gebhart/patrepeval huggingface dataset:
DNA Immunization of Mice against SIVmac239 Gag and Env Using Rev-Independent Expression Plasmids (1998)

Simian immunodeficiency virus (SIV) structural gene expression, including gag and env, strictly depends on the interaction of the viral posttranscriptional regulator Rev with its target RNA, the Rev-responsive element (RRE). A small RNA element, termed the constitutive transport element (CTE), located in the 3' portion of simian retrovirus 1 (SRV-1) mRNA, can efficiently substitute for the human immunodeficiency virus (HIV) Rev-RRE interaction, and thus render HIV expression and replication Rev independent. We tested the ability of the SRV-1 CTE to drive the expression of SIVmac239 env and gag from subgenomic constructs designed for possible use in vaccine trials. In vitro expression studies showed that when the SRV-1 sequence is coupled to the SIV gag and env mRNAs, it functions in an orientation-dependent fashion, and leads to strong expression of SIV Gag and Env in human and monkey cell lines; levels of CTE-mediated protein expression were similar to those obtained with a functional Rev-RRE system. On the other hand, in murine fibroblast-like cells, SIV Gag and Env were expressed from constructs at relatively high levels even in the absence of Rev-RRE; nevertheless, their expression was increased by the presence of the SRV-1 CTE. As reported previously for HIV, the murine cell lines appeared to be defective for Rev-RRE activity, and required overexpression of Rev to induce a Rev response. Intramuscular injection of the gag-CTE and env-CTE constructs in BALB/c mice resulted in the expression of the corresponding mRNAs, and the production of anti-Gag and anti-Env antibodies, thus suggesting that these vectors might be used for genetic immunization approaches.
Age of Information-Aware Scheduling for Timely and Scalable Internet of Things Applications (2019)

We consider large scale Internet of Things applications requesting data from physical devices. We study the problem of timely dissemination of sensor data towards applications with freshness requirements by means of a cache. We aim to minimize direct access to the possibly battery powered physical devices, yet improving Age of Information as a data freshness metric. We propose an Age of Information-aware scheduling policy for the physical device to push sensor updates to the caches located in cloud data centers. Such policy groups application requests based on freshness thresholds, thereby reduces the number of requests and threshold misses, and accounts for delay variation. The policy is incrementally introduced as we study its behavior over ideal and more realistic communication links with delay variation. We numerically evaluate the proposed policy against a simple yet widely used periodic schedule. We show that our informed schedule outperforms the periodic schedule even under high delay variations.
ChemInform Abstract: Automated Synthesis and Purification of Amides: Exploitation of Automated Solid Phase Extraction in Organic Synthesis. (1997)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Fabrication of radial superlattices based on different hybrid materials (2008)

Abstract The fabrication of radial superlattices is demonstrated for three different hybrid material systems. Inherently strained pseudomorphic InGaAs/Fe 3 Si bilayers are rolled‐up to produce radial semiconductor/magnetic heterostructures. Apart from this epitaxially based material system, radial InAlGaAs/GaAs/Cr superlattices are investigated as an example for periodic semiconductor/metallic multilayers. Finally, rolled‐up InGaAs/GaAs/1‐hexadecanethiol layers are studied as a new class of semiconductor/organic short‐period superlattices. The radial superlattices are examined structurally, and particular attention is paid to the interfaces of the periodic hybrid heterostructures. These investigations reveal that, except for the semiconductor/organic hybrid material system, always a new interface layer forms, modifying the initial rolled‐up layer system. The study demonstrates the potential to fabricate periodic layer systems from pure single‐crystalline material, single‐crystalline/poly‐crystalline material as well as single‐crystalline/non‐crystalline material, which cannot be realized by any planar growth techniques. (© 2008 WILEY‐VCH Verlag GmbH &amp; Co. KGaA, Weinheim)
Forage and Tree Production on Marginal Soils in Tennessee (1989)

