gebhart/patrepeval huggingface dataset:
Recombinant ferritin: modulation of subunit stoichiometry in bacterial expression systems (1997)

We describe a strategy for the creation of recombinant ferritin heteropolymers which mimic the natural heterogeneity of this protein. This method entailed the co-expression of cDNA for both ferritin H and ferritin L subunits in a single bacterium using either a bicistronic vector, in which both cDNAs were expressed from the vector, or a dual vector expression strategy, in which each subunit was expressed from a separate compatible plasmid in a single bacterial host. Electron microscopy and sucrose density gradient centrifugation demonstrated that ferritin assembled spontaneously in such bacteria to form catalytically active proteins of the expected size and shape. Isoelectric focusing revealed that protein isolated from any of these bacteria exhibited a restricted heterogeneity in subunit composition. Such multi-subunit recombinant ferritins spontaneously assembled in bacteria may be useful in further studies of ferritin assembly and function. Our results further suggest that varying expression levels is a simple way to alter levels of individual components within a multi-subunit recombinant protein, and that this approach may be of general utility in assessing the contribution of individual components to the function of multi-subunit proteins or protein complexes.
An Input Amplifier for Body-Channel Communication (2013)

Body-channel communication (BCC) is based on the principle of electrical field data transmission attributable to capacitive coupling through the human body. It is gaining importance now a day in the scenario of human centric communication because it truly offers a natural means of interaction with the human body. Traditionally, near field communication (NFC) considers as a magnetic field coupling based on radio frequency identification (RFID) technology. The RFID technology also limits the definition of NFC and thus reduces the scope of a wide range of applications. In recent years BCC, after its first origin in 1995, regain importance with its valuable application in biomedical systems. Primarily, KAIST and Philips research groups demonstrate BCC in the context of biomedical remote patient health monitoring system. BCC transceiver mainly consists of two parts: one is digital baseband and the other is an analog front end (AFE). In this thesis, an analog front end receiver has presented to support the overall BCC. The receiver (Rx) architecture consists of cascaded preamplifier and Schmitt trigger. When the signals are coming from the human body, they are attenuated around 60 dB and gives weak signals in the range of mV. A high gain preamplifier stage needs to amplify these weak signals and make them as strong signals. The preamplifier single stage needs to cascade for the gain requirement. The single stage preamplifier, which is designed with ST65 nm technology, has an open loop gain of 24.01 dB and close loop gain of 19.43 dB. A flipped voltage follower (FVF) topology is used for designing this preamplifier to support the low supply voltage of 1 V because the topology supports low voltage, low noise and also low power consumption. The input-referred noise is 8.69 nV/sqrt(Hz) and the SNR at the input are 73.26 dB. The Schmitt trigger (comparator with hysteresis) is a bistable positive feedback circuit. It builds around two stage OTA with lead frequency compensation. The DC gain for this OTA is 26.94 dB with 1 V supply voltage. The corner analyzes and eye diagram as a performance matrix for the overall receiver are also included in this thesis work.
Solving cluster ensemble problems by bipartite graph partitioning (2004)

A critical problem in cluster ensemble research is how to combine multiple clusterings to yield a final superior clustering result. Leveraging advanced graph partitioning techniques, we solve this problem by reducing it to a graph partitioning problem. We introduce a new reduction method that constructs a bipartite graph from a given cluster ensemble. The resulting graph models both instances and clusters of the ensemble simultaneously as vertices in the graph. Our approach retains all of the information provided by a given ensemble, allowing the similarity among instances and the similarity among clusters to be considered collectively in forming the final clustering. Further, the resulting graph partitioning problem can be solved efficiently. We empirically evaluate the proposed approach against two commonly used graph formulations and show that it is more robust and achieves comparable or better performance in comparison to its competitors.
Controlled Electroless Deposition of Noble Metal Nanoparticle Films on Germanium Surfaces (2002)

