gebhart/patrepeval huggingface dataset:
The Bcr-Abl kinase promotes aberrant expression of spliced oncogenic Ikaros isoforms in Philadelphia (Ph) positive acute lymphoblastic leukemia (ALL) patients treated with tyrosine kinase inhibitors (2008)

Background: The Bcr-Abl kinase expressed in ALL drives malignant transformation of human pre-B cells and promote aberrant alternative splicing of genes involved in B-cell signaling and differentiation. The fact that Ikaros (Ik) transcription factor functions as a critical regulator of normal lymphocyte development and the observation of rapid development of leukaemia in mice expressing non-DNA binding isoforms, prompted our study to investigate whether normal Ik expression and function might be altered in Ph+ ALL.\nPatients and methods: Bone marrow and peripheral blood samples from 47 adult patients (median age 55 yrs, 18-76) with Ph+ ALL were collected after informed consent. Reverse transcription-polymerase chain reaction (RT-PCR) using specific primers for exon 1 and exon 7 of Ik, cloning, nucleotide sequencing and western blot analyses were performed to identify the specific Ik isoforms.\n Results: In 43/47 (90%) patients the Ik6 isoform, lacking all N-terminal zinc-fingers responsible for DNA-binding, was detected and in 23 of them (54%) it was the predominant isoform. Ik6 expression strongly correlated with the BCR-ABL transcript levels suggesting that this alteration could depend on the Bcr-Abl activity. Patients expressed dominant-negative Ik6 at diagnosis and at the time of relapse, but never during remission. In the patients who seemed to express by RT-PCR only full-length Ik isoforms cloning and subsequent sequencing revealed clones harboring different transcripts. We detected an in frame deletion of 10 aa (ΔKSSMPQKFLG) at the end of ex6 due to the selection of an alternative donor splice site. The consequences were impaired activation of transcription and impaired ability to form dimers. We also observed isoforms with a 60-bp insertion (TYGADDFRDFHAIIPKSFSR) immediately upstream of exon 4 at the exon 2/exon 4 junction either alone or together with the in-frame deletion. Also in this in case the aberration is due to the selection of alternative splice site which determines the skipping of exon 3 and the insertion of a sequence inside the intron 3-4 which starts with an alternative acceptor splice site. Aberrant Ik isoforms had a cytoplasmatic localization as revealed by immunofluorescence and confocal laser scanning microscopy analyses.\nConclusions: Our data demonstrated that aberrant splicing of Ikaros represents a frequent feature in Ph+ ALL patients and that dominant negative Ik6 splice variant correlates with BCR-ABL mRNA levels, disease progression and relapse.
Identification of the pifC gene and its role in negative control of F factor pif gene expression (1983)

The pif region of the F factor includes two genes, pifA and pifB, that lead to abortive T7 infection. We have identified a new gene in this region, pifC, by constructing an in vitro fusion of pif DNA at 41.6 kilobases on the F factor physical map to the lacZ gene. A PifC-LacZ fusion protein of 149,000 daltons has been identified by immunoprecipitation and polyacrylamide gel electrophoresis. This allows us to assign the N terminus of pifC to 42.5 kilobases on the F map. Using fusions of pifC, pifA, and pifB to lacZ, we have studied the regulation of pif gene expression and have shown that the product of pifC negatively controls its own expression and that of pifA and pifB.
Integrated impedance spectroscopy chip for bio-sensors array: A system perspective (2012)

System design issues for an integrated impedance spectroscopy measurement system that can be used to measure the impedance of an electrode-electrolyte interface caused by bio-chemical interface for the array of biosensors are discussed in this work. Using the approach presented in this article, it is possible to measure the spatial and temporal distribution of bio-chemical interactions caused by in vitro activity of a slice of the neurons in real time. Standard instrumentation cannot be used for such measurements because of the many instruments needed, disturbances caused by long connecting wires, parasitic capacitances and resistances, and high cost, therefore, a miniaturized, integrated array of instruments is needed. In this article, we describe and evaluate possible different approaches, system design issues, and possible limitations for such an integrated impedance spectroscopy instrument.
Solution of Darcy inverse problem by a (1993)