Few data are available to compare perennial forage and tree crops grown on marginal soils not adapted to row and annual crops in land capability classes III to VI. A long‐term project was initiated in 1983 to study the productivity of loblolly pine ( Pinus taeda L.), American sycamore ( Platanus occidentalis L.), tall fescue ( Festuca arundinacea Schreb.) and bermudagrass ( Cynodon dactylon L.) on 10 marginal soils. Interim results are presented because the advent of the Conservation Reserve Program (CRP) brought attention to the scarcity of management information needed for such lands. Tree growth and biomass were measured 4 yr after planting. Grass production was measured with several cuts each year. Soil and weather characteristics which affected trees and grasses were identified by regression analysis. Tall fescue yields ranged from 1000 to over 8000 lb/acre with a mean of 3560. Bermudagrass yields averaged 2580 lb/acre with a range of 680 to almost 8000. Both grasses were affected by growing degree days and drought days associated with each soil each year. Exchangeable Al, percent silt, available water, and coarse fragment content also affected grass yield. Mean survival of loblolly pine at 5 yr was 89% with a predicted site index (25‐yr base) between 50 and 70. Predicted loblolly productivity was related to variations in extractable K, exchangeable Al, percent silt, total acidity, and available water. Fresh biomass of sycamore averaged 10 000 lb/acre, with a range of 625 to 28 000 lb/acre. Mean survival at age 5 was 96%. Predicted sycamore biomass production depended on soil available water, extractable P, and exchangeable Al in the top 6 in. of soil. The wide adaptation of loblolly pine and the genetic potential of sycamore to respond to better conditions were associated with the greater variation in sycamore production than in loblolly growth. Early sycamore biomass production has more closely followed grass yields than loblolly pine growth. The direct biological comparison of some tree vs. grass species on marginal soils will enhance the predictability of many potential land uses between competitive agriculture and forestry alternatives.
Object-based 3-D wavelet coding using layered object representation (2002)

In recent years, object/region-based video coding schemes have attracted considerable attention in the image coding community. These schemes are expected to yield better coding results, especially at low bit-rates. In this paper a new object/region-based video coding scheme is presented. It is based on a layered object representation for image groups along with affine motion fields. Thus, groups of images are decomposed into a number of object sequences. Each object sequence is motion compensated, transformed and coded separately using a 3-D wavelet transform. The presented results prove that object/region-based coding schemes can outperform the block-based standards in objective (PSNR) and subjective (visual) quality.
Purification and Some Properties of Urethane Hydrolase II fromLactobacillus caseiω ATCC 7469 (1986)

Journal Article Purification and Some Properties of Urethane Hydrolase II from Lactobacillus casei ω ATCC 7469 Get access Eiko Matsumura, Eiko Matsumura Laboratory of Microbial Products, Osaka University of Pharmaceutical Sciences, Matsubara, Osaka 580, Japan Search for other works by this author on: Oxford Academic Google Scholar Satoshi Yomoda, Satoshi Yomoda Laboratory of Microbial Products, Osaka University of Pharmaceutical Sciences, Matsubara, Osaka 580, Japan Search for other works by this author on: Oxford Academic Google Scholar Eiko Yamamoto, Eiko Yamamoto Laboratory of Microbial Products, Osaka University of Pharmaceutical Sciences, Matsubara, Osaka 580, Japan Search for other works by this author on: Oxford Academic Google Scholar Tatsu Kawano, Tatsu Kawano Laboratory of Microbial Products, Osaka University of Pharmaceutical Sciences, Matsubara, Osaka 580, Japan Search for other works by this author on: Oxford Academic Google Scholar Takashi Shin, Takashi Shin Department of Agricultural Chemistry, College of Agriculture, University of Osaka Prefecture, Sakai, Osaka 591, Japan Present address: Department of Applied Microbial Technology, The Kumamoto Institute of Technology, Kumamoto 860, Japan. Search for other works by this author on: Oxford Academic Google Scholar Sawao Murao Sawao Murao Department of Agricultural Chemistry, College of Agriculture, University of Osaka Prefecture, Sakai, Osaka 591, Japan Present address: Department of Applied Microbial Technology, The Kumamoto Institute of Technology, Kumamoto 860, Japan. Search for other works by this author on: Oxford Academic Google Scholar Agricultural and Biological Chemistry, Volume 50, Issue 10, 1 October 1986, Pages 2675–2677, https://doi.org/10.1080/00021369.1986.10867807 Published: 01 October 1986 Article history Received: 30 April 1986 Published: 01 October 1986
Tunable, synchronized, high energy, femtosecond laser pulses with Gaussian spatial profile (1991)

