gebhart/patrepeval huggingface dataset:
Characterization of Tissue Tropism Determinants of Adeno-Associated Virus Type 1 (2003)

Muscle is an attractive target for gene delivery because of its mass and because vectors can be delivered in a noninvasive fashion. Adeno-associated virus (AAV) has been shown to be effective for muscle-targeted gene transfer. Recent progress in characterization of AAV serotype 1 (AAV1) and AAV6 demonstrated that these two AAV serotypes are far more efficient in transducing muscle than is the traditionally used AAV2. Since all cis elements are identical in these vectors, the potential determinants for their differences in transducing muscle appear to be located within the AAV capsid proteins. In the present study, a series of AAV capsid mutants were generated to identify the major regions affecting AAV transduction efficiency in muscle. Replacement of amino acids 350 to 736 of AAV2 VP1 with the corresponding amino acids from VP1 of AAV1 resulted in a hybrid vector that behaved very similarly to AAV1 in vitro and in vivo in muscle. Characterization of additional mutants carrying smaller regions of the AAV1 VP1 amino acid sequence in the AAV2 capsid protein suggested that amino acids 350 to 430 of VP1 function as a major tissue tropism determinant. Further analysis showed that the heparin binding domain and the major antigenic determinants in the AAV capsid region were not necessary for the efficiency of AAV1 transduction of muscle.
Role of the Major Heat Shock Proteins as Molecular Chaperones (1993)

Cells organize many of their biochemical reactions in non-membrane compartments. Recent evidence has shown that many of these compartments are liquids that form by phase separation from the cytoplasm. Here we discuss the basic physical concepts necessary ...Read More
Atrophy of Foot Muscles in Diabetic Patients Can Be Detected With Ultrasonography (2007)

Atrophy of intrinsic foot muscles determined at ultrasonography is directly related to foot muscle volume determined by MRI and to various measures of diabetic neuropathy. Ultrasonography seems to be useful for detection of foot muscle atrophy in diabetes.
Corrugation-pitch-modulated MQW-DFB laser with narrow spectral linewidth (170 kHz) (1990)

A spectral linewidth of 170 kHz was achieved at a 1.5- mu m wavelength in a 1200- mu m long corrugation-pitch-modulated (CPM) distributed feedback (DFB) laser having multiple quantum wells (MQW). This is the narrowest linewidth ever reported for InGaAsP DFB lasers. The CPM structure is effective in maintaining the single longitudinal mode at a high output power by suppressing the spatial hole burning effect. The linewidth-power product is 400 kHz-mW, and the extrapolated residual spectral linewidth is 150 kHz.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Production of alkaline xylanase by an alkaliphilic Bacillus sp. isolated from an alkalinesoda lake (1997)

Journal Article Production of alkaline xylanase by an alkaliphilic Bacillus sp. isolated from an alkalinesoda lake Get access A. Gessesse, A. Gessesse Department of Biology, Addis Ababa University, Addis Ababa, Ethiopia Dr A. Gessesse Department of Biology, Addis Ababa University, PO Box 1176, Addis Ababa, Ethiopia. Search for other works by this author on: Oxford Academic Google Scholar B.A. Gashe B.A. Gashe Department of Biological Sciences, University of Botswana, Gaborone, Botswana Search for other works by this author on: Oxford Academic Google Scholar Journal of Applied Microbiology, Volume 83, Issue 4, 1 September 1997, Pages 402–406, https://doi.org/10.1046/j.1365-2672.1997.00242.x Published: 01 September 1997 Article history Received: 21 October 1996 Revision received: 29 January 1997 Accepted: 30 January 1997 Published: 01 September 1997
Rolling circle replication requires single-stranded DNA binding protein to avoid termination and production of double-stranded DNA (2014)

