gebhart/patrepeval huggingface dataset:
Exchange of Heme among Hemoglobins and between Hemoglobin and Albumin (1968)

Intact heme groups undergo exchange between molecules of human hemoglobin under physiological conditions. This phenomenon requires the presence of ferrihemoglobin and is blocked by heme ligands or the prior binding of hemoglobin to haptoglobin. The kinetics of heme exchange between hemoglobins A and F allows a calculation of the rate constants for the dissociation of heme and globin. The rate of exchange of hemes between the non-α chains of ferrihemoglobins A and F is approximately 8 times that between the α chains. Mixtures of ferrihemoglobins and oxyhemoglobins exchange hemes at a rate greater than predicted from the rates of exchange observed in mixtures containing only oxyhemoglobin or ferrihemoglobin. Ferriheme groups also undergo exchange between hemoglobin not bound to haptoglobin and methemalbumin, although at equilibrium the affinity of human albumin for ferriheme is only about one-fifteenth that of globin. Only primate albumins possess appreciable affinity for ferriheme; albumins from the nonprimate species examined appeared to be incapable of forming methemalbumin. Depletion of hemes from ferrihemoglobin by excess human albumin leads to the accumulation of free, precipitable globin.
Altered TAB1:IκB Kinase Interaction Promotes Transforming Growth Factor β–Mediated Nuclear Factor-κB Activation during Breast Cancer Progression (2008)

The conversion of transforming growth factor beta (TGF-beta) from a tumor suppressor to a tumor promoter occurs frequently during mammary tumorigenesis, yet the molecular mechanisms underlying this phenomenon remain undefined. We show herein that TGF-beta repressed nuclear factor-kappaB (NF-kappaB) activity in normal NMuMG cells, but activated this transcription factor in their malignant counterparts, 4T1 cells, by inducing assembly of TGF-beta-activated kinase 1 (TAK1)-binding protein 1 (TAB1):I kappaB kinase beta (IKK beta) complexes, which led to the stimulation of a TAK1:IKK beta:p65 pathway. TAB1:IKK beta complexes could only be detected in NMuMG cells following their induction of epithelial-mesenchymal transition (EMT), which, on TGF-beta treatment, activated NF-kappaB. Expression of a truncated TAB1 mutant [i.e., TAB1(411)] reduced basal and TGF-beta-mediated NF-kappaB activation in NMuMG cells driven to undergo EMT by TGF-beta and in 4T1 cells stimulated by TGF-beta. TAB1(411) expression also inhibited TGF-beta-stimulated tumor necrosis factor-alpha and cyclooxygenase-2 expression in 4T1 cells. Additionally, the ability of human MCF10A-CA1a breast cancer cells to undergo invasion in response to TGF-beta absolutely required the activities of TAK1 and NF-kappaB. Moreover, small interfering RNA-mediated TAK1 deficiency restored the cytostatic activity of TGF-beta in MCF10A-CA1a cells. Finally, expression of truncated TAB1(411) dramatically reduced the growth of 4T1 breast cancers in syngeneic BALB/c, as well as in nude mice, suggesting a potentially important role of NF-kappaB in regulating innate immunity by TGF-beta. Collectively, our findings have defined a novel TAB1:TAK1:IKK beta:NF-kappaB signaling axis that forms aberrantly in breast cancer cells and, consequently, enables oncogenic signaling by TGF-beta.
Metabolite-binding RNA domains are present in the genes of eukaryotes (2003)

Genetic control by metabolite-binding mRNAs is widespread in prokaryotes. These riboswitches are typically located in noncoding regions of mRNA, where they selectively bind their target compound and subsequently modulate gene expression. We have identified mRNA elements in fungi and in plants that match the consensus sequence and structure of thiamine pyrophosphate-binding domains of prokaryotes. In Arabidopsis, the consensus motif resides in the 3'-UTR of a thiamine biosynthetic gene, and the isolated RNA domain binds the corresponding coenzyme in vitro. These results suggest that metabolite-binding mRNAs are possibly involved in eukaryotic gene regulation and that some riboswitches might be representatives of an ancient form of genetic control.
Nanoencapsulation of Stem Cells within Polyelectrolyte Multilayer Shells (2007)

