gebhart/patrepeval huggingface dataset:
Quantifying the Mineralization of 13C-Labeled Cations and Anions Reveals Differences in Microbial Biodegradation of Herbicidal Ionic Liquids between Water and Soil (2020)

Characterization of the biodegradability of herbicidal ionic liquids (HILs) using the industry standard activated sludge methodology is thought to be insufficient to fully understand the biodegradation of HILs in the environment because cations and anions of the HILs may have different potential for biodegradation in aquatic and terrestrial systems. To test this hypothesis, we conducted laboratory microcosm experiments using 13C-labeled cations and anions forming benzyldodecyldimethylammonium 4-chloro-2-methylphenoxyacetate ([C12-BA][MCPA]) and evaluated their biodegradation potential in soil with a known history of herbicide exposure, and in water (mineral medium) augmented with microorganisms present in activated sludge. The biodegradability of the cation and anion was found to depend on the test system (water or soil). The cation was mineralized in water, whereas the anion was fully utilized in soil. These results suggest that performing biodegradation tests using differently 13C-labeled species of the target HIL and mimicking various environmental compartments (e.g., soil, activated sludge) is needed to provide a better understanding of the fate of HILs in the environment. They also indicate that biodegradation kinetic parameters of HILs derived from experiments performed in aqueous systems should not be used to estimate biodegradation rates in terrestrial environments.
Analysis of v‐mos encoded proteins in cells transformed by several related murine sarcoma viruses (1982)

We have used antisera against synthetic peptides to identify and characterize a 37,000 dalton v-mos encoded protein (p37mos) in cells transformed by M-MuSV 124. p37mos, a phosphoprotein, comprises only about 0.0005% of total cellular protein in cell lines transformed by M-MuSV 124. NIH 3T3 cells acutely infected with M-MuSV 124, however, contain 30-100-fold more p37mos. These elevated levels of p37mos correlate with striking morphological changes and cell death in the acutely infected cell population. Using the antipeptide antisera, we have extended the analysis of v-mos proteins to include several other MuSV variants that contain a similar v-mos gene to M-MuSV 124. With the exception of P85, the gag-mos fusion protein from ts110 MuSV, the v-mos gene of these variants is expressed as a 35,000-37,000 dalton protein (size depending on the particular virus).
Intervehicle-Communication-Assisted Localization (2010)

Vehicle localization is a key issue that has recently attracted attention in a wide range of applications. Navigation, vehicle tracking, emergency calling, and location-based services are examples of emerging applications with a great demand for location information. The Global Positioning System (GPS) has been the de facto standard solution for the vehicle-localization problem. Nevertheless, GPS-based localization is inaccurate and unreliable due to GPS' inherent poor performance in vertical positioning and the prevalent horizontal movement, in addition to anomalies caused by line-of-sight occlusions and multipath issues in urban canyons. Although augmenting GPS localization with inertial sensory data has demonstrated significant performance improvements, there remain situations that give rise to degraded localization accuracy-a deficiency that many applications cannot tolerate. In this paper, we propose intervehicle-communication-assisted localization, a localization technique that takes advantage of the emerging vehicle ad hoc networks environments. Communication among vehicles is utilized to compute a relative vehicle location, the integration of which with motion information and GPS location estimates leading to highly accurate vehicle localization. This proposed localization technique is tested in various simulated road-segment scenarios. It is evident from the simulation results that intervehicle communication has the potential to lead to the improvement of the robustness and accuracy of vehicle-location estimation.
Serum Proteomics in Cancer Diagnosis and Management (2004)

Mass spectrometry-based diagnostics has the potential to revolutionize molecular medicine. Using modern mass-spectrometer technologies, clinical tests can be developed that are practical, robust, accurate, and inexpensive. Serum proteomic pattern profiling couples mass spectrometry with adaptive artificial-intelligence-based bioinformatics, which can now be employed to detect pathological states reflected in the serum proteome. With this approach, rapid and cost-effective tests with exquisite clinical sensitivity and specificity are emerging. These tools may dramatically change how disease is detected, monitored, and managed.
Three-dimensional lattice connectivities from two-dimensional high-resolution solid-state NMR. Silicon-29 magic angle spinning NMR investigation of the silicate lattice of zeolite ZSM-39 (Dodecasil 3C) (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThree-dimensional lattice connectivities from two-dimensional high-resolution solid-state NMR. Silicon-29 magic angle spinning NMR investigation of the silicate lattice of zeolite ZSM-39 (Dodecasil 3C)C. A. Fyfe, H. Gies, and Y. FengCite this: J. Am. Chem. Soc. 1989, 111, 20, 7702–7707Publication Date (Print):September 1, 1989Publication History Published online1 May 2002Published inissue 1 September 1989https://pubs.acs.org/doi/10.1021/ja00202a006https://doi.org/10.1021/ja00202a006research-articleACS PublicationsRequest reuse permissionsArticle Views295Altmetric-Citations57LEARN 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
Autonomic renumbering in the future iInternet (2010)