We use self-phase modulation in a single-mode fiber to produce broadband 200- μ J pulses of 42-fs duration with a nearly perfect Gaussian profile.
Fast Partitioning for VVC Intra-Picture Encoding with a CNN Minimizing the Rate-Distortion-Time Cost (2021)

This paper presents a CNN to reduce the encoding time of a VVC-based intra-picture encoder. For encoding a 32 × 32 block, the CNN estimates two partitioning parameters that restrict the allowed coding block width and height. To estimate them such that the encoder skips testing inefficient partitioning modes, we train the CNN as follows: First, we generate training data by encoding sequences without the CNN. While encoding, we test all combinations of the two parameters for each 32 × 32 block and store the resulting Lagrangian rate-distortion-time (RDT) cost. We use the recorded cost to derive the loss function when training the CNN. Consequently, the CNN is trained such that it minimizes the Lagrangian RDT cost. Our CNN reduces the encoding time by 50% with a bit rate increase of 0.9%, which outperforms existing CNN-based approaches. Our generic training approach could also be applied for other encoder parameters.
Multi-frequency radar systems for monitoring vital signs (2010)

This paper presents a theoretical and experimental analysis of multi-frequency radar systems for monitoring vital signs. The main advantage of using a multi-frequency architecture is the possibility to improve the detection sensitivity of heart beats and breathing rate while cancelling the body movement with signal processing. Simulations were carried out using ADS software for three systems operating at 5.8, 24 and 35 GHz. Different parameters such as antenna gain, mixer conversion loss and LNA gain were considered in the simulations for each system in connection with their system effects. It is shown that by using adequate correlation functions of received signals, it is possible to improve the detection accuracy. Experimental results are presented to validate the analysis and proposed approach.
Newly characterized motile sperm domain‐containing protein 2 promotes human breast cancer metastasis (2018)

Breast cancer is the most frequently diagnosed cancer and the leading cause of cancer death among women worldwide. Breast cancer metastasis results in poor prognosis and increased mortality, but the mechanisms of breast cancer metastasis are yet to be fully resolved. Identifying distinctive proteins that regulate metastasis might be targeted to improve therapy in breast cancer. We previously described MOSPD2 as a surface membrane protein that regulates monocyte migration in vitro. In this study, we demonstrate for the first time that MOSPD2 has a major role in breast cancer cell migration and metastasis. MOSPD2 expression was highly elevated in invasive and metastatic breast cancer while it was absent or residual in normal tissue and in primary in situ tumors. In vitro experiments showed that silencing MOSPD2 in different breast cancer cell lines significantly inhibited cancer cell chemotaxis migration. Mechanistically, we found that silencing MOSPD2 profoundly abated phosphorylation events that are involved in breast tumor cell chemotaxis. In vivo, MOSPD2-silenced breast cancer cells exhibited marked impaired metastasis to the lungs. These results indicate that MOSPD2 plays a key role in the migration and metastasis of breast cancer cells and may be used to prevent the spreading of breast cancer cells and to mediate their death.
Heteroalkyl‐Substitution in Molecular Organic Semiconductors: Chalcogen Effect on Crystallography, Conformational Lock, and Charge Transport (2022)

