gebhart/patrepeval huggingface dataset:
Enumeration of subgingival species on primary isolation plates using colony lifts (1992)

This study evaluated the feasibility of using a colony lift method and DNA probes to enumerate bacterial species cultured on primary isolation plates. Fourteen digoxigenin-labeled whole chromosomal DNA probes representing 12 subgingival species were validated by hybridization with colony lifts prepared from 249 reference strains of 51 species grown on Trypticase soy agar plates supplemented with 5% sheep blood. Colonies of reference strains were lifted onto Nytran filters from plates and treated to lyse cells, remove cellular proteins, denature and fix microbial DNA to the filters. Positive reactions were detected with an anti-digoxigenin antibody conjugated to alkaline phosphatase and revealed by bromo-chloro-indolyl phosphate and nitroblue tetrazolium. Cross-reactions were not observed for 13/14 probes, but 2 strains of Streptococcus mitis reacted with the probe to Streptococcus sanguis II. Subgingival plaque samples were taken by means of a sterile curette from mesiobuccal surfaces of teeth present in each of 26 subjects with differing periodontal disease states. Samples were dispersed, diluted, plated and incubated anaerobically for 7 d at 35 degrees C. Colonies were lifted as described above. Filters were cut into sections and hybridized with the 14 digoxigenin-labeled DNA probes. The probes were used to enumerate the test species and the total number of isolates was determined in 711 plaque samples. The colony lift method and DNA probes provided a sensitive, economical and quantitative method for enumerating cultivable microbial species in subgingival plaque samples. In addition, the amplification provided by growing the organisms on agar plates facilitated determination of numbers of organisms in small plaque samples, such as those from healthy sites.
Length Change Patterns in the Lateral Extra-articular Structures of the Knee and Related Reconstructions (2014)

These results provide a surgical rationale for lateral extra-articular soft tissue reconstruction in terms of femoral graft fixation site and graft route.
Dual Infection with Human Immunodeficiency Virus Type 1 of Distinct Envelope Subtypes in Humans (1995)

Multiple genetic subtypes of human immunodeficiency virus type 1 (HIV-1) have been identified among internationally collected isolates. The HIV-1 epidemic in Thailand is largely due to B and E subtypes of virus. Dual infection with distinct HIV-1 subtypes would suggest that antiviral immunity evoked by one subtype can be incompletely protective against a second. Polymerase chain reaction typing and serologic typing were used to screen a panel of specimens from HIV-1-infected subjects in Thailand. Two persons simultaneously harbored HIV-1 of env subtypes B and E, and this was confirmed by colony hybridization with subtype-specific probes and nucleotide sequence analysis of a 630-bp fragment of gp120 from multiple molecular clones. In addition, both subtypes were identified in cocultured peripheral blood mononuclear cells from 1 individual. These data provide the first evidence of dual HIV-1 infection in humans and reinforce the need for polyvalent vaccines.
Abstract B36: In vivo laser-based imaging of the human fallopian tube for future cancer detection. (2016)

Abstract Inherited mutations in BRCA1 and BRCA2 cause a 20-50% lifetime risk of ovarian, fallopian tubel, or peritoneal carcinoma. Clinical recommendations for these high-risk women include the prophylactic removal of the ovaries and fallopian tubes by age 40 after child-bearing. Recent findings suggest that many presumed ovarian or peritoneal carcinomas arise in fallopian tube epithelium. Although survival rate is &amp;gt;90% when ovarian cancer is detected early (Stage_I), 70% of women have advanced disease (Stage_III/IV) at presentation when survival is less than 30%. Over the years, effective early detection of ovarian cancer has remained elusive, possibly because screening techniques have mistakenly focused on the ovary as the origin of ovarian carcinoma. Unlike ovaries, the fallopian tubes are amenable to direct visual imaging without invasive surgery, using access through the uterine cervix. To develop future screening protocols, we investigated using our 1.2-mm diameter, forward-viewing, scanning fiber endoscope (SFE) to image luminal surfaces of the fallopian tube before laparoscopic surgical removal. Three anesthetized human subjects participated in our protocol development which eventually led to 70-80% of the length of fallopian tubes being imaged in scanning reflectance, using red (632nm), green (532nm), and blue (442nm) laser light. A hysteroscope with saline uterine distention was used to locate the tubal ostia. To facilitate passage of the SFE through the interstitial portion of the fallopian tube, an introducer catheter was inserted 1-cm through each ostia. During insertion, saline was flushed to reduce friction and provide clearer viewing. This is likely the first high-resolution intraluminal visualization of fallopian tubes Citation Format: Elizabeth M. Swisher, C. David Melville, Richard S. Johnston, Kathy Agnew, Seine Chiang, Eric J. Seibel. In vivo laser-based imaging of the human fallopian tube for future cancer detection. [abstract]. In: Proceedings of the AACR Special Conference on Advances in Ovarian Cancer Research: Exploiting Vulnerabilities; Oct 17-20, 2015; Orlando, FL. Philadelphia (PA): AACR; Clin Cancer Res 2016;22(2 Suppl):Abstract nr B36.
Thymus-derived innate CD8+CD44hi T cells display features of antigen-experienced T cells with bystander helper properties (153.43) (2011)