Thin noble metal films have been prepared as a result of the immersion of germanium substrates into dilute, aqueous solutions of AuCl4-, PdCl42-, or PtCl42-, respectively. Deposition proceeds via galvanic displacement in the absence of fluoride, pH adjusters, complexing agents, or external reducing agents. This manner of metal deposition serves as a cost-effective, high-throughput methodology with control over surface morphology and deposition rate by modulation of plating parameters such as concentration, temperature, and immersion time.
Combinatorial Peptide Libraries: Mining for Cell-Binding Peptides (2013)

ADVERTISEMENT RETURN TO ISSUEPREVReviewNEXTCombinatorial Peptide Libraries: Mining for Cell-Binding PeptidesBethany Powell Gray and Kathlynn C. Brown*View Author Information Department of Internal Medicine and The Simmons Comprehensive Cancer Center, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, Texas 75390-8807, United States*E-mail: [email protected]Cite this: Chem. Rev. 2014, 114, 2, 1020–1081Publication Date (Web):December 3, 2013Publication History Received22 March 2013Published online3 December 2013Published inissue 22 January 2014https://pubs.acs.org/doi/10.1021/cr400166nhttps://doi.org/10.1021/cr400166nreview-articleACS PublicationsCopyright © 2013 American Chemical SocietyRequest reuse permissionsArticle Views8832Altmetric-Citations181LEARN 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 SUBJECTS:Cells,Peptides and proteins,Receptors,Rodent models,Viruses Get e-Alerts
First Chromosomal Restriction Map ofActinobacillus pleuropneumoniaeand Localization of Putative Virulence-Associated Genes (1999)

Combined physical and genetic maps of the genomes of Actinobacillus pleuropneumoniae AP76 (serotype 7 clinical isolate) and of A. pleuropneumoniae ATCC 27088 (serotype 1 reference strain) were constructed by using the restriction endonucleases ApaI, AscI, NotI, and SalI. The chromosome sizes as determined by the addition of estimated fragment sizes were 2.4 Mbp, and both maps had a resolution of approximately 100 kbp. The linkages between the ApaI, AscI, NotI, and SalI fragments and their relative positions were determined by (i) fragment excision and redigestion and (ii) partial digests of defined fragments and Southern blot using end-standing probes. The single SalI site within the chromosome of strain A. pleuropneumoniae AP76 was defined as position 1 of the map; for the map of A. pleuropneumoniae ATCC 27088, the corresponding SalI site was chosen. Putative virulence-associated genes (apx, omlA, sodA, tbpBA, ureC, and a repeat element) and housekeeping genes (glyA, metJ, recA, and rhoAP) were positioned on the physical maps and located on the ApaI and NotI fragments of A. pleuropneumoniae serotype reference strains.
2001 Volvo Award Winner in Basic Science Studies: Effect of Nutrient Supply on the Viability of Cells From the Nucleus Pulposus of the Intervertebral Disc (2001)

The results support the idea that maximum cell density in the disc is regulated by nutritional constraints, and that a fall in nutrient supply reduces the number of viable cells in the disc and thus leads to degeneration.
Expression cloning of a human Fc receptor for IgA. (1990)

IgA, the predominant isotype in secretions, mediates the neutralization and removal of environmental antigens from mucosal sites. Although cell surface receptors for the Fc region of IgA (Fc alpha R) have been implicated in a variety of immune effector mechanisms, the molecular features of Fc alpha R remain only marginally characterized. In this report, we describe the isolation of a clone from a myeloid cell line cDNA library that directs the expression of a cell surface molecule with IgA binding specificity. The cDNA encodes a peptide of Mr 30,000 including a putative transmembrane region with features atypical of conventional membrane-anchored proteins. Databank searches indicate that the human myeloid cell Fc alpha R sequence is unique, is a member of the immunoglobulin gene superfamily, and is related to Fc receptors for IgG (Fc gamma RI, II, and III) and IgE (Fc epsilon RI).
Cased Hole Exploration: Modern Pulsed Neutron Techniques for Locating By-Passed Hydrocarbons in Old Wells (1996)