In rolling circle replication, a circular template of DNA is replicated as a long single-stranded DNA concatamer that spools off when a strand displacing polymerase traverses the circular template. The current view is that this type of replication can only produce single-stranded DNA, because the only 3'-ends available are the ones being replicated along the circular templates. In contrast to this view, we find that rolling circle replication in vitro generates large amounts of double stranded DNA and that the production of single-stranded DNA terminates after some time. These properties can be suppressed by adding single-stranded DNA-binding proteins to the reaction. We conclude that a model in which the polymerase switches templates to the already produced single-stranded DNA, with an exponential distribution of template switching, can explain the observed data. From this, we also provide an estimate value of the switching rate constant.
Nucleotide sequence of the gene coding for the nitrogenase iron protein from Klebsiella pneumoniae. (1981)

We report the complete DNA sequence of the Klebsiella pneumoniae nifH gene, the gene which codes for component 2 (Fe protein or nitrogenase reductase) of the nitrogenase enzyme complex. The amino acid sequence of the K. pneumoniae nitrogenase Fe protein is deduced from the DNA sequence. The K. pneumoniae Fe protein contains 292 amino acids, has a Mr = 31,753, and contains 9 cysteine residues. We compare the amino acid sequence of the K. pneumoniae protein with available amino acid sequence data on nitrogenase Fe proteins from two other species, Clostridium pasteurianum and Azotobacter vinelandii. The C. pasteurianum Fe protein, for which the complete sequence is known, shows 67% homology with the K. pneumoniae Fe protein. Extensive regions of strong conservation (90-95%) are found, while other regions show relatively poor conservation (30-35%). It is suggested that these strongly conserved regions are of special importance to the function of this enzyme, and the findings are discussed in the light of evolutionary theories on the origin of nif genes.
Cyclic Division Algebras: A Tool for Space-Time Coding (2007)

Multiple antennas at both the transmitter and receiver ends of a wireless digital transmission channel may increase both data rate and reliability. Reliable high rate transmission over such channels can only be achieved through Space-Time coding. Rank and determinant code design criteria have been proposed to enhance diversity and coding gain. The special case of full-diversity criterion, requires that the difference of any two distinct codewords has full rank. Extensive work has been done on Space-Time coding, aiming to attain fully diverse codes with high rate. Division algebras have been proposed as a new tool for constructing Space-Time codes, since they are non-commutative algebras that naturally yield linear fully diverse codes. Their algebraic properties can thus be further exploited to improve the design of good codes. Cyclic Division Algebras: A Tool for Space-Time Coding provides a tutorial introduction to the algebraic tools involved in the design of codes based on division algebras. The different design criteria involved are illustrated, including the constellation shaping, the information lossless property, the non-vanishing determinant property and the diversity multiplexing tradeoff. Finally complete mathematical background underlying the construction of the Golden code and the other Perfect Space-Time block codes is given. Cyclic Division Algebras: A Tool for Space-Time Coding is for students, researchers and professionals working on wireless communication systems.
Intracellular pH measurements in Ehrlich ascites tumor cells utilizing spectroscopic probes generated in situ (1979)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIntracellular pH measurements in Ehrlich ascites tumor cells utilizing spectroscopic probes generated in situJohn A. Thomas, Robert N. Buchsbaum, Andrzej Zimniak, and Efraim RackerCite this: Biochemistry 1979, 18, 11, 2210–2218Publication Date (Print):May 1, 1979Publication History Published online1 May 2002Published inissue 1 May 1979https://pubs.acs.org/doi/10.1021/bi00578a012https://doi.org/10.1021/bi00578a012research-articleACS PublicationsRequest reuse permissionsArticle Views4053Altmetric-Citations1615LEARN 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
Electrochemical and In Situ Synchrotron XRD Studies on Al[sub 2]O[sub 3]-Coated LiCoO[sub 2] Cathode Material (2004)

Using a commercial available as starting material, surface-modified cathode material was obtained by coating its surface with a nanosize layer of amorphous Electrochemical performances and structural evolutions of the modified cathode material were characterized and compared with that of pristine Specific capacity of 190 mAh/g was obtained in -coated experimental cells when charged to 4.5 V. The relationship between the structural evolution and the electrochemical performances at overcharged state was investigated using in situ synchrotron X-ray diffraction (XRD). After charging the half-cell using uncoated as cathode, the variation of the c value in hexagonal structure is significantly reduced during subsequent cycles. This reduction in c variation range is concurrently related to the capacity fading. In contrast, the variation range of c is preserved in the -coated cathodes, and so is capacity. Based on these results, a capacity fading mechanism of -type cathode materials after overcharge is proposed, and an explanation of the surface coating effects is given. © 2004 The Electrochemical Society. All rights reserved.
Soluble tau Species, Not Neurofibrillary Aggregates, Disrupt Neural System Integration in a tau Transgenic Model (2011)

