas are readily recognised for easy use. It is believed the atlas will present a useful tool in rodent brain functional and pharmaceutical studies.
Effect of selection pressure for thiabendazole resistance on fitness of Haemonchus contortus in sheep (1990)

A strain of Haemonchus contortus showing moderate levels of resistance to thiabendazole (TBZ) (egg hatch assay LC50 2.1 microM) was subjected, in alternating sequence, to 5 in vitro and 4 in vivo selections with TBZ. This resulted in a significant increase in resistance (egg hatch assay LC50 2.8 microM). The isolates obtained after each combined in vitro and in vivo selection were compared in terms of egg hatch assay, establishment, net egg output, per capita egg output and degree of pathology caused in infected hosts. The increase in resistance was accompanied by a significant increase in larval establishment in sheep (22.8-39.2%) and was associated with more severe pathology, higher egg count and worm recovery 3 months post-infection. The resistant strains were also compared with a TBZ-susceptible strain (egg hatch assay LC50 1.0 microM). The TBZ-susceptible strain had the highest net egg output, it caused the most severe pathology and it resulted in higher worm recovery than any of the TBZ-resistant strains, although the most resistant strain was very similar to the TBZ-susceptible strain. Neither the per capita egg output nor biological features of the free-living stages were significantly affected by the degree of resistance. The implications of these observations for anthelmintic use and for management of nematode anthelmintic resistance in the field are discussed.