Mouse mesenchymal stem cells have been individually encased by polyelectrolyte layers of poly (L-lysine) and hyaluronic acid using the electrostatic layer-by-layer assembly technique, resulting in a shell consisting of nanolayers of thickness around 6-9 nm. Maintenance of cell morphology and viability were demonstrated for up to one week. Further adjustments to shell permeability and flexibility will facilitate the use of these encapsulated cells in tissue engineering and targeted-delivery applications.
[The university hospital palliative care team's approach to the transfer of end-stage cancer patients from hospital care to home medical care]. (2009)

The palliative care team's roles are to provide a symptom relief to cancer patients, help them accept their medical conditions, and offer advice regarding the selection of appropriate medical treatments to suit their needs. Seeking the comfort of their homes, patients prefer a home care of superior medical care provided at hospitals. In 2008, 25 of the end-stage cancer patients at hospitals were expressed their desires to have a home medical care, and 10 of them were allowed to do so. We considered the following contributing factors that a patient should have for a smooth transition from hospital care to home medical care: (1) life expectancy of more than 2 months, (2) no progressive breathing difficulties experienced daily, (3) good awareness of medical condition among patients and families, (4) living with someone who has a good understanding of the condition, (5) availability of an appropriate hospital in case of a sudden change in medical requirements, and (6) good collaboration between emergency care hospitals, home physicians, and visiting nurses. To treat the end-stage cancer patients at home, there is a need for information sharing and a joint training of physicians specialized in cancer therapy, palliative care teams, home physicians, and visiting nurses. This would ensure a sustainable "face-to-face collaboration" in community health care.
Rep-Mediated Nicking of the Adeno-Associated Virus Origin Requires Two Biochemical Activities, DNA Helicase Activity and Transesterification (1999)

The single-stranded adeno-associated virus (AAV) genome is flanked by terminal hairpinned origins of DNA replication (terminal repeats [TRs]) that are nicked at the terminal resolution site (trs) by the AAV Rep protein in an ATP-dependent, site-specific manner. Here we determine the minimal trs sequence necessary for Rep cleavage, 3'-CCGGT/TG-5', and show that this 7-base core sequence is required only on the nicked strand. We also identify a potential stem-loop structure at the trs. Interestingly, Rep nicking on a TR substrate that fixes this trs stem-loop in the extruded form no longer requires ATP. This suggests that ATP-dependent Rep helicase activity is necessary to unwind the duplex trs and extrude the stem-loop structure, prior to the ATP-independent Rep transesterification reaction. The extrusion of origin stem-loop structures prior to nicking appears to be a general mechanism shared by plant and animal viruses and bacterial plasmids. In the case of AAV, this mechanism of TR nicking would provide a possible regulatory function.
Combination immunotherapy with 4-1BB activation and PD-1 blockade enhances antitumor efficacy in a mouse model of subcutaneous tumor. (2015)

The therapeutic strategy of targeting co-signal molecules has promising clinical applications in the future.
Mucosal Biofilm Formation on Middle-Ear Mucosa in the Chinchilla Model of Otitis Media (2002)

These preliminary findings provide evidence that mucosal biofilms form in an experimental model of otitis media and suggest that biofilm formation may be an important factor in the pathogenesis of chronic otitis media with effusion.
Photodynamic Therapy for the Treatment of Squamous Cell Carcinoma Using Benzoporphyrin Derivative (1994)

Human SCC in a nude mouse model responds to BPD-mediated PDT.
Selenium glutathione peroxidase: some aspects in man. (1998)

The levels of activity of selenium glutathione peroxidase (GSH-Px) in animals, in circulating blood cells, and in pathologic conditions in man are reviewed. The results are discussed in relation to circulating lipoperoxides and to selenium supplementation.
Fully Integrated Lab-on-a-Disc for Nucleic Acid Analysis of Food-Borne Pathogens (2014)

This paper describes a micro total analysis system for molecular analysis of Salmonella, a major food-borne pathogen. We developed a centrifugal microfluidic device, which integrated the three main steps of pathogen detection, DNA extraction, isothermal recombinase polymerase amplification (RPA), and detection, onto a single disc. A single laser diode was utilized for wireless control of valve actuation, cell lysis, and noncontact heating in the isothermal amplification step, thereby yielding a compact and miniaturized system. To achieve high detection sensitivity, rare cells in large volumes of phosphate-buffered saline (PBS) and milk samples were enriched before loading onto the disc by using antibody-coated magnetic beads. The entire procedure, from DNA extraction through to detection, was completed within 30 min in a fully automated fashion. The final detection was carried out using lateral flow strips by direct visual observation; detection limit was 10 cfu/mL and 10(2) cfu/mL in PBS and milk, respectively. Our device allows rapid molecular diagnostic analysis and does not require specially trained personnel or expensive equipment. Thus, we expect that it would have an array of potential applications, including in the detection of food-borne pathogens, environmental monitoring, and molecular diagnostics in resource-limited settings.
Genome-Wide Characterization of the Lignification Toolbox in Arabidopsis (2003)