Neurofibrillary tangles are a feature of Alzheimer disease and other tauopathies, and although they are generally believed to be markers of neuronal pathology, there is little evidence evaluating whether tangles directly impact neuronal function. To investigate the response of cells in hippocampal circuits to complex behavioral stimuli, we used an environmental enrichment paradigm to induce expression of an immediate-early gene, Arc, in the rTg4510 mouse model of tauopathy. These mice reversibly overexpress P301L tau and exhibit substantial neurofibrillary tangle deposition, neuronal loss, and memory deficits. Using fluorescent in situ hybridization to detect Arc messenger RNA, we found that rTg4510 mice have impaired hippocampal Arc expression both without stimulation and in response to environmental enrichment; this likely reflects the combination of functional impairments of existing neurons and loss of neurons. However, tangle-bearing cells were at least as likely as non-tangle-bearing neurons to exhibit Arc expression in response to enrichment. Transgene suppression with doxycycline for 6 weeks resulted in increased percentages of Arc-positive cells in rTg4510 brains compared with untreated transgenics, restoring enrichment-induced Arc messenger RNA levels to that of wild-type controls despite the continued presence of neurofibrillary pathology. We interpret these data to indicate that soluble tau contributes to impairment of hippocampal function, although tangles do not preclude neurons from responding in a functional circuit.
Laminin E8 fragments support efficient adhesion and expansion of dissociated human pluripotent stem cells (2012)

Human embryonic stem cells (hESCs) and induced pluripotent stem cells (hiPSCs) have the potential to provide an infinite source of tissues for regenerative medicine. Although defined xeno-free media have been developed, culture conditions for reliable propagation of hESCs still require considerable improvement. Here we show that recombinant E8 fragments of laminin isoforms (LM-E8s), which are the minimum fragments conferring integrin-binding activity, promote greater adhesion of hESCs and hiPSCs than do Matrigel and intact laminin isoforms. Furthermore, LM-E8s sustain long-term self-renewal of hESCs and hiPSCs in defined xeno-free media with dissociated cell passaging. We successfully maintained three hESC and two hiPSC lines on LM-E8s in three defined media for 10 passages. hESCs maintained high level expression of pluripotency markers, had a normal karyotype after 30 passages and could differentiate into all three germ layers. This culture system allows robust proliferation of hESCs and hiPSCs for therapeutic applications.
A Practical Method for the Production of RNA and Ribozymes (2003)

As a result of both the therapeutrc () and structural () interest in RNA, there has been an increased demand for larger amounts of oligoribonucleotides. Although great progress has been made in improving the methods for DNA synthesis, such that production of large amounts has become commonplace, similar quantities of RNA are still difficult to obtain.
Microseizures and the spatiotemporal scales of human partial epilepsy (2010)

Focal seizures appear to start abruptly and unpredictably when recorded from volumes of brain probed by clinical intracranial electroencephalograms. To investigate the spatiotemporal scale of focal epilepsy, wide-bandwidth electrophysiological recordings were obtained using clinical macro- and research microelectrodes in patients with epilepsy and control subjects with intractable facial pain. Seizure-like events not detectable on clinical macroelectrodes were observed on isolated microelectrodes. These 'microseizures' were sparsely distributed, more frequent in brain regions that generated seizures, and sporadically evolved into large-scale clinical seizures. Rare microseizures observed in control patients suggest that this phenomenon is ubiquitous, but their density distinguishes normal from epileptic brain. Epileptogenesis may involve the creation of these topographically fractured microdomains and ictogenesis (seizure generation), the dynamics of their interaction and spread.
Ribozymes as Potential Anti-HIV-1 Therapeutic Agents (1990)

