gebhart/patrepeval huggingface dataset:
Loss of human CR1- and murine Crry-like exons in human CR2 transcripts due to CR2 gene mutations. (1990)

Analysis of the coding sequences of the murine Cr2 gene indicated that it contains two distinct regions of homology to the murine Crry, and human CR1 and CR2 genes. The last 15 short consensus repeats (SCR) of Cr2 are very similar to the 15 reported SCR of human CR2. These 15 SCR of Cr2, plus the transmembrane and cytoplasmic domains, make up a protein very similar in organization and sequence to the human CR2 gene product. Another Cr2 transcript contains the sequences encoding the previously described 15 SCR plus those encoding another six amino terminal SCR. These amino terminal SCR are very similar to those of Crry and the first six SCR seen within the CR1 long homologous repeats. Amino acid sequence similarity analysis, however, indicated that the sequences encoding the six amino terminal SCR of Cr2 evolved from a separate lineage of SCR than Crry and CR1, suggesting that the human counterparts to these additional Cr2 SCR had not been identified. Using the cDNA sequences specific for the amino terminal SCR of murine Cr2, the human counterparts were isolated and localized within the human CR2 gene between those nucleotides encoding the signal sequence and those encoding the first SCR of the mature human CR2 protein. Unlike the murine Cr2 gene products, these Crry/CR1-like sequences of the CR2 gene are not maintained in mature CR2 mRNA, and thus represent pseudoexons. DNA sequence analysis of the pseudoexon homologous to that encoding the first SCR of the murine Cr2 gene indicated that a stop codon has been introduced within the human coding sequence but that the 5' and 3' splice recognition sequences appear to be functional. Although the stop codon would block the translation of a transcript with this exon, it would not inhibit the incorporation of the exon within the mature CR2 transcript. Therefore, another mutation must have been introduced within the human CR2 gene such that both this exon and the other CR1/Crry-like exons are removed from mature CR2 transcripts.
Microbial exposure increases the magnitude and diversity of peritoneal inflammatory cell infiltrates and cytokine storm during sepsis (2020)

Abstract Sepsis – defined as a life-threatening organ dysfunction caused by a dysregulated host response to infection - remains a major healthcare burden and cause of death in the United States and worldwide. While there has been a vast expansion in knowledge regarding the impact of sepsis on the immune system, virtually all preclinical sepsis research to date has relied on using mice housed under specific pathogen-free (SPF) conditions. Environmental pathogen exposure is one important difference between basic human and laboratory mouse biology that must be considered when using mice to evaluate immune system fitness. Interestingly, B6 mice that have been cohoused with pet store mice (to permit microbial transfer and immune system maturation; “CoH” mice) exhibit exaggerated acute hyperinflammation, morbidity, and mortality during cecal ligation and puncture (CLP)-induced polymicrobial sepsis compared to SPF B6 mice. To understand the mechanism of this increased acute response, we examined peritoneal immune cell composition in SPF and CoH mice before and after sepsis induction. CoH mice have more ‘large’ MHC IIloF4/80hi and ‘small’ MHC IIhiF4/80lo peritoneal macrophages (LPM and SPM) and neutrophils than SPF mice at baseline. Upon the induction of polymicrobial-induced peritonitis, there was increased recruitment of neutrophils, monocytes, T cells, and NK cells into the peritoneum of CoH mice vs. SPF mice. This increased immune cell influx correlated with increased CXCL1 and CCL2 in peritoneal lavage samples from CoH mice. CoH mice devoid of neutrophils or LPM exhibit reduced cytokine storm and improved outcomes after sepsis induction. These data suggest the cells of the innate immune system govern the magnitude of the acute septic response.
High Quantum Efficiency Uni-Traveling-Carrier Photodiode (2017)

We report uni-traveling-carrier photodiodes with a quantum efficiency of 98% ±0.8% at 1064 nm. For 50 μm devices, the measured 3-dB bandwidth is 2 GHz and the dark current is 10 nA at a bias voltage of -5 V. The dark current is dominated by generation-recombination at a bias voltage of -10 V and the activation energy is 0.23 eV. At higher bias voltage, tunneling becomes a significant component of the dark current.
Polycyclic Aromatic Hydrocarbon Degradation in the Sea-Surface Microlayer at Coastal Antarctica (2022)

