gebhart/patrepeval huggingface dataset:
p21-activated kinase 4 interacts with integrin αvβ5 and regulates αvβ5-mediated cell migration (2002)

p21-activated kinase 1 (PAK1) can affect cell migration (Price et al., 1998; del Pozo et al., 2000) and modulate myosin light chain kinase and LIM kinase, which are components of the cellular motility machinery (Edwards, D.C., L.C. Sanders, G.M. Bokoch, and G.N. Gill. 1999. Nature Cell Biol. 1:253-259; Sanders, L.C., F. Matsumura, G.M. Bokoch, and P. de Lanerolle. 1999. SCIENCE: 283:2083-2085). We here present a novel cell motility pathway by demonstrating that PAK4 directly interacts with an integrin intracellular domain and regulates carcinoma cell motility in an integrin-specific manner. Yeast two-hybrid screening identified PAK4 binding to the cytoplasmic domain of the integrin beta 5 subunit, an association that was also found in mammalian cells between endogenous PAK4 and integrin alpha v beta 5. Furthermore, we mapped the PAK4 binding to the membrane-proximal region of integrin beta 5, and identified an integrin-binding domain at aa 505-530 in the COOH terminus of PAK4. Importantly, engagement of integrin alpha v beta 5 by cell attachment to vitronectin led to a redistribution of PAK4 from the cytosol to dynamic lamellipodial structures where PAK4 colocalized with integrin alpha v beta 5. Functionally, PAK4 induced integrin alpha v beta 5-mediated, but not beta1-mediated, human breast carcinoma cell migration, while no changes in integrin cell surface expression levels were observed. In conclusion, our results demonstrate that PAK4 interacts with integrin alpha v beta 5 and selectively promotes integrin alpha v beta 5-mediated cell migration.
Targeting of pro-apoptotic TLR adaptor SARM to mitochondria: definition of the critical region and residues in the signal sequence (2011)

The fifth and the most well-conserved member of the TLR (Toll-like receptor) adaptor, SARM (sterile α- and HEAT/armadillo-motif-containing protein), has been reported to be an important mediator of apoptosis. However, the exact cellular localization of SARM with respect to its role is unclear. In the present study we show that SARM specifically co-localizes with mitochondria. Endogenous SARM is mainly found in the mitochondria. We demonstrate that the N-terminal 27 amino acids (S27) of SARM, which is hydrophobic and polybasic, acts as a mitochondria-targeting signal sequence, associating SARM to the mitochondria. The S27 peptide has an inherent ability to bind to lipids and mitochondria. This sequence effectively translocates the soluble EGFP (enhanced green fluorescence protein) reporter into the mitochondria. Positioning S27 downstream of the EGFP abrogates its mitochondria-targeting ability. Transmission electron microscopy confirms the ability of S27 to import EGFP into the mitochondria. Importantly, by mutagenesis study, we delineated the specificity of the mitochondria-targeting ability to the arginine residue at the 14th position. The R14A SARM mutant also showed reduced apoptotic potential when compared with the wild-type. Taken together, S27, which is a bona fide signal sequence that targets SARM to the mitochondria, explains the pro-apoptotic activity of SARM.
Improved aortic pulse wave velocity assessment from multislice two‐directional in‐plane velocity‐encoded magnetic resonance imaging (2010)

PWV(i.p.) is an improvement over conventional PWV(t.p.) by showing higher agreement as compared to the gold standard (PWV(pressure)) and higher reproducibility for repeated MRI assessment.
Update: Interim Guidance for Preconception Counseling and Prevention of Sexual Transmission of Zika Virus for Persons with Possible Zika Virus Exposure — United States, September 2016 (2016)