Certain RNA molecules, called ribozymes, possess enzymatic, self-cleaving activity. The cleavage reaction is catalytic and no energy source is required. Ribozymes of the "hammerhead" motif were identified in plant RNA pathogens. These ribozymes possess unique secondary (and possibly tertiary) structures critical for their cleavage ability. The present study shows precise cleavage of human immunodeficiency virus type 1 (HIV-1) sequences in a cell-free system by hammerhead ribozymes. In addition to the cell-free studies, human cells stably expressing a hammerhead ribozyme targeted to HIV-1 gag transcripts have been constructed. When these cells were challenged with HIV-1, a substantial reduction in the level of HIV-1 gag RNA relative to that in nonribozyme-expressing cells, was observed. The reduction in gag RNA was reflected in a reduction in antigen p24 levels. These results suggest the feasibility of developing ribozymes as therapeutic agents against human pathogens such as HIV-1.
Cold Acclimation and Freezing Stress Tolerance: Role of Protein Metabolism (1990)

Crop loss due to soil salinization is an increasing threat to agriculture worldwide. This review provides an overview of cellular and physiological mechanisms in plant responses to salt. We place cellular responses in a time- and tissue-dependent context ...Read More
Inhibition and synchronisation of tremor induced by a muscle twitch. (1980)

The effects of a muscle twitch on the tremor of the extensor indicis muscle and of the tibial anterior muscle have been recorded in 14 patients with essential tremor and in 10 patients with Parkinson's disease. The muscle twitch evoked by the electrical stimulation of the motor nerve inhibits the tremor and synchronises it. The mean duration of the inhibition is 92.1 +/- 6.8 ms for essential tremor and 183.0 +/- 16.8 ms for Parkinsonian tremor. This inhibitory phase lasts longer when the muscle twitch is induced during the second half of the Parkinsonian tremor cycle. The effects of voluntary contraction and of unloading suggest that inhibition and resetting of the tremor can be attributed to the autogenic mechanism induced by Ib fibres discharges. The presence of a rhythmic inhibition in the cycle of Parkinsonian tremor accounts for the longer duration of the inhibitory phase. In practice, these techniques aid the diagnosis of tremor in these two conditions, for example they assist the identification of low frequency essential tremor and of postural tremor in Parkinson's disease.
Recent Progress in the Research of Small Molecule HIV-1 RNase H Inhibitors (2014)

Reverse transcription of human immunodeficiency virus type 1 (HIV-1) is a crucial step in the life cycle initiated by the viral-coded reverse transcriptase (RT), functioning as RNA- and DNA-dependent DNA polymerase (RDDP and DDDP) and the ribonuclease H (RNase H). The RNase H functions to degrade the RNA strand of the RNA:DNA heteroduplex, which makes it an attractive target for rational anti-HIV-1 drug design and development. Although development of drugs targeting the DNA polymerase have been highly successful, the discovery of drugable inhibitors of HIV RNase H is still in its infancy and none of RNase H inhibitors has reached the clinical development stage currently. This review describes the recent progress in the HIV-1 RNase H inhibitors, focusing on their chemical feature, mechanism and the structure-activity relationship (SAR).
Pancreatic cancer associated ascites-derived CTL recognize a nine-amino-acid peptide GP2 derived from HER2/neu. (1999)

These results demonstrate that this HER2/neu derived peptide is a TAA in pancreatic carcinoma. The identification of the HER2/neu derived peptide GP2 as a TAA in pancreatic cancer provides an opportunity for the design of novel immunotherapy and vaccine strategies. The possibility of generating peptide-specific CTL from malignant ascites enables future studies to identify more antigens in this disease.
Insulin Independence After Islet Transplantation Into Type I Diabetic Patient (1990)