Lignin, one of the most abundant terrestrial biopolymers, is indispensable for plant structure and defense. With the availability of the full genome sequence, large collections of insertion mutants, and functional genomics tools, Arabidopsis constitutes an excellent model system to profoundly unravel the monolignol biosynthetic pathway. In a genome-wide bioinformatics survey of the Arabidopsis genome, 34 candidate genes were annotated that encode genes homologous to the 10 presently known enzymes of the monolignol biosynthesis pathway, nine of which have not been described before. By combining evolutionary analysis of these 10 gene families with in silico promoter analysis and expression data (from a reverse transcription-polymerase chain reaction analysis on an extensive tissue panel, mining of expressed sequence tags from publicly available resources, and assembling expression data from literature), 12 genes could be pinpointed as the most likely candidates for a role in vascular lignification. Furthermore, a possible novel link was detected between the presence of the AC regulatory promoter element and the biosynthesis of G lignin during vascular development. Together, these data describe the full complement of monolignol biosynthesis genes in Arabidopsis, provide a unified nomenclature, and serve as a basis for further functional studies.
Hymns of the Ṛgveda (1963)

Most of the translations are only the imitations of interpretations which the mediaeval Hindus, as represented by Sayana, have offered. Griffith's is the only translation which, though guided by Sayana, ventures to deviate from him widely and frequently. It may be ranked as an independent translation hitherto made in English. But this century old translation needed re-editing, necessitating a new edition incorporating improvements without disturbing the original. In this edition the Greek letters have been romanized wherever there are references in the footnotes from the Greek language. The system of transcription has been modernized even in regard to Avestan words in the footnotes, following the system of Bartholomae. The complete translation has been published in a single volume for the convenience of the reader. Each and every figure in the index has been duly checked and revised.
Hepatitis E virus: The cause of a waterbourne hepatitis outbreak (1992)

Newly developed assays for antibody to hepatitis E virus (HEV) were used to study 114 serum samples collected during an outbreak of enterically transmitted hepatitis that occurred in Kashmir in 1978/9. The sera included samples from patients with viral hepatitis, anicteric hepatitis, contacts of cases, and unaffected persons. A total of 71% of patients with viral hepatitis were found positive for anti-HEV specific IgG, and 75% of these were also positive for IgM. These data confirm the hepatitis E virus as the causative agent in this outbreak.
Factors affecting the germination of spores of Bacillus anthracis (1987)

Spores of Bacillus anthracis germinated poorly at high cell densities unless the alanine racemase inhibitor O-carbamyl-D-serine was added to the germination medium. Spores derived from a variety of strains of B. anthracis germinated optimally at 22 degrees C. No correlation was found between rate of spore germination and virulence or between susceptibility of animal species to anthrax and spore germination rate using sera from those animals as the germination medium.
Branched RNA: A New Architecture for RNA Interference (2011)

Branched RNAs with two and four strands were synthesized. These structures were used to obtain branched siRNA. The branched siRNA duplexes had similar inhibitory capacity as those of unmodified siRNA duplexes, as deduced from gene silencing experiments of the TNF-α protein. Branched RNAs are considered novel structures for siRNA technology, and they provide an innovative tool for specific gene inhibition. As the method described here is compatible with most RNA modifications described to date, these compounds may be further functionalized to obtain more potent siRNA derivatives and can be attached to suitable delivery systems.
<title>Active microfluidic mixer for mixing of microparticles and liquids</title> (2000)