CDC has updated its interim guidance for persons with possible Zika virus exposure who are planning to conceive (1) and interim guidance to prevent transmission of Zika virus through sexual contact (2), now combined into a single document. Guidance for care for pregnant women with possible Zika virus exposure was previously published (3). Possible Zika virus exposure is defined as travel to or residence in an area of active Zika virus transmission (http://www.cdc.gov/zika/geo/index.html), or sex* without a condom<sup>†</sup> with a partner who traveled to or lived in an area of active transmission. Based on new though limited data, CDC now recommends that all men with possible Zika virus exposure who are considering attempting conception with their partner, regardless of symptom status,<sup>§</sup> wait to conceive until at least 6 months after symptom onset (if symptomatic) or last possible Zika virus exposure (if asymptomatic). Recommendations for women planning to conceive remain unchanged: women with possible Zika virus exposure are recommended to wait to conceive until at least 8 weeks after symptom onset (if symptomatic) or last possible Zika virus exposure (if asymptomatic). Couples with possible Zika virus exposure, who are not pregnant and do not plan to become pregnant, who want to minimize their risk for sexual transmission of Zika virus should use a condom or abstain from sex for the same periods for men and women described above. Women of reproductive age who have had or anticipate future Zika virus exposure who do not want to become pregnant should use the most effective contraceptive method that can be used correctly and consistently. These recommendations will be further updated when additional data become available.
Computational complex optical field imaging using a designed metasurface diffuser (2018)

Various speckle-based computational imaging techniques that exploit the ability of scattering media to transfer hidden information into the speckle pattern have recently been demonstrated. Current implementations suffer from several drawbacks associated with the use of conventional scattering media (CSM), such as their time-consuming characterization, instability with time, and limited memory-effect range. Here we show that by using a random dielectric metasurface diffuser (MD) with known scattering properties, many of these issues can be addressed. We experimentally demonstrate an imaging system with the ability to retrieve complex field values using a MD and the speckle-correlation scattering matrix method. We explore the mathematical properties of the MD transmission matrix such as its correlation and singular value spectrum to expand the understanding about both MDs and the speckle-correlation scattering matrix approach. In addition to a large noise tolerance, reliable reproducibility, and robustness against misalignments, using the MD allows us to substitute the laborious experimental characterization procedure of the CSM with a simple simulation process. Moreover, dielectric MDs with identical scattering properties can easily be mass-produced, thus enabling real-world applications. Representing a bridge between metasurface optics and speckle-based computational imaging, this work paves the way to extending the potentials of diverse speckle-based computational imaging methods for various applications such as biomedical imaging, holography, and optical encryption.
Face recognition with CTFM sonar (2005)

The use of biometrics, such as iris, thumbprints, voice, face, etc, for authentication have become commonplace. In this research, we are attempting to classify human faces using CTFM (Continuously Transmitted Frequency Modulated) sonar in place of the normally used computer vision. However, for this preliminary paper, the main objectives are to find out the range relationships between human facial features and how they are represented in echoes, and to test the quality of echo features for three faces from a single orientation. The tested features are features that were effective in past research into classifying objects from ultrasonic echoes. We measure the quality of these features using a minimum Euclidean distance criterion. Actual classification of faces will be attempted at a later phase.
The Mechanism of Action of Isothiazolone Biocide (2006)

Isothiazolone biocides have proven efficacy and performance for microbial control in a variety of industrial water treatment applications. Understanding the mechanism of action of industrial biocides is important in optimizing their use and combating resistance if encountered. Isothiazolones utilize a two-step mechanism involving rapid inhibition (minutes) of growth and metabolism, followed by irreversible cell damage resulting in loss of viability (hours). Cells are inhibited by disruption of the metabolic pathways involving dehydrogenase enzymes. Critical physiological functions are rapidly inhibited in microbes, including growth, respiration (oxygen consumption), and energy generation (adenosine triphosphate synthesis). Cell death results from the destruction of protein thiols and production of free radicals. The rate and extent of killing may be enhanced by various adjuvants including surfactants. This unique mechanism results in a broad spectrum of activity, low use levels, and difficulty in attaining resistance.
Advances in objective voice quality assessment (2002)