As much as 400 Tg of carbon from airborne semivolatile aromatic hydrocarbons is deposited to the oceans every year, the largest identified source of anthropogenic organic carbon to the ocean. Microbial degradation is a key sink of these pollutants in surface waters, but has received little attention in polar environments. We have challenged Antarctic microbial communities from the sea-surface microlayer (SML) and the subsurface layer (SSL) with polycyclic aromatic hydrocarbons (PAHs) at environmentally relevant concentrations. PAH degradation rates and the microbial responses at both taxonomical and functional levels were assessed. Evidence for faster removal rates was observed in the SML, with rates 2.6-fold higher than in the SSL. In the SML, the highest removal rates were observed for the more hydrophobic and particle-bound PAHs. After 24 h of PAHs exposure, particle-associated bacteria in the SML showed the highest number of significant changes in their composition. These included significant enrichments of several hydrocarbonoclastic bacteria, especially the fast-growing genera <i>Pseudoalteromonas</i>, which increased their relative abundances by eightfold. Simultaneous metatranscriptomic analysis showed that the free-living fraction of SML was the most active fraction, especially for members of the order Alteromonadales, which includes <i>Pseudoalteromonas</i>. Their key role in PAHs biodegradation in polar environments should be elucidated in further studies. This study highlights the relevant role of bacterial populations inhabiting the sea-surface microlayer, especially the particle-associated habitat, as relevant bioreactors for the removal of aromatic hydrocarbons in the oceans.
Limestone Barriers to Neutralize Acidic Streams (1975)

Water samples were taken for analysis and measurements were made to determine the effect of each installation on water quality at four prototype limestone barriers that had been constructed to neutralize acidic streams. The pH of stream water was increased by up to 3 pH units at low streamflow, to pH 7 or above. This demonstrates that limestone barriers are capable of renovating acidic streams to the point that normal aquatic life can be restored, rendering the stream water suitable for a number of uses that are otherwise precluded. A mathematical model of limestone barriers was constructed, based on hydraulic laws and on the chemical kinetics of the rate limiting reactions between crushed limestone and acidic water. Model predictions matched the observed performance of the barriers. A procedure was developed to determine the design of a barrier of crushed limestone to neutralize a given streamflow.
Noble-Metal-Free Heterojunction Photocatalyst for Selective CO2 Reduction to Methane upon Induced Strain Relaxation (2021)

Sunlight-driven CO2 hydrogenation has drawn tremendous attention. However, selective CH4 formation via CO2 photoreduction is very challenging. Herein, we report a metal oxide semiconductor heterojunction consisting of BiVO4 and WO3 as a photocatalyst for the efficient conversion of carbon dioxide (CO2) selectively to methane (105 μmol g–1 h–1) under visible light in the absence of a sacrificial agent. Wise selection of the reaction medium and the strategically tuned heterojunction upon strain relaxation suppresses the competitive hydrogen generation reaction. The detailed photophysical, photoelectrochemical, and X-ray absorption spectroscopy studies pointed to the Z-scheme mechanism of electron transfer, which favors superior electron and hole separation compared to the individual components of the composite catalyst and other well-known photocatalysts reported for CO2 reduction. The observations are further corroborated by experimental diffuse reflectance infrared Fourier transform spectroscopy and theoretical density-functional theory calculations, which reveal that the heterojunction has a lower free-energy barrier for CO2 conversion to CH4 due to the larger stabilization of the *CH2O intermediate on the strain-relaxed heterojunction surface, in comparison to the pristine BiVO4 surface. The present work provides fundamental insights for constructing high-performance heterojunction photocatalysts for the selective conversion of CO2 to desired chemicals and fuels.
End-to-end delay bounds for traffic aggregates under guaranteed-rate scheduling algorithms (2005)

This paper evaluates, via both analysis and simulation, the end-to-end (e2e) delay performance of aggregate scheduling with guaranteed-rate (GR) algorithms. Deterministic e2e delay bounds for a single aggregation are derived under the assumption that all incoming flows at an aggregator conform to the token bucket model. An aggregator can use any of three types of GR scheduling algorithms: stand-alone GR, two-level hierarchical GR, and rate-controlled two-level hierarchical GR. E2e delay bounds are also derived for the case of multiple aggregations within an aggregation region when aggregators use the rate-controlled two-level hierarchical GR. By using the GR scheduling algorithms for traffic aggregates, we show not only the existence of delay bounds for each flow, but also the fact that, under certain conditions (e.g., when the aggregate traverses a long path after the aggregation point), the bounds are smaller than that of per-flow scheduling. We then compare the analytic delay bounds numerically and conduct in-depth simulation to: 1) confirm the analytic results and 2) compare the e2e delays of aggregate and per-flow scheduling. The simulation results have shown that aggregate scheduling is very robust and can exploit statistical multiplexing gains. It performs better than per-flow scheduling in most of the simulation scenarios we considered. Overall, aggregate scheduling is shown theoretically to provide bounded e2e delays and practically to provide excellent e2e delay performance. Moreover, it incurs lower scheduling and state-maintenance overheads at routers than per-flow scheduling. All of these salient features make aggregate scheduling very attractive for use in Internet core networks.
Blue electroluminescent devices with high quantum efficiency from alkoxy-substituted poly(para-phenylene vinylene)-trimers in a polystyrene matrix (1994)