IPv6 is an essential building block of the evolution toward the future Internet. To take the full benefit of this protocol and exploit all its features, the future Internet needs to gracefully couple it with autonomics. In this article we demonstrate through our experience with network renumbering how the coupling of both IPv6 core functionality extended with major functions of the autonomic world can lead to fully autonomous activities of main management functions. We instantiate the notions of self-configuration, self-monitoring, self-protection, and self-healing in the network renumbering process and show how all together they can make renumbering a real success. We illustrate the various functions with the tools we have implemented to support them.
Micro-CT for first line screening of the scaffold material-, cell-and donor-variability on the ectopic bone forming capacity of tissue engineering constructs (2013)

status: Published
OR24-06 USP8 Genetic Variants May Contribute to the Development of Bilateral Adrenal Hyperplasia and ACTH-Independent Cushing Syndrome (2020)

Abstract Background: Bilateral adrenocortical hyperplasias (BAHs), including primary pigmented nodular adrenocortical disease (PPNAD), isolated micronodular adrenocortical disease (iMAD) and primary macronodular adrenocortical hyperplasia (PMAH), are rare causes of ACTH-independent Cushing syndrome (CS). PPNAD and iMAD usually present in children or adolescents as multiple small (&amp;lt;1cm), cortisol-producing adrenocortical nodules. On the other hand, PMAH is most frequently identified in older patients with multiple large adrenal nodules. Most patients with PPNAD have PRKAR1A mutations whereas patients with PMAH may harbor variants in other genes (ARMC5, MC2R, GNAS, APC, MEN1). Even though several genes have been associated with ACTH-independent CS, there are still cases that the genetic cause has not been elucidated. Clinical cases: Herein, we present two unrelated patients with ACTH-independent CS that harbor USP8 gene variants. USP8 is mainly known for being mutated in Cushing disease but as a deubiquitinase it may be involved into the Wnt/β-Catenin signaling pathway. The first patient was diagnosed with BAH on prenatal ultrasound (26 gestational week) and subsequently required bilateral adrenalectomy for CS as she had virilization, hirsutism, hypertension and cardiac hypertrophy 9 weeks old. Adrenalectomy revealed that she had iMAD. She also presented with hemihypertrophy of the right leg, labia and mild newborn hypoglycemia, however she was negative for Beckwith-Wiedemann mutation. Gene analysis of PRKAR1A did not reveal any mutations. After whole exome sequencing (WES), we found a novel heterozygous USP8 variant (c.1387_1393delinsT, p.Ala463_Ile465delinsPhe) at germline level and loss of heterozygosity (LOH) at tumor level. Immunohistochemistry showed significantly lower expression of USP8 protein in both of her adrenals compared to a control tissue. The second case is a 59-year old female with osteoporosis who failed to suppress cortisol levels after low dose dexamethasone administration. MRI revealed an adenoma on the right adrenal (2.6cm). She underwent right adrenalectomy and was found to have PMAH. We performed WES in germline level and we detected a novel heterozygous missense USP8 variant (c.287A&amp;gt;G, p.Lys96Arg) that is present also at tumor level. Immunohistochemistry showed significantly lower expression of USP8 protein in her adrenal tumor compared to the control tissue. No LOH was identified. Conclusion: This is the first report of the association of USP8 in ACTH-independent CS and the preliminary findings support UPS8 involvement in the development of adrenocortical disease. We are currently performing further in vitro studies to evaluate the effect of these two USP8 variants into the canonical Wnt pathway which is commonly involved in adrenocortical disorders.
Suppression of arthritis-induced bone erosion by a CRAC channel antagonist (2016)