Effective clinical trials of islet transplantation have been limited by the inability to transplant enough viable human islets into patients with type I (insulin-dependent) diabetes mellitus to eliminate their exogenous insulin requirement. We report the first type I diabetic patient with an established kidney transplant on basal cyclosporin immunosuppression who was able to eliminate the insulin requirement after human islet transplantation into the portal vein. We successfully isolated approximately 800,000 islets that were 95% pure from 1.4 cadaver pancreases containing 121 U of insulin. Islets were proven viable by in vitro insulin response to glucose challenge. After 7 days of 24 degrees C culture, the islets were transplanted into the portal vein under local anesthesia. Seven days of Minnesota antilymphoblast globulin (20 mg/kg) administration followed the islet transplantation, with maintenance of the cyclosporin. Blood glucose was kept under strict control via intravenous insulin for 10 days posttransplantation, when all insulin therapy was stopped. Off insulin, the average 24-h blood glucose level remained less than 150 mg/dl, with the fasting glucose level at 115 +/- 6 mg/dl and the 2-h postprandial level at 141 +/- 8 mg/dl for 22 days posttransplantation (the time of this study). The C-peptide values post-Sustacal testing, although initially rising slower, exceeded the normal range, with peak values of 1.0-1.8 pmol/ml. This preliminary result represents the first essential step required to determine the feasibility of islet transplantation by future clinical trials.
Molecular barcodes detect redundancy and contamination in hairpin-bisulfite PCR (2004)

PCR amplification of limited amounts of DNA template carries an increased risk of product redundancy and contamination. We use molecular barcoding to label each genomic DNA template with an individual sequence tag prior to PCR amplification. In addition, we include molecular 'batch-stamps' that effectively label each genomic template with a sample ID and analysis date. This highly sensitive method identifies redundant and contaminant sequences and serves as a reliable method for positive identification of desired sequences; we can therefore capture accurately the genomic template diversity in the sample analyzed. Although our application described here involves the use of hairpin-bisulfite PCR for amplification of double-stranded DNA, the method can readily be adapted to single-strand PCR. Useful applications will include analyses of limited template DNA for biomedical, ancient DNA and forensic purposes.
Polarization-Sensitive Nanowire Photodetectors Based on Solution-Synthesized CdSe Quantum-Wire Solids (2007)

Polarization-sensitive photodetectors are demonstrated using solution-synthesized CdSe nanowire (NW) solids. Photocurrent action spectra taken with a tunable white light source match the solution linear absorption spectra of the NWs, showing that the NW network is responsible for the device photoconductivity. Temperature-dependent transport measurements reveal that carriers responsible for the dark current through the nanowire solids are thermally excited across CdSe band gap. The NWs are aligned using dielectrophoresis between prepatterned electrodes using conventional optical photolithography. The photocurrent through the NW solid is found to be polarization-sensitive, consistent with complementary absorption (emission) measurements of both single wires and their ensembles. The range of solution-processed semiconducting NW materials, their facile synthesis, ease of device fabrication, and compatibility with a variety of substrates make them attractive for potential nanoscale polarization-sensitive photodetectors.
Endothelial progenitor cells for regeneration. (2000)

Endothelial progenitor cells (EPCs) have been recently isolated from peripheral blood and bone marrow (BM), and shown to be incorporated into sites of physiological and pathological neovascularization in vivo. In contrast to differentiated endothelial cells (ECs), transplantation of EPCs successfully enhanced vascular development by in situ differentiation and proliferation within ischemic organs. Based on such a novel concept of closed up function on EPCs in postnatal neovascularization, the beneficial property of EPC is attractive for cell therapy as well as cell-mediated gene therapy applications targeting regeneration of ischemic tissue.
Estolides from meadowfoam oil fatty acids and other monounsaturated fatty acids (1993)

The formation of estolides was detected during the studies on dimerization of meadowfoam oil fatty acids. By adjusting the reaction conditions, it was possible to produce monoestolides with little dimer or trimer formations. Estolides have potential use in lubricant, cosmetic and ink formulations and in plasticizers. This paper reports the conditions for production of estolides from mixed meadow‐foam fatty acids, commercial oleic acid, high‐oleic sun‐flower oil fatty acids, cis ‐5, cis ‐13‐docosadienoic acid, petroselinic acid and linoleic acid.