We report electroluminescence of electroluminescent devices fabricated from cis,trans- 2,5-dimethoxy-1,4 -bis[2-(3,4,5-trimethoxyphenyl)ethenyl]benzene blended in a polystyrene matrix as emission layer. This choice of materials avoids the inherently poor miscibility of polymers with other compounds and minimizes interactions between the host polymer and the electro-optically active guest, which can produce quenching sites. A blue light-emitting device with high internal quantum efficiency (∼1%) results.
Fast, Effective, and Self-Supervised: Transforming Masked Language Models into Universal Lexical and Sentence Encoders (2021)

Previous work has indicated that pretrained Masked Language Models (MLMs) are not effective as universal lexical and sentence encoders off-the-shelf, i.e., without further taskspecific fine-tuning on NLI, sentence similarity, or paraphrasing tasks using annotated task data. In this work, we demonstrate that it is possible to turn MLMs into effective lexical and sentence encoders even without any additional data, relying simply on self-supervision. We propose an extremely simple, fast, and effective contrastive learning technique, termed Mirror-BERT, which converts MLMs (e.g., BERT and RoBERTa) into such encoders in 20-30 seconds with no access to additional external knowledge. Mirror-BERT relies on identical and slightly modified string pairs as positive (i.e., synonymous) fine-tuning examples, and aims to maximise their similarity during "identity fine-tuning". We report huge gains over off-the-shelf MLMs with Mirror-BERT both in lexical-level and in sentencelevel tasks, across different domains and different languages. Notably, in sentence similarity (STS) and question-answer entailment (QNLI) tasks, our self-supervised Mirror-BERT model even matches the performance of the Sentence-BERT models from prior work which rely on annotated task data. Finally, we delve deeper into the inner workings of MLMs, and suggest some evidence on why this simple Mirror-BERT fine-tuning approach can yield effective universal lexical and sentence encoders.
Longitudinal and transverse magnetoelectric voltage coefficients of magnetostrictive/piezoelectric laminate composite: theory (2003)

This paper presents a novel, long-type of magnetostrictive and piezoelectric laminate composite design in which the layers are, respectively, magnetized/poled along their length axes, and a theory for modeling its behavior. Using piezoelectric and magnetostrictive constitutive equations, and an equation of motion, a magneto-elastoelectric bieffect equivalent circuit is developed. The circuit is used to predict the longitudinal and transverse magnetoelectric (ME) voltage coefficients of our Terfenol-D/Pb(Zr1-xTix)O3 laminate design. It is found that the longitudinal ME voltage coefficient is significantly higher (approximately 5x) than the transverse one, and that our new laminate design has significantly higher ME voltage coefficients under small applied direct current (DC) magnetic bias fields than designs reported previously by other groups. Experimental values were found to be coincidental with predicted ones.
Interleukin-1&#946; Receptor Antagonism Prevents Cognitive Impairment Following Experimental Bacterial Meningitis (2015)

Pneumococcal meningitis is characterized by high rates of mortality and long-term cognitive impairment. In this study, we evaluated the effects of interleukin (IL)-1β receptor antagonist (IL-1Ra) on memory, cytokine, and brain-derived neurotrophic factor (BDNF) levels in hippocampus after experimental pneumococcal meningitis. In a first experiment the animals were divided into four groups: control/saline, control treated with IL-1Ra, meningitis/saline, and meningitis treated with IL-1Ra. In the meningitis/saline group IL-1β and cytokine-induced neutrophil chemoattractant-1 (CINC-1) levels increased at 24 h post-infection; adjuvant treatment with IL-1Ra reversed the increased levels in the hippocampus. The levels of tumour necrosis factor-alpha (TNF-α), IL-4, IL-6, IL-10, and BDNF did not change in all groups at 24 h post-infection. In a second experiment, the animals were subjected to behavioural tasks (open field, step-down inhibitory avoidance task, and object recognition task), cytokine, and BDNF levels analysis 10 days after experimental meningitis induction. In the open-field task, the meningitis/saline group did not exhibit difference between the training and test sessions, in the motor and exploratory activity indicating memory injury. The meningitis/IL-1Ra group presented difference between training and test session indicating habituation memory. The meningitis/saline group showed impairment in long-term memory for novel object recognition and in aversive memory. The adjuvant treatment with IL-1Ra prevented memory impairment. After behavioural tasks the hippocampus was evaluated. The levels of IL-4, IL-6, IL-10, and BDNF were maintained elevated 10 days post-infection. CINC-1 levels were elevated only in meningitis/saline group and IL-1β decreased in meningitis/IL-Ra group. The levels of TNF-α did not change at 10 days post-infection. These findings illustrate the anti-inflammatory activity of IL-1Ra inhibitor in the first hours after meningitis induction. Adjuvant treatment with IL-1β receptor antagonist could be a new avenue as therapeutic target during bacterial meningitis.
Anti-Diabetic Effects of a Kaempferol Glycoside-Rich Fraction from Unripe Soybean (Edamame,Glycine maxL. Merrill. ‘Jindai’) Leaves on KK-AyMice (2011)