The authors review the status of objective voice quality technology, including four newer techniques being considered by CCITT. Also included are results of applying the four methods to a speech dataset that represents three different languages and a variety of impairments. Data are used to compare and contrast the relative advantages and disadvantages of the assessment techniques. A discussion of problems involving with interpreting results of objective performance tests is presented. Finally, the relative reliability and accuracy of objective and subjective techniques are discussed and compared.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Purification of Schistosoma Mansoni Egg Antigens: Theory and Practice (1977)

With the current burgeoning of interest in the immunology of parasitic disease, parasite immunochemistry is finally beginning to come of age. In the 1960s immunochemical research was primarily concerned with identifying serological antigens. Methods such as immunodiffusion and immunoelectrophoresis found acceptance among those interested in schistosomiasis and application to that parasitic infection. In the late 1970s emphasis has fallen on the purification of parasite antigens with special emphasis on their characterization and biological properties. Considerable progress on fractionating protozoal antigens has been made, culminating in the elegant studies of Cross et al. characterizing the molecular structure of the trypanosome surface coat antigens. In non-protozoal helminth systems, studies of Echinococcus granulosus have identified the immunodominant antigens which have proven useful in the serodiagnosis of human disease. However, research on the major helminth pathogen of man, Schistosoma, has neither equalled the molecular elegance of trypanosome work nor achieved the practical consequences of Echinococcus immunochemistry.
Low-sensitivity switched-capacitor ladder filters (1980)

A switched-capacitor filter design technique based on the LDI transformation is presented which uses a novel floating inductance simulation circuit. By choosing the filter terminations properly, the circuits are shown to preserve the maximum power transfer property. A low-pass filter design example is presented to illustrate the low-sensitivity property of this technique.
The limited performance benefits of migrating active processes for load sharing (1988)

Load sharing in a distributed system is the process of transparently sharing workload among the nodes in the system to achieve improved performance. In non-migratory load sharing, jobs may not be transferred once they have commenced execution. In load sharing with migration , on the other hand, jobs in execution may be interrupted, moved to other nodes, and then resumed. In this paper we examine the performance benefits offered by migratory load sharing beyond those offered by non-migratory load sharing. We show that while migratory load sharing can offer modest performance benefits under some fairly extreme conditions, there are no conditions under which migration yields major performance benefits.
Biomarker guided triage can reduce hospitalization rate in community acquired febrile urinary tract infection (2018)

MR-proADM could accurately predict a severe course in patients with fUTI, and identify greater patient numbers who could be safely managed as outpatients. An initial assessment on ED presentation may focus resources to patients with highest disease severities.
C3a receptor blockade protects podocytes from injury in diabetic nephropathy (2020)

Renal activation of the complement system has been described in patients with diabetic nephropathy (DN), although its pathological relevance is still ill-defined. Here, we studied whether glomerular C3a, generated by uncontrolled complement activation, promotes podocyte damage, leading to proteinuria and renal injury in mice with type 2 diabetes. BTBR ob/ob mice exhibited podocyte loss, albuminuria, and glomerular injury accompanied by C3 deposits and increased C3a and C3a receptor (C3aR) levels. Decreased glomerular nephrin and α-actinin4 expression, coupled with integrin-linked kinase induction, were also observed. Treatment of DN mice with a C3aR antagonist enhanced podocyte density and preserved their phenotype, limiting proteinuria and glomerular injury. Mechanistically, ultrastructural and functional mitochondrial alterations, accompanied by downregulation of antioxidant superoxide dismutase 2 (SOD2) and increased protein oxidation, occurred in podocytes and were normalized by C3aR blockade. In cultured podocytes, C3a induced cAMP-dependent mitochondrial fragmentation. Alterations of mitochondrial membrane potential, SOD2 expression, and energetic metabolism were also found in response to C3a. Notably, C3a-induced podocyte motility was inhibited by SS-31, a peptide with mitochondrial protective effects. These data indicate that C3a blockade represents a potentially novel therapeutic strategy in DN for preserving podocyte integrity through the maintenance of mitochondrial functions.
Retinopathy in a novel model of metabolic syndrome and type 2 diabetes: new insight on the inflammatory paradigm (2014)