Abstract Many Permian Basin fields are considered "mature", with some of these fields almost depleted and/or undergoing water or CO2: flooding. Operators are being faced with decisions to P&amp;A or to recomplete in other zones, often with inadequate data. Unfortunately, many of these wells were logged before modem porosity logs were available. In other wells, for various reasons, the entire well was not logged. The integration of modem pulsed neutron technologies1 can. however, provide the operator with reservoir parameters from inside casing. For porosity, pulsed neutron systems can make a thermal neutron ratio porosity' (RPHI) similar in response to the compensated neutron. Pulse neutron systems can also be used to make a new type of porosity (IPHI) derived from gamma rays created by inelastic scattering of fast neutrons. IPHI is similar in response to an open hole density and can be crossplotted with RPHI to help identify lithology changes and differentiate tight zones from gas. The crossplotted porosity also helps compensate for lithology and gas effects, and to some extent for some variations in near wellbore environment. The crossplotted porosity can then be used with sigma and/or CATO2 to determine water saturation.
Expression and performance in transgenic pigs. (1990)

Recent research clearly shows that fusion genes can be microinjected into a pronucleus of an ovum and integrate into the pig genome. Animals with such fusion genes are called 'transgenic'. The percentage of injected ova that developed into transgenic pigs varied among experiments from 0.31% to 1.73%. The percentage of transgenic pigs that expressed the fusion gene ranged from 17% to 100%. Eleven different regulatory sequences have been used for fusion genes transferred into pigs. Some of these regulatory sequences directed strong gene expression, but control over level of expression was inadequate. Other regulatory sequences directed weak expression, but imparted only brief spikes of induced expression. The predominant gene coding sequences transferred were for growth-related hormones. Elevation of growth hormone (GH) in expressing transgenic pigs enhanced plasma concentrations of insulin-like growth factor-I (IGF-I), insulin, and glucose, improved feed efficiency about 15%, and markedly reduced subcutaneous fat compared to nontransgenic siblings. Growth rate was enhanced in some transgenic GH pigs but not in others, possibly due to dietary limits. The 'over-expression' of GH was detrimental to the general health of most transgenic pigs. The most prevalent problems were lethargy, lameness, and gastric ulcers. Gilts that expressed foreign GH genes were anoestrous. Boars that expressed foreign GH genes lacked libido, but their semen was fertile when used by artificial insemination. Six different fusion genes have been transmitted from transgenic founders to progeny. Most of the transgenic pigs that produced progeny transmitted the fusion gene as an autosomal dominant trait to about half of their progeny. Regulatory sequences that will permit full control of gene expression must be developed before the full potential of gene transfer in pigs can be realized.
Multicast routing in dense and sparse modes: simulation study of tradeoffs and dynamics (2002)

PIM (protocol independent multicast) is capable of supporting sparse mode (SM) and dense mode (DM) operations. In sparse mode, PIM can use shared trees (RPT) or shortest path trees (SPT) to deliver data packets. The availability of these various modes opens questions regarding when each should be used, and the consequences of switching among them dynamically. This paper reports on two specific issues: (1) the overhead tradeoffs between dense mode operations and sparse mode operations, (2) the behaviors of PIM when receivers transition from RPT to SPT. Our results illustrate the cross-over point of sparse mode and dense mode overheads, which gives a hint for selecting protocol modes according to the group density metric. We also show that the conditions under which packet losses occur due to SPT switch are rare.
Cloning and manipulation of the Escherichia coli cyclopropane fatty acid synthase gene: physiological aspects of enzyme overproduction (1984)