DCPA, a novel inhibitor of CRAC channels, suppresses bone erosion associated with acute arthritis in mice and might represent a new treatment modality for acute arthrits.
Tyrosine Phosphorylation of Jak2 in the JH2 Domain Inhibits Cytokine Signaling (2004)

Jak family tyrosine kinases mediate signaling by cytokine receptors to regulate diverse biological processes. Although Jak2 and other Jak kinase family members are phosphorylated on numerous sites during cytokine signaling, the identity and function of most of these sites remains unknown. Using tandem mass spectroscopic analysis of activated Jak2 protein from intact cells, we identified Tyr(221) and Tyr(570) as novel sites of Jak2 phosphorylation. Phosphorylation of both sites was stimulated by cytokine treatment of cultured cells, and this stimulation required Jak2 kinase activity. While we observed no gross alteration of signaling upon mutation of Tyr(221), Tyr(570) lies within the inhibitory JH2 domain of Jak2, and mutation of this site (Jak2(Y570F)) results in constitutive Jak2-dependent signaling in the absence of cytokine stimulation and enhances and prolongs Jak2 activation during cytokine stimulation. Mutation of Tyr(570) does not alter the ability of SOCS3 to bind or inhibit Jak2, however. Thus, the phosphorylation of Tyr(570) in vivo inhibits Jak2-dependent signaling independently of SOCS3-mediated inhibition. This Tyr(570)-dependent mechanism of Jak2 inhibition likely represents an important mechanism by which cytokine function is regulated.
Cystathionine Gamma-Lyase Is Increased in Testicular Seminomas, Embryonal, and Yolk Sac Tumors (2021)

For the first time, we show that CSE is increased in several common testicular germ-cell tumor types.
Effect of functional group on activity and stability of lipase immobilized on silica-coated magnetite nanoparticles with different functional group (2016)

고정화 지지체로 사용된 실리카 나노입자와 실리카 코팅된 자성 나노입자에 작용기를 부착시켜 기능성을 부가한 후 효소인 리파아제를 고정화하여 리파아제의 안정성을 향상시키고자 연구를 수행하였다. 지지체에 부착하는 작용기가 고정화된 효소의 활성과 안정성에 미치는 영향도 살펴보았다. 실리카 나노입자와 실리카 코팅된 자성 나노입자에 부착한 작용기인 epoxy group과 amine group은 glycidyl methacrylate과 aminopropyl triethoxysilane을 통해 실리카 나노입자와 실리카 코팅된 자성 나노입자 표면에 각각 부착하였다. 작용기가 부착된 실리카 나노입자와 실리카 코팅된 자성 나노입자에 고정화한 Candida rugosa lipase는 자유효소에 비해 초기반응속도는 다소 낮았지만, 3 회 재사용한 후 측정한 활성이 최초 활성 대비 92 % 이상의 활성을 유지하였다. 또한, 실리카 코팅된 자성 나노입자에 glutaraldehyde를 이용한 cross-linked enzyme aggregate (CLEA) 방법과 공유결합법을 통해 라파아제를 각각 고정화한 연구를 수행한 결과, 실리카 나노입자와 실리카 코팅된 자성 나노입자에 CLEA 방법과 공유결합법으로 각각 고정화한 Candida rugosa lipase는 자유효소에 비해 초기반응속도 뿐만 아니라 최종 활성도 높았고, 5 회 재사용한 후 측정한 활성이 최초 활성 대비 73 % 이상의 활성을 유지하였다. The present study investigated the immobilization of lipases on silica nanoparticles and silica-coated magnetite nanoparticles as supports with a functional group to enhance the stability of lipase. The influence of functional groups, such as the epoxy group and the amine group, on the activity and stability of immobilized lipase was also studied. The epoxy group and the amino group were introduced onto the surface of nanoparticles by glycidyl methacrylate and aminopropyl triethoxysilane, respectively. Immobilized Candida rugosa lipase on silica nanoparticles and silica-coated magnetite nanoparticles with a functional group showed slightly lower initial enzyme activities than free enzyme; however, the immobilized Candida rugosa lipase retained over 92 % of the initial activity, even after 3 times reuse. Lipase was also immobilized on the silica-coated magnetite nanoparticles by cross-linked enzyme aggregate (CLEA) using glutaraldehyde and covalent binding, respectively, were also studied. Immobilized Candida rugosa lipase on silica nanoparticles and silica-coated magnetite nanoparticles by CLEA and covalent binding showed higher enzyme activities than free enzyme, while immobilized Candida rugosa lipase retained over 73 % of the initial activity after 5 times reuse.
CHARACTERIZATION OF DIAMOND-LIKE CARBON THIN FILMS DEPOSITED BY FACING TARGETS SPUTTERING OF GLASS-LIKE CARBON (1991)