The pathogenesis of diabetic retinopathy (DR) in metabolic syndrome (MetS) and type 2 diabetes (T2D) is not well studied, partly because an appropriate model has not been developed. Recently, we introduced a novel model of spontaneous T2D and MetS that replicates the relevant features of the human disease. In the current study, we investigated the retinal vascular changes in these animals. Experimental DR in streptozotocin (STZ)-injected rodents is described as an inflammatory disease, in which intercellular adhesion molecule 1 (ICAM-1) plays a key role. In comparison, advanced diabetes (HbA1c>10%) in the Nile grass rat (NGR) was associated with lower ICAM-1 protein expression when compared with that in normal or moderately diabetic animals. Vascular cell adhesion molecule 1 (VCAM-1) expression, however, was unaffected by the disease state. As opposed to the STZ-induced model of DR, in diabetic NGRs, most leukocytes accumulated in the retinal arteries. Consistent with the ICAM-1 reduction, leukocyte accumulation was significantly reduced in advanced disease. Similarly, leukocyte adhesions were significantly lower, with elevated plasma triglycerides (>200 mg/dl), and cholesterol (>240 mg/dl). However, these adhesions were significantly higher in animals with higher plasma insulin (>5 μIU/ml) and leptin (>20 ng/ml), suggesting a role for these hormones in diabetic retinal leukostasis. Diabetic NGRs showed substantial retinal endothelial injury, primarily in the microvessels, including vascular tortuosity, obliterated acellular capillaries, and pericyte ghosts. The NGR provides a convenient and realistic model for investigation of retinal changes in MetS/T2D with convincing advantages over the commonly used STZ-induced T1D.
A new odour-baited trap to collect host-seeking mosquitoes. (1993)

A new odour-baited entry trap which releases an air stream containing chemical cues collected from a bait, has been used successfully to collect West African mosquito species, most of them important vectors of malaria, such as Anopheles gambiae s.l. and An. funestus. 85% of the yield consisted of live, unfed and partially fed specimens. The trap has some practical and theoretical advantages over similar sampling techniques.
Applying a ‘Metabolic Funnel’ for Phenol Production in Escherichia coli (2021)

Phenol is an important petrochemical that is conventionally used as a precursor for synthesizing an array of plastics and fine chemicals. As an emerging alternative to its traditional petrochemical production, multiple enzyme pathways have been engineered to date to enable its renewable biosynthesis from biomass feedstocks, each incorporating unique enzyme chemistries and intermediate molecules. Leveraging all three of the unique phenol biosynthesis pathways reported to date, a series of synthetic ‘metabolic funnels’ was engineered, each with the goal of maximizing net precursor assimilation and flux towards phenol via the parallel co-expression of multiple distinct pathways within the same Escherichia coli host. By constructing and evaluating all possible binary and tertiary pathway combinations, one ‘funnel’ was ultimately identified, which supported enhanced phenol production relative to all three individual pathways by 16 to 69%. Further host engineering to increase endogenous precursor availability then allowed for 26% greater phenol production, reaching a final titer of 554 ± 19 mg/L and 28.8 ± 0.34 mg/g yield on glucose. Lastly, using a diphasic culture including dibutyl phthalate for in situ phenol extraction, final titers were further increased to a maximum of 812 ± 145 mg/L at a yield of 40.6 ± 7.2 mg/g. The demonstrated ‘funneling’ pathway holds similar promise in support of phenol production by other, non-E. coli hosts, while this general approach can be readily extended towards a diversity of other value-added bioproducts of interest.
Oxidation of silicon nanowires (2006)