A heuristic approach based on logarithmic finite elements is presented to solve Darcy inverse problem. The water head is approximated by nonconforming finite elements and the permeability field by a logarithmic finite element expansion. A set of approximate equations is derived to solve numerically Darcy weak problem. The degrees of freedom of the permeability field are initially set using the information available from in-situ experiments or laboratory tests. The program is first implemented to yield
Cubic Spline Baseline Estimation In Ambulatory ECg Recordings For The Measurement Of ST Segment Displacements (2005)

Correction of baseline wander is one of the major problems in ambulatory ECG analysis. In this work, the isoelectric line of the ECG signal is estimated by interpolating consecutive isoelectric points with third order lines. A fiducial point is found with minimization techniques in a 100 msec window before the peak of the R wave. The definition of a continuous line permits synchronous measurements at any point of the ST segment. The technique (called cubic spline interpolation) allows the development of a reliable beat-by-beat ST segment displacement signal.
Multi-split least-mean-square adaptive generalized sidelobe canceller for narrowband beamforming (2004)

This paper presents the multisplit LMS adaptive GSC for narrowband beamforming. We start from the classical GSC structure and then embed the multisplit preprocessing into the GSC signal blocking matrix. This operation leaves the multisplit LMS adaptive GSC with the same computational complexity as the classical LMS adaptive GSC. Interference cancellation simulations show that the adaptation of the GSC structure with the proposed multisplit scheme can be much faster when compared with the classical LMS algorithm.
Electrochemistry and Electrogenerated Chemiluminescence of a Novel Donor−Acceptor FPhSPFN Red Fluorophore (2010)

We report here the electrogenerated chemiluminescence (ECL) of a red fluorophore diphenylaminospirobifluorenylfumaronitrile (FPhSPFN). FPhSPFN contains two diphenylamino groups as strong electron donors at the ends linked through a nonplanar bulky spirobifluorene linker to a common fumaronitrile group as a strong electron acceptor. The cyclic voltammetry of this compound shows two one-electron transfer reduction waves and one single overall two-electron oxidation wave consisting of closely spaced waves with a peak separation of 63 mV. Chronoamperometry with an ultramicroelectrode (UME) confirmed that each reduction wave involves a 1e transfer and that the oxidation wave contains an overall 2e transfer. The first reduction wave is Nernstian, Eo1,red = −1.09 V versus SCE, and the second reduction wave, Eo2,red = −1.50 V versus SCE, produces a film on the electrode. By comparison to a digital simulation, the oxidation is assigned to two reversible, closely spaced, one-electron processes for oxidation with Eo1,ox = 1.05 V and Eo2,ox = 1.11 V versus SCE. A large wavelength shift (∼35 nm) was observed in ECL as compared to photoluminescence (PL). The ECL spectrum showed a maximum emission at 708 nm with a red-shifted shoulder at around 750 nm. ECL was studied in mixtures of benzene/acetonitrile at different composition ratios; an increase in the ratio of the ECL intensity of the shoulder with respect to the main peak emission was observed with increasing solvent polarity. ECL generated with BPO as a coreactant also showed the red-shifted shoulder at the same ratio as that with annihilation.
Chapter 1. Introduction (1976)

J. H. P. Utley and P. G. Sammes, Annu. Rep. Prog. Chem., Sect. B: Org. Chem., 1976, 73, 1 DOI: 10.1039/OC9767300001
Independent Control of Ion Transmission in a Jet Disrupter Dual-Channel Ion Funnel Electrospray Ionization MS Interface (2002)