In this paper we have attempted to clarify the effect of the kinetic energy of the sputtered particles on the formation of diamond-like carbon thin films using a Facing Target Sputtering System(FTS) which allows deposition of films at a very low gas pressure such as 0.2mTorr. Glass-like carbon is a kind of amorphous carbon which has very small crystallites and its structure is very uniform compare to graphite. Therefore, we have also tried to evaluate the potential of glass-like carbon as sputtering targets. The optical properties of the carbon films were measured with an optical ellipsometer. The structure of the carbon films were evaluated from Raman spectroscopy. The electrical resistivity was measured using a four point probe technique. The mechanical properties were measured with a microscratch tester. The above experimental results indicate that the structure of FTS deposited carbon films changes from less amorphous to diamond-like as the argon gas pressure is decreased and their adhesion and uniformity was significantly improved. FTS carbon films about 300Å thick were also deposited on textured Co-Cr-Ta/Cr/Ni-P/Al 3.5"rigid disks for the characterization as wear resistant overcoats. The friction of the carbon films were measured using a computer-controlled constant linear velocity drag tester with a thin film head slider. The results show that the friction coefficient decreased from 0.95 to 0.45 as the argon gas pressure was decreased from 10mTorr to 0.2mTorr. Carbon films deposited at 0.2mTorr Ar pressure show significantly lower friction and much greater durability than those deposited at 10mTorr Ar pressure. These results support the conclusion that FTS deposited carbon films have excellent potential as high-durability overcoats.
Restoration of Retinal Structure and Function after Selective Photocoagulation (2013)

CNS neurons change their connectivity to accommodate a changing environment, form memories, or respond to injury. Plasticity in the adult mammalian retina after injury or disease was thought to be limited to restructuring resulting in abnormal retinal anatomy and function. Here we report that neurons in the mammalian retina change their connectivity and restore normal retinal anatomy and function after injury. Patches of photoreceptors in the rabbit retina were destroyed by selective laser photocoagulation, leaving retinal inner neurons (bipolar, amacrine, horizontal, ganglion cells) intact. Photoreceptors located outside of the damaged zone migrated to make new functional connections with deafferented bipolar cells located inside the lesion. The new connections restored ON and OFF responses in deafferented ganglion cells. This finding extends the previously perceived limits of restorative plasticity in the adult retina and allows for new approaches to retinal laser therapy free of current detrimental side effects such as scotomata and scarring.
Chaperone co‐inducer BGP‐15 mitigates early contractile dysfunction of the soleus muscle in a rat ICU model (2019)

BGP-15 treatment improved soleus muscle fibre and motor protein function after 5 days exposure to the ICU condition, but not at longer durations (8 and 10 days) when the preferential loss of myosin was manifest. Thus, long-term CIM interventions targeting limb muscle fibre/myosin force generation capacity need to consider both the post-translational modifications and the loss of myosin.
Supported Vanadium Catalysts for Selective Sulfur‐Oxidative Dehydrogenation of Propane (2021)

Abstract The catalytic oxidative dehydrogenation of propane (ODHP) is a challenging reaction due to facile competing overoxidation to CO x . The gaseous disulfur molecule, S 2 , is isoelectronic with O 2 and has been shown to act as an alternative, “soft oxidant” for the analogous process (SODHP) over bulk metal sulfide catalysts. However, these bulk catalysts suffer from low surface areas and ill‐defined active sites – issues that might be addressed with a supported catalyst. Here we investigate supported V/Al 2 O 3 materials for SODHP. We show that these catalysts are highly selective for propylene, far surpassing the yields of the prior bulk systems. Isolated sulfided vanadium species are found to be more active and selective than crystalline vanadium sulfide. Additionally, we compare the S 2 and O 2 oxidants over sulfided and calcined V/Al 2 O 3 materials, respectively, and find that the propylene selectivity is enhanced using S 2 as the oxidant. These results suggest that sulfur is a promising soft oxidant that can be used to achieve high propylene selectivities over supported metal sulfides.
Biosynthesis of anthracycline antibiotics by Streptomyces galilaeus. I. Glycosidation of various anthracyclinones by an aclacinomycin-negative mutant and biosynthesis of aclacinomycins from aklavinone. (1980)