The anti-diabetic effects of a kaempferol glycoside-rich fraction (KG) prepared from leaves of unripe Jindai soybean (Edamame) and kaempferol, an aglycone of kaempferol glycoside, were determined in genetically type 2 diabetic KK-A(y) mice. The hemoglobin A(₁c) level was decreased and tended to be decreased by respectively feeding KG and kaempferol (K). The area under the curve (AUC) in the oral glucose tolerance test (OGTT) tended to be decreased by feeding K and KG. The liver triglyceride level and fatty acid synthase activity were both decreased in the mice fed with KG and K when compared to those parameters in the control mice. These results suggest that KG and K would be useful to improve the diabetes condition. The major flavonoids in KG were identified as kaempferol 3-O-β-D-glucopyranosyl(1→2)-O-[α-L-rhamnopyranosyl(1→6)]-β-D-galactopyranoside, kaempferol 3-O-β-D-glucopyranosyl(1→2)-O-[α-L-rhamnopyranosyl(1→6)]-β-D-glucopyranoside, kaempferol 3-O-β-D-(2-O-β-D-glucopyranosyl) galactopyranoside and kaempferol 3-O-β-D-(2,6-di-O-α-L-rhamnopyranosyl) galactopyronoside, suggesting that these compounds or some of them may be concerned with mitigation of diabetes.
A Flexible Garbage Collect Algorithm for Flash Storage Management (2008)

Log-structured file system (LFS) is widely used in multimedia terminals, which always use flash memory as main storage. Flash memory must be erased before writing and the maximum erasure times of each block is limited, therefore, the flash storage management is quite different from other storages. A flash storage system requires a garbage collect and cleaning mechanism to reclaim the invalidated space for future use. An efficient garbage collect algorithm should achieve wear leveling with low cleaning cost, but cleaning cost and wear levering are two conflicting objectives. Efficient cleaning always comes along with wear skewness, since the blocks (maybe 80% of capacity) with cold data are expected to be seldom erased to decrease total erasure count, while the blocks with hot data will reach the erasure limitation soon, which is caused by frequent accessing.In this paper, a flexible garbage collect algorithm is proposed to achieve an un-absolute balance, since different flash life phase needs different optimization. It is quite wise to go in for low cleaning cost when the flash is fresh, but when it is nearly worn out, wear leveling is more important.
The LOV Domain Family:  Photoresponsive Signaling Modules Coupled to Diverse Output Domains (2002)

For single-cell and multicellular systems to survive, they must accurately sense and respond to their cellular and extracellular environment. Light is a nearly ubiquitous environmental factor, and many species have evolved the capability to respond to this extracellular stimulus. Numerous photoreceptors underlie the activation of light-sensitive signal transduction cascades controlling these responses. Here, we review the properties of the light, oxygen, or voltage (LOV) family of blue-light photoreceptor domains, a subset of the Per-ARNT-Sim (PAS) superfamily. These flavin-binding domains, first identified in the higher-plant phototropins, are now shown to be present in plants, fungi, and bacteria. Notably, LOV domains are coupled to a wide array of other domains, including kinases, phosphodiesterases, F-box domains, STAS domains, and zinc fingers, which suggests that the absorption of blue light by LOV domains regulates the activity of these structurally and functionally diverse domains. LOV domains contain a conserved molecular volume extending from the flavin cofactor, which is the locus for light-driven structural change, to the molecular surface. We discuss the role of this conserved volume of structure in LOV-regulated processes.
304 PRODUCTION OF PORCINE EMBRYOS OF A PREDETERMINED SEX AFTER IN VITRO FERTILIZATION OF IN VITRO-MATURED OOCYTES WITH SEX-SORTED FROZEN-THAWED BOAR SPERM (2004)