A new atmospheric pressure ionization mass spectrometer (API-MS) interface has been developed to allow the control of ion transmission through the first vacuum stage of the mass spectrometer. The described interface uses a dual-heated capillary and a dual-inlet ion funnel design. Two electrosprays, aligned with the dual-capillary inlet, are used to introduce ions from different solutions independently into the MS. The initial design was specifically aimed at developing a method for the controlled introduction of calibrant ions in highly accurate mass measurements using Fourier transform ion cyclotron resonance mass spectrometer (FTICR). The dual-channel ion funnel has different inlet diameters that are aligned with the dual capillaries. The large diameter main channel of the ion funnel is used for analyte introduction to provide optimum ion transmission. The second, smaller diameter channel inlet includes a jet disrupter in the ion funnel to modulate the ion transmission through the channel. The two inlet channels converge into a single-channel ion funnel where ions from both channels are mixed, focused, and transmitted to the mass analyzer. Both theoretical simulations and experimental results show that the transmission of different m/z species in the small diameter channel of the ion funnel can be effectively modulated by varying the bias voltage on the jet disrupter. Both static and dynamic modulations of ion transmission are demonstrated experimentally by applying either a constant DC or a square waveform voltage to the jet disrupter. High ion transmission efficiency, similar to the standard single-channel ion funnel, is maintained in the main analyte channel inlet of the ion funnel over a broad m/z range with negligible "cross talk" between the two ion funnel inlet channels. Several possible applications of the new interface (e.g., for high-accuracy MS analysis of complex biological samples) are described.
Enzymatic production of D-mannitol with the<i>Leuconostoc</i><i>pseudomesenteroides m</i>annitol dehydrogenase coupled to a coenzyme regeneration system (2005)

The mannitol dehydrogenase of Leuconostoc pseudomesenteroides ATCC 12291 was studied for its characteristics and capacity for enzymatic mannitol synthesis, coupled to a coenzyme regeneration system. The producing strain was cultivated for 6.5 hours on a medium containing both D-glucose and D-fructose as carbon sources. Efficient release of the intracellular enzyme was obtained by cell treatment with toluene, Triton permeabilisation, or sonication. The crude enzyme extract showed optimal D-fructose reduction at pH 5.5 and 50°C, whereas D-mannitol oxidation was best at pH 8.0 and 40°C. The polyol dehydrogenase was stable up to 40°C and within the pH-range of 6.5–8.5. The crude enzyme extract displayed high substrate specificity. With NADPH, enzyme activity was only 30% of that observed with NADH. The molecular weight of the native enzyme was found to be 136 kDa. The mannitol dehydrogenase preparation was tested for its capacity to produce D-mannitol from D-fructose. Since the mannitol dehydrogenase is NADH-dependent, efficient coenzyme regeneration was needed. Regeneration of NADH from NAD+ was accomplished by formate dehydrogenase-mediated oxidation of formate into CO2. The best initial reaction rates were obtained with 0.5 mM NAD+ and 100 mM substrate.
Carboxyketenes from 4-Hydroxy-1,3-oxazin-6-ones and Meldrum's Acid Derivatives (2007)

New 4-hydroxy-1,3-oxazin-6-ones 8 and 16 were prepared from chlorocarbonyl(phenyl)ketene and amides. The flash vacuum thermolysis (FVT) reactions of these compounds and the 4-methoxy derivative 17 were investigated by Ar matrix isolation IR spectroscopy and online mass spectrometry including MS/MS analysis. Carboxy(phenyl)ketene 10 is formed as the major product by thermal fragmentation of 4-hydroxy-1,3-oxazin-6-one 8. This takes place via the unstable 6-hydroxy tautomer 9. Another tautomer, the 5H-isomer 12, leads to the formation of benzoyl isocyanate 13 as a minor product together with phenylketene 14. Carboxy(phenyl)ketene 10 remains detectable at high FVT temperatures but undergoes thermal decarboxylation to phenylketene 14. The same carboxy(phenyl)ketene 10 is also produced in significant amounts by FVT of 5-phenyl-Meldrum's acid 18 via the unstable enol tautomer 19. A small amount of the unsubstituted carboxyketene 20 is observable on FVT of Meldrum's acid 1 itself.
Synthesis, Characterization, and Applications of Dendrimer-Encapsulated Zero-Valent Ni Nanoparticles as Antimicrobial Agents (2013)