An aclacinomycin-negative mutant strain KE303 which required aklavinone aglycone for the production of anthracycline antibiotics was derived from Streptomyces galilaeus, and employed for the glycosidation of various anthracyclinones. epsilon- gamma- and beta-Rhodomycinones, epsilon-isorhodomycinone, epsilon- and beta-pyrromycinones and chemically modified aklavinones were found to be glycosidated to the biologically active anthracyclines, when they were fed to the growing culture. However, the feeding of daunomycinone, 13-deoxydaunomycinone, adriamycinone and steffimycinone did not yield any glycoside. The bioconversion of presumptive precursor glycosides revealed that aclacinomycin A is biosynthesized by the step-wise glycosidation from aklavinone vai aklavin and MA144 S1.
Strong light confinement in novel compact pseudo-random structures designed via evolutionary algorithms (2005)

High optical confinement of 1.55 /spl mu/n light is shown in a 5 /spl mu/m sized high-index-contrast pseudo-random distribution of dielectric rods. This structure, designed using Evolutionary Algorithms, utilizes Anderson Localization to achieve confinement.
Unnormalized exponential and neural network language models (2015)

Model M, an exponential class-based language model, and neural network language models (NNLM's) have outperformed word n-gram language models over a wide range of tasks. However, these gains come at the cost of vastly increased computation when calculating word probabilities. For both models, the bulk of this computation involves evaluating the softmax function over a large word or class vocabulary to ensure that probabilities sum to 1. In this paper, we study unnormalized variants of Model M and NNLM's, whereby the softmax function is simply omitted. Accordingly, model training must be modified to encourage scores to sum close to 1. In this paper, we demonstrate up to a factor of 35 faster n-gram lookups with unnormalized models over their normalized counterparts, while still yielding state-of-the-art performance in WER (10.2 on the English broadcast news rt04 set).
Profiling, isolation and characterisation of beneficial microbes from the seed microbiomes of drought tolerant wheat (2021)

Climate change is predicted to increase the incidence and severity of drought conditions, posing a significant challenge for agriculture globally. Plant microbiomes have been demonstrated to aid crop species in the mitigation of drought stress. The study investigated the differences between the seed microbiomes of drought tolerant and drought susceptible wheat lines. Furthermore, it highlighted and quantified the degree of drought tolerance conferred by specific microbes isolated from drought tolerant wheat seed microbiomes. Metagenomic and culture-based methods were used to profile and characterise the seed microbiome composition of drought tolerant and drought susceptible wheat lines under rainfed and drought conditions. Isolates from certain genera were enriched by drought tolerant wheat lines when placed under drought stress. Wheat inoculated with isolates from these targeted genera, such as Curtobacterium flaccumfaciens (Cf D3-25) and Arthrobacter sp. (Ar sp. D4-14) demonstrated the ability to promote growth under drought conditions. This study indicates seed microbiomes from genetically distinct wheat lines enrich for beneficial bacteria in ways that are both line-specific and responsive to environmental stress. As such, seed from stress-phenotyped lines represent an invaluable resource for the identification of beneficial microbes with plant growth promoting activity that could improve commercial crop production.
Ruthenium‐Catalyzed Reductive Methylation of Imines Using Carbon Dioxide and Molecular Hydrogen (2014)

Abstract The use of the well‐defined [Ru(triphos)(tmm)] catalyst, CO 2 as C 1 source, and H 2 as reducing agent enabled the reductive methylation of isolated imines, as well as the direct coupling of amines with aldehydes and the subsequent reductive methylation of the in situ formed imines. The method, which afforded the corresponding N‐methyl amines in very good to excellent yields, was also used for the preparation of the antifungal agent butenafine in one step with no apparent waste, thus increasing the atom efficiency of its synthesis.