This paper presents a new active microfluidic mixer for mixing of microparticles and liquid samples using electrohydrodynamic (EHD) convection for applications in microfluidic-based biochemical analysis systems and biochips. To understand the EHD convection mixing, analytical analysis on the micro mixer have been performed for two different liquid samples with different electric conductivities. Through the analytical simulation, a new active micro mixer for both liquid/liquid mixing and liquid/microparticles mixing has been designed, fabricated, and demonstrated for application of a magnetic microbead- based analysis system. Magnetic beads that are dispersed in buffer solution have been fully mixed with the selected liquid sample while passing the mixing zone, which has voltage of between 7 to 25 V applied across it. Since the realized micro mixer has simple structure and no mechanically moving parts, it shows very reliable and repeatable mixing performance. The active micro mixing device studied in this work also shows feasible mixing capabilities of microparticles in naon- or pico-liter range of liquid volumes by applying a low voltage of 7 V across the microchannel. Furthermore reliable, robust mixing and manipulating of microparticles in liquid samples can be rapidly achieved.
Snakin-1, a Peptide from Potato That Is Active Against Plant Pathogens (1999)

A new type of antimicrobial peptide, snakin-1 (SN1), has been isolated from potato tubers and found to be active, at concentrations < 10 microM, against bacterial and fungal pathogens from potato and other plant species. The action of SN1 and potato defensin PTH1 was synergistic against the bacterium Clavibacter michiganensis subsp. sepedonicus and additive against the fungus Botrytis cinerea. Snakin-1 causes aggregation of both gram-positive and gram-negative bacteria. The peptide has 63 amino acid residues (M(r) 6,922), 12 of which are cysteines, and is unrelated to any previously isolated protein, although it is homologous to amino acid sequences deduced from cloned cDNAs that encode gibberellin-inducible mRNAs and has some sequence motifs in common with kistrin and other hemotoxic snake venoms. A degenerate oligonucleotide probe based on the internal sequence CCEECKC has been used to clone an SN1 cDNA. With the cDNA used as probe, one copy of the StSN1 gene per haploid genome has been estimated and expression of the gene has been detected in tubers, stems, axillary buds, and young floral buds. Expression levels in petals and carpels from fully developed flowers were much higher than in sepals and stamens. The expression pattern of gene StSN1 suggests that protein SN1 may be a component of constitutive defense barriers, especially those of storage and reproductive plant organs.
Syntheses and pharmacological analysis of new derivatives of tetrahydro-[1,3]-thiazine and 2-thiobarbituric acid. (1981)

Three groups of compounds:1,3-thiazine derivatives, 2-thiobarbituric acid derivatives and noncyclic thioureide were obtained as a result of condensation of some N, N1-derivatives of thiocarbamide and malonyl dichlorides, depending on the reaction conditions and chemical character of reagents. It was observed that the substituents beside nitrogen atoms of thiocarbamides, the kind of acid chloride and reaction conditions influenced the course of reaction. The structure of the newly synthesized compounds was proved by the analysis of PMR spectrum and the interpretation of IR spectrum. In the performed pharmacological examination immunotropic and anti-inflammatory activity of these compounds was determined. Among 1,3-thiazine derivatives, 5,5-diallyl-2-phenylimino-3-phenyl-2,3,4,5-tetrahydro-[1,3]-thiazine-4,6-dione and 5,5-diethyl-2-phenylimino-3-naphtyl-2,3,4,5-tetrahydro-[1,3]-thiazine-4,6-dione exhibited anti-inflammatory activity. The compounds also contained the immunotropic component, either stimulatory or suppressive, 2-thiobarbituric acid derivatives displayed stronger anti-inflammatory activity correlated mostly with the immunosuppressive activity. Some interdependence between chemical structure and biological activity in the group of the investigated 1,3-thiazines and 2-thiobarbituric acid derivatives was observed.
A Rhodamine-Based Fluorescent and Colorimetric Chemodosimeter for the Rapid Detection of Hg2+ Ions in Aqueous Media (2005)

A rhodamine-based fluorescent and colorimetric chemodosimeter for the rapid detection of Hg2+ ions in aqueous media was developed. The system, which utilizes an irreversible Hg2+-promoted oxadiazole forming reaction, responds instantaneously at room temperature in a 1:1 stoichiometric manner to the amount of Hg2+. The selectivity of this system for Hg2+ over other metal ions is remarkably high, and its sensitivity is below 2 ppb in aqueous solutions.
Comparison of human and mouse DAZL/BOLL expression patterns during meiosis. (2015)