Abstract The effect of heteroalkyl (‐XR, X = Se, S, O) substitution on a series of molecular semiconductors having a 3,3′‐diheteroalkyl‐2,2′‐bithiophene (XBT) central core is studied. Thus, the selenotetradecyl (‐SeC 14 H 29 ) SeBT core is investigated by end‐functionalization with two dithienothiophene (DTT), thienothiophene (TT), and thiophene (T) units to give SeBTs 1 – 3 , respectively, for molecular π‐conjugation effect examination. Furthermore, the selenodecyl (‐SeC 10 H 21 ) and selenohexyl (‐SeC 6 H 13 ) SeBT cores end‐capped with DTTs to give SeBTs 1B and 1C , respectively, are synthesized for understanding ‐SeR length effects. To address systematically the impact of the chalcogen heteroatom, the newly developed selenoalkyl SeBTs are compared with the previously reported thiotetradecyl (‐SC 14 H 29 ) DDTT‐SBT ( 4 ) and the new tetradecyloxy (‐OC 14 H 29 ) DDTT‐OBT ( 5 ). When fabricating organic field effect transistors by the solution‐shearing method, the devices based on the tetradecylated DDTT‐SeBT ( 1 ) exhibit the highest mobility up to 4.01 cm 2 V −1 s −1 , which is larger than those of the other SeBT compounds and both DDTT‐SBT ( 4 ) (1.70 cm 2 V −1 s −1 ) and DDTT‐OBT ( 5 ) (9.32 × 10 −4 cm 2 V −1 s −1 ). These results are rationalized by a combination of crystallographic, morphological, and microstructural analysis.
Eupalinilide E Inhibits Erythropoiesis and Promotes the Expansion of Hematopoietic Progenitor Cells (2013)

Hematopoietic stem cells (HSCs) are the progenitor cells that give rise to all blood cells. The ability to control HSC differentiation has the potential to improve the success of bone marrow transplants and the production of functional blood cells ex vivo. Here we performed an unbiased screen using primary human CD34(+) hematopoietic stem and progenitor cells (HSPCs) to identify natural products that selectively control their differentiation. We identified a plant-derived natural product, eupalinilide E, that promotes the ex vivo expansion of HSPCs and hinders the in vitro development of erythrocytes. This activity was additive with aryl hydrocarbon receptor (AhR) antagonists, which are also known to expand HSCs and currently in clinical development. These findings reveal a new activity for eupalinilide E, and suggest that it may be a useful tool to probe the mechanisms of hematopoiesis and improve the ex vivo production of progenitors for therapeutic purposes.
Supplementary Table 1 from Complement-Dependent Tumor Cell Lysis Triggered by Combinations of Epidermal Growth Factor Receptor Antibodies (2023)

Supplementary Table 1 from Complement-Dependent Tumor Cell Lysis Triggered by Combinations of Epidermal Growth Factor Receptor Antibodies
Noise in 6H-SiC ion implanted p–n diodes: Effect of the active area on the noise properties of these junctions (1999)

Low frequency noise in 6H-SiC ion implanted p–n diodes has been investigated. The noise measurements were performed under forward bias over a wide temperature range from 77 to 300 K and frequency range from 10 to 100 kHz. Three diodes with different areas A1, A2, and A3, (A1&amp;lt;A2&amp;lt;A3), have been studied. The effect of the area on the noise properties of these junctions was found to be at room temperature, depending on the origin of the noise. Two relationships between the noise spectral density SI(f ) and the area (A) have been found to describe the noise behavior observed in these junctions at different current density ranges. From the noise experimental data at low temperatures, two different trap states were detected in the diode with the smallest area. This explains the higher noise level observed in this diode in the recombination-generation region.
Transcranial low-level light therapy produces neuroprotection, neurogenesis and BDNF after TBI in mice (2013)

We have previously shown that transcranial low level light therapy (LLLT) can ameliorate brain damage in mice subjected to traumatic brain injury and improve neurological function. We used a 810-nm laser and delivered 18 J/cm2 at an irradiance 25 mW/cm2. LLLT was either delivered once at 4 hours after controlled cortical impact TBI, once a day for 3 days, or once a day for 14 days. One and 3 applications of LLLT had beneficial effects on the mice, with 3 being better than 1, but 14 applications had no beneficial effect. We now report immunofluorescence studies in mouse brain sections that offer some explanation for this intriguing finding. Mice were injected with BrdU for 1 week before sacrifice (a marker for proliferating cells) and antibodies to double cortin (DCX-1,a marker of migrating neurons), Tuj-1 ( a marker of neuroprogenitor cells), BDNF (brain derived neurotrophic factor) and synapsin-1 ( a marker for newly formed synaptic connections between existing neurons). We found increased BrdU incorporation indicating proliferating cells in the dentate gyrus of the hippocampus, the subventricular layer of the lateral ventricle, as well as the brain tissue surrounding the cortical lesion. Interestingly these cells were more abundant at 7 days than at 28 days post TBI. Co-labeling of BrdU with Neu-N was performed indicating that the proliferating cells were in fact neuronal in nature. Mice with 3 laser treatments had much more BrdU incorporation than mice with 14. Upregulation of BDNF was seen at 7 days, and increased expression of DCX-1 and Tuj-1 was seen at 28 days in the lesion region, indication that neuroprogenitor cells may have migrated there from sites of neurogenesis. Increased syapsin-1 was seen in the cortex at 28 days indicating that neural plasticity may be stimulated by LLLT. Taken together these data suggest that transcranial LLLT may have applications beyond TBI in areas such as neurodegenerative disease and psychiatric disorders.
Aligning Potency and Pharmacokinetic Properties for Pyridine-Based NCINIs (2016)