Like many other eubacteria, cultures of Escherichia coli accumulate cyclopropane fatty acids (CFAs) at a well-defined stage of growth, due to the action of the cytoplasmic enzyme CFA synthase. We report the isolation of the putative structural gene, cfa, for this enzyme on an E. coli-ColE1 chimeric plasmid by the use of an autoradiographic colony screening technique. When introduced into a variety of E. coli strains, this plasmid, pLC18-11, induced corresponding increases in CFA content and CFA synthase activity. Subsequent manipulation of the cfa locus, facilitated by the insertion of pLC18-11 into a bacteriophage lambda vector, allowed genetic and physiological studies of CFA synthase in E. coli. Overproduction of this enzyme via multicopy cfa plasmids caused abnormally high levels of CFA in membrane phospholipid but no discernable growth perturbation. Infection with phage lambda derivatives bearing cfa caused transient overproduction of the enzyme, although pL-mediated expression of cfa could not be demonstrated in plasmids derived from such phages. CFA synthase specific activities could be raised to very high levels by using cfa runaway-replication plasmids. A variety of physiological factors were found to modulate the levels of CFA synthase in normal and gene-amplified cultures. These studies argue against several possible mechanisms for the temporal regulation of CFA formation.
Mechanisms of genomic instability in human cancer: Insights from studies with human papillomavirus oncoproteins (2003)

Genomic instability is a hallmark of most human cancers including high-risk human papillomavirus (HPV)-associated anogenital neoplasia. The two HPV-encoded oncoproteins, E6 and E7, can independently induce chromosomal abnormalities. We summarize the current state of knowledge concerning HPV-induced genomic instability and discuss its significance in the context of human carcinogenesis.
The Sonic Hedgehog-Induced Type 3 Deiodinase Facilitates Tumorigenesis of Basal Cell Carcinoma by Reducing Gli2 Inactivation (2014)

Thyroid hormone (TH) is an important regulator of growth, development, and metabolism. Most of the active TH T3 is generated by peripheral TH metabolism mediated by the iodothyronine deiodinases. Type 3 deiodinase (D3) inactivates T3 via specific deiodination reactions. It is an oncofetal protein frequently expressed in neoplastic tissues and is a direct target of the sonic hedgehog (Shh) pathway in basal cell carcinomas (BCCs). However, the molecular mechanisms triggered by T3 in BCC are still mostly unrevealed. Here, we demonstrate that D3 action is critical in the proliferation and survival of BCC cells. D3 depletion or T3 treatment induce apoptosis of BCC cells and attenuate Shh signaling. This is achieved through a direct impairment of Gli2 protein stability by T3. T3 induces protein kinase A, which in turn destabilizes Gli2 protein via its C-terminal degron. Finally, in a mouse model of BCC, T3-topical treatment significantly reduces tumor growth. These results demonstrate the existence of a previously unrecognized cross talk between TH and Gli2 oncogene, providing functional and mechanistic evidence of the involvement of TH metabolism in Shh-induced cancer. TH-mediated Gli2 inactivation would be beneficial for therapeutically purposes, because the inhibition of Shh-Gli2 signaling is an attractive target for several anticancer drugs, currently in clinical trials.
Relapse of chronic myeloid leukemia after allogeneic bone marrow transplant: the case for giving donor leukocyte transfusions before the onset of hematologic relapse (1994)

Abstract Fourteen patients with chronic myeloid leukemia (CML) relapsing after allogeneic bone marrow transplant (BMT) were treated with leukocyte transfusions from the original marrow donor (sibling, n = 9; volunteer unrelated, n = 5). The relapse was defined at the molecular level in two cases, cytogenetically in five cases and hematologically in seven cases. Ten patients responded, seven of seven patients with cytogenetic/molecular relapse compared with three of seven with hematologic relapse (P &lt; .03). All five recipients of cells from unrelated donors responded. Eight of the 10 responders have achieved polymerase chain reaction-negative status and this persisted in three patients for more than 2 years; no responder has shown sign of relapse. Reversible marrow aplasia occurred in two patients, both treated in hematologic relapse. Severe graft-versus-host disease occurred in four patients and was fatal in one. We confirm previous reports that donor leukocyte transfusions are effective in the management of CML in relapse after BMT. In this series, therapeutic intervention before the onset of hematologic relapse was associated with an increased likelihood of response and no marrow aplasia.
Polymerized Ionic Liquids: The Effect of Random Copolymer Composition on Ion Conduction (2009)