Dendrimers have emerged as one of the most promising, cost-effective synthesizing methodologies in which highly monodispersed metallic nanoparticles can be produced with varied chemical functionalities. In this report, we have investigated the synthesis and application of as-synthesized dendrimer-encapsulated zero-valent nickel “Ni(0)” nanoparticles (NPs), using a fourth generation (G4) NH 2 -terminated poly(amido)amine (PAMAM) dendrimer as the host template, as potential antimicrobial agents. Apparently, based on ultraviolet visible spectroscopy (UV-vis) and transmission electron microscopy (TEM) analyses, Ni(0) NPs with an average measured size less than 10 nm in diameter were formed within the interior void cavity of the dendrimer structure. X-ray diffraction (XRD) analysis indicates that the NPs exhibited a single-phased, face-centered-cubic (fcc) crystallographic structure. Furthermore, to evaluate the antimicrobial activity of the dendrimer-encapsulated Ni(0) NPs, disk diffusion assay and minimum inhibitory concentration (MIC) examinations, both antimicrobial tests, were conducted. Subsequently, UV-vis analyses, after exposure of the dendrimer-encapsulated Ni(0) NPs to both Gram-negative and Gram-positive bacteria, revealed that the dendrimer-encapsulated particles prevented the growth of bacteria during the culturing stage.
Influence of CdS window layers on thin film CdS/CdTe solar cell performance (2002)

The effects of reducing CdS thickness in the CdS/CdTe solar cells to increase J/sub SC/ are discussed. From spectral response (SR) measurements, it is shown that CdS and CdTe interdiffusion increases as CdS thickness decreases. Changes observed in the CdS and CdTe SR edges imply formation of both S-rich and Te-rich CdTe/sub 1-x/S/sub x/ regions. Other photocurrent losses in CdS/CdTe devices are quantified.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
The Proteome of Copper, Iron, Zinc, and Manganese Micronutrient Deficiency in Chlamydomonas reinhardtii (2012)

Trace metals such as copper, iron, zinc, and manganese play important roles in several biochemical processes, including respiration and photosynthesis. Using a label-free, quantitative proteomics strategy (MS(E)), we examined the effect of deficiencies in these micronutrients on the soluble proteome of Chlamydomonas reinhardtii. We quantified >10(3) proteins with abundances within a dynamic range of 3 to 4 orders of magnitude and demonstrated statistically significant changes in ~200 proteins in each metal-deficient growth condition relative to nutrient-replete media. Through analysis of Pearson's coefficient, we also examined the correlation between protein abundance and transcript abundance (as determined via RNA-Seq analysis) and found moderate correlations under all nutritional states. Interestingly, in a subset of transcripts known to significantly change in abundance in metal-replete and metal-deficient conditions, the correlation to protein abundance is much stronger. Examples of new discoveries highlighted in this work include the accumulation of O(2) labile, anaerobiosis-related enzymes (Hyd1, Pfr1, and Hcp2) in copper-deficient cells; co-variation of Cgl78/Ycf54 and coprogen oxidase; the loss of various stromal and lumenal photosynthesis-related proteins, including plastocyanin, in iron-limited cells; a large accumulation (from undetectable amounts to over 1,000 zmol/cell) of two COG0523 domain-containing proteins in zinc-deficient cells; and the preservation of photosynthesis proteins in manganese-deficient cells despite known losses in photosynthetic function in this condition.
Immune Cell Toll-Like Receptor 4 Is Required for Cardiac Myocyte Impairment During Endotoxemia (2004)

The aim of this study was to investigate the importance of Toll-like receptor 4 (TLR4) signaling on cardiac myocytes versus immune cells in lipopolysaccharide (LPS)-induced cardiac dysfunction. Cardiac myocytes isolated from LPS-treated C57Bl/6 mice showed reduced shortening and calcium transients as compared with myocytes from untreated mice. In addition, LPS-treated C57Bl/6 mice showed impaired cardiac mitochondrial function, including reduced respiration and reduced time of induction of permeability transition. All of the aforementioned cardiac dysfunction was dependent on TLR4, because LPS-treated TLR4-deficient mice did not have reduced myocyte shortening or mitochondrial dysfunction. To evaluate the role of cardiac myocyte versus leukocyte TLR4, LPS was injected into chimeric mice with TLR4-positive leukocytes and TLR4-deficient myocytes. These mice showed reduced myocyte shortening in response to LPS. Myocytes from chimeric mice with TLR4-deficient leukocytes and TLR4-positive myocytes had no response to LPS. In addition, isolated myocytes from C57Bl/6 mice subsequently treated with LPS and serum for various times did not have reduced shortening, despite the presence of TLR4 mRNA and protein, as determined by reverse-transcription polymerase chain reaction and fluorescent-activated cell sorting. In fact, cardiac myocytes had equivalent amounts of TLR4 as endothelium; however, only the latter is responsive to LPS. Furthermore, signaling pathways downstream of TLR4 were not activated during direct LPS treatment of myocytes. In conclusion, TLR4 on leukocytes, and not on cardiac myocytes, is important for cardiac myocyte impairment during endotoxemia.
LMS Algorithm for Blind Adaptive Nonlinear Compensation (2005)