Silicon nanowires have received attention for nanoscale electronic devices and chemical and biological sensors. The thermal oxide grown on the silicon nanowires could be used in a variety of devices, so the oxidation of the silicon nanowires is investigated in this work. Silicon nanowires with an average radius of 37nm were grown for these experiments using the vapor-liquid-solid technique with Au to mediate the growth. Etching of the Au tips from the silicon nanowires was performed prior to oxidation to avoid local accelerated oxidation at the nanowire tip. Oxidation was performed at 700°C for 1–121h and at 650 and 750°C for 4h in O2, and the oxidized nanowires were examined by transmission electron microscopy. Depending on the conditions for oxidation, an oxide shell as thin as 6nm was observed, or the entire nanowire was oxidized. The kinetics of oxidation differ from those of a planar silicon wafer and are discussed in this work.
Fabricating electrodes for amperometric detection in hybrid paper/polymer lab-on-a-chip devices (2012)

We present a novel, low-resource fabrication and assembly method for creating disposable amperometric detectors in hybrid paper-polymer devices. Currently, mere paper-based microfluidics is far from being able to achieve the same level of process control and integration as state-of-the-art microfluidic devices made of polymers. To overcome this limitation, in this work both substrate types are synergistically combined through a hybrid, multi-component/multi-material system assembly. Using established inkjet wax printing, we transform the paper into a profoundly hydrophobic substrate in order to create carbon electrodes which are simply patterned from carbon inks via custom made adhesive stencils. By virtue of the compressibility of the paper substrate, the resulting electrode-on-paper hybrids can be directly embedded in conventional, 3D polymeric devices by bonding through an adhesive layer. This manufacturing scheme can be easily recreated with readily available off-the-shelf equipment, and is extremely cost-efficient and rapid with turn-around times of only a few hours.
Activin A is essential for Feeder‐free culture of human induced pluripotent stem cells (2012)

Feeder-free culture of human induced pluripotent stem (hiPS) cells is necessary for their clinical application to avoid adverse effects of foreign proteins. hiPS cells were cultured with combinations of activin (A), CHIR99021 (C), basic fibroblast growth factor (F), and leukemia inhibitory factor (L) under feeder-free conditions. Culture was terminated after 12 passages or when the cell morphology changed from pluripotency. Pluripotency was analyzed by alkaline phosphatase (ALP) staining and immunostaining with antibodies to Oct3/4, Nanog, SSEA4, and TRA-1-60. SB431542 (SB), an activin inhibitor, was added to the culture, and the morphology of the cells was observed. hiPS cells cultured with A, AC, and ACL after 12 passages were positive for ALP staining. Oct3/4 was positive in hiPS cells cultured with A, AC, and ACL. hiPS cells were positive for Nanog when cultured with A and AC; however, Nanog signal was weaker in cells cultured with ACL. SSEA4 was positive in hiPS cells cultured with A and AC but almost negative in those cultured with ACL. hiPS cells were positive for TRA-1-60 when cultured with A, AC, and ACL. hiPS cells lose their undifferentiated morphology at six passages when cultured with A + SB, five passages with AC + SB, and nine passages with ACL. We conclude that feeder-free culture of hiPS cells requires A or AC to maintain pluripotency.
Regulation of dopaminergic transmission and cocaine reward by the <i>Clock</i> gene (2005)

Although there are clear interactions between circadian rhythms and drug addiction, mechanisms for such interactions remain unknown. Here we establish a role for the Clock gene in regulating the brain's reward circuit. Mice lacking a functional Clock gene display an increase in cocaine reward and in the excitability of dopamine neurons in the midbrain ventral tegmental area, a key brain reward region. These phenotypes are associated with increased expression and phosphorylation of tyrosine hydroxylase (the rate-limiting enzyme in dopamine synthesis), as well as changes in several genes known to regulate dopamine activity in the ventral tegmental area. These findings demonstrate the involvement of a circadian-associated gene, Clock, in regulating dopamine function and cocaine reward.