Ionic conductivity in new polymerized ionic liquids is of great interest as it applies to solid-state electrolytes for electrochemical and electromechanical applications. In this study, an ionic liquid monomer was synthesized and polymerized into random copolymers and their ionic conductivity and structure were investigated as a function of copolymer composition. Both nonionic−ionic and ionic−ionic copolymers were synthesized, where the nonionic and ionic monomers were hexyl methacrylate (HMA) and a methacrylate-based imidizolium neutralized with tetrafluoroborate (BF4) or bis(trifluoromethane sulfonyl)imide (TFSI). In the nonionic−ionic copolymer, the ionic conductivity increased by over an order of magnitude with increasing HMA composition, even though the overall charge content decreased, because the addition of HMA significantly lowered the glass transition temperature. The ionic conductivity also increased by more than an order of magnitude in the ionic−ionic copolymer with increasing TFSI content, even though there was no change in the overall charge content, because substituting the larger anion TFSI for BF4 resulted in weaker ionic interactions and also significantly lowered the glass transition temperature. In both types of copolymers, the temperature dependence of the ionic conductivity was well described by both Arrhenius and Vogel−Tamman−Fulcher models. An important difference between the two classes of random copolymers was that the nonionic−ionic copolymer exhibited microphase separation in X-ray scattering that correlated with a discontinuity in the increasing ionic conductivity with increasing HMA content suggesting that structure can also play a significant role in ion transport in polymerized ionic liquids.
Inclusion Systems of Organic Molecules in Restacked Single-Layer Molybdenum Disulfide (1989)

Novel materials have been obtained by restacking single-layer molybdenum disulfide (MoS(2)) with organic molecules included between the layers. A large variety of organic molecules can be included between layers of MoS(2) and other transition-metal dichalcogenides. The films with the included organics are formed at the interface between an aqueous suspension of the MoS(2) and a water-immiscible organic liquid. The organic molecules are not necessarily electron donors. A highly oriented, conducting film of restacked MoS(2) containing ferrocene is presented as an example.
Multiple Nonprimary Motor Areas in the Human Cortex (1997)

We measured the distribution of regional cerebral blood flow with positron emission tomography while three subjects moved their hand, shoulder, or leg. The images were coregistered with each individual's anatomic magnetic resonance scans. The data were analyzed for each individual to avoid intersubject averaging and so to preserve individual gyral anatomy. Instead of inspecting all pixels, we prospectively restricted the data analysis to particular areas of interest. These were defined on basis of the anatomic and physiological literature on nonhuman primates. By examining only a subset of areas, we strengthened the power of the statistical analysis and thereby increased the confidence in reporting single subject data. On the lateral convexity, motor related activity was found for all three subjects in the primary motor cortex, lateral premotor cortex, and an opercular area within the premotor cortex. In addition, there was activation of somatosensory cortex (SI), the supplementary somatosensory area (SII) in the Sylvian fissure, and parietal association areas (Brodmann areas 5 and 40). There was also activation in the insula. We suggest that the activation in the dorsal premotor cortex may correspond with dorsal premotor area (PMd) as described in the macaque brain. We propose three hypotheses as to the probable location of vental premotor area (PMv) in the human brain. On the medial surface, motor-related activity was found for all three subjects in the leg areas of the primary motor cortex and somatosensory cortex and also activity for the hand, shoulder, and leg in the supplementary motor area (SMA) on the dorsal medial convexity and in three areas in the cingulate sulcus. We suggest that the three cingulate areas may correspond with rostral cingulate premotor area, dorsal cingulate motor area (CMAd), and ventral cingulate motor area (CMAv) as identified in the macaque brain. Somatotopic mapping was demonstrated in the primary motor and primary somatosensory cortex. In all three subjects, the arm region lay anterior to the leg region in parietal area 5. Also in all three subjects, the arm region lay anterior to the leg region in the supplementary motor cortex.