This paper presents low-complexity blind adaptive nonlinear compensation algorithms for bandlimited signals. The new algorithms utilize highpass filtering to extract the out-of-band signal energy caused by nonlinear distortion. A least-mean-square (LMS) algorithm and its normalized version are derived based on minimization of the square of the extracted out-of-band signal without access to the original input signal or prior knowledge of the nonlinearity. In this sense the developed algorithms are "blind" and only require prior knowledge of the signal bandwidth. Unlike the Pth-order power series inverse, the proposed nonlinear compensation method is not affected adversely by large input amplitudes. The effectiveness of the online algorithms is illustrated with several simulation examples.
Beta Acetylenic Grignard Reagents. I. Hydrolysis and Carbonation of γ-Phenylpropargylmagnesium Bromide (1949)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTBeta Acetylenic Grignard Reagents. I. Hydrolysis and Carbonation of γ-Phenylpropargylmagnesium BromideGerald R. LappinCite this: J. Am. Chem. Soc. 1949, 71, 12, 3966–3968Publication Date (Print):December 1, 1949Publication History Published online1 May 2002Published inissue 1 December 1949https://pubs.acs.org/doi/10.1021/ja01180a023https://doi.org/10.1021/ja01180a023research-articleACS PublicationsRequest reuse permissionsArticle Views234Altmetric-Citations10LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Immunochemical studies on an IgG lambda cryoglobulin in cold‐induced urticaria (1984)

A type I cryoglobulinaemia associated with cold-induced urticaria was demonstrated in a 64-year-old woman without primary disease. The cryoglobulin contained only IgG lambda as disclosed by immunofixation technique. Different physicochemical studies indicated that the IgG lambda component was monomeric at temperatures above 35 degrees C, but became polymerized below 35 degrees C. In addition crossed immunoelectrophoresis of plasma fibronectin from the patient showed a heterogeneous precipitate at low temperatures but a homogeneous precipitate at 25 degrees C indicating a complex formation at low temperature between IgG lambda and fibronectin. Fibronectin, however, was not essential for the cold precipitation of the cryoglobulin. The precipitation phenomenon at low temperatures was found to be a result of the physicochemical properties of the cryoglobulin itself unrelated to the antibody specificities tested. The importance of performing the immunochemical and physicochemical techniques at low temperature (7 degrees C) and at high temperature (35 degrees C) to gain knowledge of the nature of the protein, is emphasized. We conclude that only results obtained by relevant laboratory procedures might lead to correct classification and understanding of cryoglobulinaemia.
Perceived Exertion in Fatiguing Illness: Civilians with Chronic Fatigue Syndrome (2003)

Our results show that RPE are greater in civilians with CFS when the data are expressed in terms of absolute exercise intensity. However, by examining RPE relative to a common maximum (i.e., peak [OV0312]O(2)) no differences were observed. The findings of the present investigation challenge the notion that RPE are dysregulated in CFS.
Silver‐Catalyzed Cycloisomerization Reactions (2010)

This chapter contains sections titled: Introduction Cycloisomerization of CO onto CCC Cycloisomerization of CO onto CC Cycloisomerization of CN onto CCC Cycloisomerization of CN onto CC Ene–Yne Cycloisomerization: CC onto CC Other Transformations Conclusion References