Pre-sexed embryos and offspring have been produced after IVF and embryo transfer (ET) with sex-sorted frozen-thawed sperm in cattle and sheep (Maxwell et al. 2004 Anim. Reprod. Sci. 82–83, 79–95). The aims of this study were to demonstrate that sex-sorted frozen-thawed boar sperm could be incorporated into pig IVF for the production of embryos of a predetermined sex and that these embryos could be successfully nonsurgically transferred. Ovaries were collected from abattoir slaughtered gilts (n = 138) and selected COCs were matured in vitro (Long et al. 1999 Theriogenology 51, 1375–1390). Sperm were collected from a mature boar and diluted with Androhep (1:3, semen:Androhep; Minitube, Verona, WI, USA), stained with H33342, and separated into X and Y sperm using a SX MoFlo (Cytomation, Inc., Fort Collins, CO, USA). Sex-sorted sperm were cryopreserved in 0.5 mL straws using the Westendorf protocol modified for sorted sperm (Bathgate, unpublished). Thawed sperm (Y sperm only) were prepared for IVF by centrifugation (300g, 10 min) through a Porcipure gradient (Nidacon Int. AB, Gothenburg, Sweden), and washed (centrifugation 300g, 10 min) in mTALP-PVA. For IVF, COCs were denuded and groups of 100 oocytes were transferred to 200-µL drops of mTALP-PVA (Long et al. 1999) and incubated with 5,000 motile sperm for 4–6 (Short) or 18–20 h (Long) . Presumptive zygotes were washed and transferred to 100-µL drops of mNCSU-23 (Long et al. 1999) and cultured until Day 4 (Day 0 = IVF) in humidified 5% CO2, 6% O2, 89% N2. Oocyte cleavage was assessed 48 h post-insemination, and on Day 4 selected morulae were transferred to recipient sows (n = 7 Large White × Landrace; 65 morulae per sow) nonsurgically using a Firflex catheter (Magapor, Zaragoza, Spain). Sex of remaining embryos was confirmed by PCR and restriction analysis (Cong et al. 1993 Hum. Mol. Genet. 2 1187–1191). Data from three replicates were arc sin transformed and analyzed by ANOVA. Oocyte cleavage was similar after Short (724/1547; 46.8%) or Long (598/1528; 39.1%) co-incubation. Resort analysis showed sperm to be &amp;gt;91% purity, and all sexed morulae were of the predicted sex (16/16). Delayed return to estrus (&amp;gt;23 days) was observed in 5 recipient sows (71.4%). Fetal sacs were observed by transcutaneous ultrasound in one of these sows. Pre-sexed porcine IVP embryos can be successfully produced using sex-sorted frozen-thawed boar sperm, and these embryos are capable of initiating pregnancies when transferred to recipients. However, further refinement of porcine IVP and ET protocols are required to enable full in vivo development. This work was supported by XY, Inc., Fort Collins, CO, USA.
ChemInform Abstract: 2‐Amino‐ and 2‐Guanidino‐1,2,3,4‐tetrahydro‐1,4‐epoxynaphthalenes as Conformationally Defined Analogues of α‐Adrenergic Agents. (1987)

Abstract The isomeric amino‐7‐oxabenzonorbornenes (III) and (V) are prepared from the fused oxanorbornadienes (I) via the azides (II) or the ketones (IV).
Inclusion complexes of β-cyclodextrine with Fe3O4@HA@AgPart I:Preparation and characterization (2019)

n this study, the preparation of inclusion complexes according to kneading and physical mixing techniques at 1:1 and 1:2 (guest:host) mass ratios of Fe 3 O 4 @HA@Ag and β-cyclodextrin were studied. Fourier transformed infrared spectroscopy, thermogravimetric analyses and scanning electron microscope analysesof the prepared complexes were carried out. According to the results obtained, it was observed Fe 3 O 4 @HA@Ag especially forms inclusion complex with β-cyclodextrin at a mass ratio of 1:2. In the second part of this study, results related to the use of these inclusion complexes during electrospinning process in order to obtain antibacterial nanowebs, which could potentially be used in medical wounds, will be given.
Effects of magnetic and electric fields upon cavitation in conducting and non-conducting liquids : russian research results (1974)

http://deepblue.lib.umich.edu/bitstream/2027.42/5303/5/bac3425.0001.001.pdf