&lt;p&gt;&lt;b&gt;A&lt;/b&gt;) DAZL and BOLL show distinct spatio-temporal distributions which change during human fetal ovarian development. The timeline is depicted in stages of meiosis in the human due to the wide range of germ cell developmental stages present at any specific week of gestation. DAZL is expressed before and at meiosis initiation but down-regulated afterwards; BOLL is transiently expressed at later stages of meiosis with minimal overlap with DAZL. DAZL is re-expressed in oocytes within primordial follicles. &lt;b&gt;B&lt;/b&gt;) Expression of Dazl and Boll during meiosis in the feto-neonatal mouse ovary. Dazl is expressed before and throughout meiosis, whereas Boll is detected only transiently expressed around E15.5.&lt;/p&gt;
Heterologous Gene Expression from Transmissible Gastroenteritis Virus Replicon Particles (2002)

We have recently isolated a transmissible gastroenteritis virus (TGEV) infectious construct designated TGEV 1000 (B. Yount, K. M. Curtis, and R. S. Baric, J. Virol. 74:10600-10611, 2000). Using this construct, a recombinant TGEV was constructed that replaced open reading frame (ORF) 3A with a heterologous gene encoding green fluorescent protein (GFP). Following transfection of baby hamster kidney (BHK) cells, a recombinant TGEV (TGEV-GFP2) was isolated that replicated efficiently and expressed GFP. Replicon constructs were constructed that lacked either the ORF 3B and E genes or the ORF 3B, E, and M genes [TGEV-Rep(AvrII) and TGEV-Rep(EcoNI), respectively]. As the E and M proteins are essential for TGEV virion budding, these replicon RNAs should replicate but not result in the production of infectious virus. Following cotransfection of BHK cells with the replicon RNAs carrying gfp, GFP expression was evident by fluorescent microscopy and leader-containing transcripts carrying gfp were detected by reverse transcription-PCR (RT-PCR). Subsequent passage of cell culture supernatants onto permissive swine testicular (ST) cells did not result in the virus, GFP expression, or the presence of leader-containing subgenomic transcripts, demonstrating the single-hit nature of the TGEV replicon RNAs. To prepare a packaging system to assemble TGEV replicon particles (TGEV VRP), the TGEV E gene was cloned into a Venezuelan equine encephalitis (VEE) replicon expression vector and VEE replicon particles encoding the TGEV E protein were isolated [VEE-TGEV(E)]. BHK cells were either cotransfected with TGEV-Rep(AvrII) (E gene deletion) and VEE-TGEV(E) RNA transcripts or transfected with TGEV-Rep(AvrII) RNA transcripts and subsequently infected with VEE VRPs carrying the TGEV E gene. In both cases, GFP expression and leader-containing GFP transcripts were detected in transfected cells. Cell culture supernatants, collected approximately 36 h posttransfection, were passed onto fresh ST cells where GFP expression was evident approximately 18 h postinfection. Leader-containing GFP transcripts containing the ORF 3B and E gene deletions were detected by RT-PCR. Recombinant TGEV was not released from these cultures. Under identical conditions, TGEV-GFP2 spread throughout ST cell cultures, expressed GFP, and formed viral plaques. The development of infectious TGEV replicon particles should assist studies of TGEV replication and assembly as well as facilitate the production of novel swine candidate vaccines.
Expression of calcyclin in human melanoma cell lines correlates with metastatic behavior in nude mice. (1992)

Since our aim was to isolate and identify new progression markers of human cutaneous melanoma, we applied the differential hybridization technique, in which we compared the gene expression in two subsequent stages of this progression. Tumors in nude mice arising after transplantation and serial passage in vivo of either the horizontally and early vertically growing part or the advanced vertically growing part of a primary melanoma of the same patient were used for this assay. This resulted in the isolation of a number of complementary DNA clones that were differentially expressed. Based on the marked difference in expression, one of them, designated pMW1, was chosen for further characterization and appeared to be coding for calcyclin, a cell cycle-regulated protein, belonging to a family of small calcium-binding proteins. Calcyclin expression was elevated in high-metastatic human melanoma cell lines in nude mice compared to low-metastatic ones. Immunoprecipitation of calcyclin showed that the differential expression at the RNA level is also reflected at the protein level. These findings show that expression of calcyclin is related to metastasis of human melanoma cell lines in nude mice and emphasize the role of this family of calcium-binding proteins in neoplastic progression as was reported for the mouse homologue of calcyclin and other members of the same family.