Optimization of pyridine-based noncatalytic site integrase inhibitors (NCINIs) based on compound 2 has led to the discovery of molecules capable of inhibiting virus harboring N124 variants of HIV integrase (IN) while maintaining minimal contribution of enterohepatic recirculation to clearance in rat. Structure-activity relationships at the C6 position established chemical space where the extent of enterohepatic recirculation in the rat is minimized. Desymmetrization of the C4 substituent allowed for potency optimization against virus having the N124 variant of integrase. Combination of these lessons led to the discovery of compound 20, having balanced serum-shifted antiviral potency and minimized excretion in to the biliary tract in rat, potentially representing a clinically viable starting point for a new treatment option for individuals infected with HIV.
Androgen Signaling in Prostate Cancer (2017)

The androgen-signaling axis plays a pivotal role in the pathogenesis of prostate cancer. Since the landmark discovery by Huggins and Hodges, gonadal depletion of androgens has remained a mainstay of therapy for advanced disease. However, progression to castration-resistant prostate cancer (CRPC) typically follows and is largely the result of restored androgen signaling. Efforts to understand the mechanisms behind CRPC have revealed new insights into dysregulated androgen signaling and intratumoral androgen synthesis, which has ultimately led to the development of several novel androgen receptor (AR)-directed therapies for CRPC. However, emergence of resistance to these newer agents has also galvanized new directions in investigations of prereceptor and postreceptor AR regulation. Here, we review our current understanding of AR signaling as it pertains to the biology and natural history of prostate cancer.
[Fruit of the emergence of an enterovirus: acute haemorrhagic conjunctivitis]. (2009)

First seen in Ghana and Indonesia in the early 70's, acute haemorrhagic conjunctivitis or "Apollo 11" disease is an eye infection caused by Enterovirus type 70 (EV70). The disease appeared to be a highly contagious conjunctivitis which spread rapidly all over the world. EV70 has been considered as an emerging virus and was classified as a new Enterovirus. No human or animal virus genetically similar to EV70 was known before the sudden outcome of the disease in Ghana, West Africa. EV70 appeared as a pretty demonstrative example of virus emergence and virus spreading. Studies of virus genetic mutations emphasized the variations of RNA virus within a short time period. The current review presents the EV70 infection and the genetic profile of the virus from its emergence to nowadays.
Plasma sputter deposition of Aluminum onto micropatterned silicon substrates: Experiments and molecular dynamics simulations (2011)

International audience
Battling With Environments: Drug Delivery to Target Tissues With Particles and Functional Biomaterials (2010)

Recent years have seen a growing interest in drug-delivery technology as an enabling tool for complicated pharmacological activities. At the same time, this field has faced as many challenges as successes in translating novel ideas into clinical benefits. The Laboratory for Therapeutic Particles and Biomaterials Engineering at Purdue University (IN, USA) has striven to identify the current challenges in drug delivery and find solutions through the design of new drug-delivery systems. We develop new inhalable formulations for drug and gene delivery for cystic fibrosis patients, simple particle platforms for inhalable drug delivery, anion-resistant nonviral gene vectors, tumor-targeted nanoparticle systems, and hydrogel-based therapeutics. Through expanded collaborations with researchers in medicine and related disciplines, we strive to contribute to advancing the drug delivery field in a clinically relevant manner.