Abstract Innate CD8 T cells are abundant in several transcription factors (TFs)-deficient mouse models, but little is known about their development in wild-type animals. We used the RAG2-GFP mouse model to discriminate between memory, naïve classic and innate TCRαβ CD8 cells in the thymus. Relative to classic T cells, innate thymocytes display increased levels of numerous cell surface molecules (TCR, CD2, CD3, CD5, CD38, CD62L, B7H1) and enhanced expression of the TFs T-bet, EOMES, Id3 and KFL2. Hematopoietic chimera studies revealed that non-hematopoietic MHCI+ cells are required for innate CD8 T cell selection in the thymus. Mice expressing the transgenic OTI TCR generate both classic and innate CD8 thymocytes suggesting that both subsets have overlapping TCR repertoires. Innate CD8 T cells were also found to rapidly produce high levels of IFNγ upon stimulation and to readily proliferate in response to IL2 and IL4. Under lymphopenic conditions, classic CD8 T cell expansion was 2-3 fold greater than that of innate T cells, which constitutively express B7H1 making them unduly susceptible to apoptosis. To test their bystander properties, we added classic or innate T cells as third-party cells to an in vitro antigen presentation assay. Innate T cells were capable of promoting the proliferation and activation of responding T cells in a CD44-dependent manner. These observations show that innate CD8 T cells represent a subset of thymocytes that differ in many ways from classic CD8 T cells.
[Effect of 2 different dosages of a porcine surfactant on pulmonary gas exchange of premature infants with severe respiratory distress syndrome]. (1993)

The dose of 100 mg/kg bw Curosurf resulted in a rapid improvement in oxygenation and ventilatory requirements; only during the first hours following surfactant replacement there was a slight further improvement with the higher dose of 200 mg/kg bw. The impact of different dose regimens on outcome parameters still has to be defined by a larger clinical trial.
Simulation of computer architectures: simulators, benchmarks, methodologies, and recommendations (2006)

Simulators have become an integral part of the computer architecture research and design process. Since they have the advantages of cost, time, and flexibility, architects use them to guide design space exploration and to quantify the efficacy of an enhancement. However, long simulation times and poor accuracy limit their effectiveness. To reduce the simulation time, architects have proposed several techniques that increase the simulation speed or throughput. To increase the accuracy, architects try to minimize the amount of error in their simulators and have proposed adding statistical rigor to their simulation methodology. Since a wide range of approaches exist and since many of them overlap, this paper describes, classifies, and compares them to aid the computer architect in selecting the most appropriate one.
Predicting Unbound Phenytoin Concentrations In Patients Receiving Valproic Acid: A Comparison of Two Prediction Methods (1995)

Haidukewych's equation predicts unbound phenytoin concentrations with the least bias and most precision with statistical significance. May's equation consistently underpredicted unbound phenytoin concentrations. Because unbound phenytoin fraction is not constant (and usually more than the expected 10%) in patients comedicated with VPA, unbound phenytoin concentrations cannot be predicted even though total VPA and phenytoin concentrations are known. If unbound phenytoin concentrations cannot be readily measured, Haidukewych's equation is a reliable predictor of unbound phenytoin concentrations.
Nanoparticle-Based Bio-Barcode Assay Redefines “Undetectable” PSA and Biochemical Recurrence after Radical Prostatectomy* (2020)

1490We report the development of a previously undescribed gold nanoparticle bio-barcode assay probe for the detection of prostate-specific antigen (PSA) at 330 fg/mL, automation of the assay, and the results of a clinical pilot study designed to assess the ability of the assay to detect PSA in the serum of 18 men who have undergone radical prostatectomy for prostate cancer. Due to a lack of sensitivity, available PSA immunoassays are often not capable of detecting PSA in the serum of men after radical prostatectomy. This new bio-barcode PSA assay is ~300 times more sensitive than commercial immunoassays. Significantly, with the barcode assay, every patient in this cohort had a measurable serum PSA level after radical prostatectomy. Patients were separated into categories based on PSA levels as a function of time. One group of patients showed low levels of PSA with no significant increase with time and did not recur. Others showed, at some point postprostatectomy, rising PSA levels. The majority recurred. Therefore, this new ultrasensitive assay points to significant possible outcomes: (i) The ability to tell patients, who have undetectable PSA levels with conventional assays, but detectable and nonrising levels with the barcode assay, that their cancer will not recur. (ii) The ability to assign recurrence earlier because of the ability to measure increasing levels of PSA before conventional tools can make such assignments. (iii) The ability to use PSA levels that are not detectable with conventional assays to follow the response of patients to adjuvant or salvage therapies.
All-optical diffractive/transmissive switch based on coupled cycloidal diffractive waveplates (2012)

Pairs of cycloidal diffractive waveplates can be used to doubly diffract or collinearly propagate laser radiation of the appropriate wavelength. The use of a dynamic phase retarder placed in between the pair can be utilized to switch between the two optical states. We present results from the implementation of an azo-based retarder whose optical properties can be modulated using light itself. We show fast and efficient switching between the two states for both CW and single nanosecond laser pulses of green radiation. Contrasts greater than 100:1 were achieved. The temporal response as a function of light intensity is presented and the optical switching is shown to be polarization independent.
In situ fabricated Ga2O3–GaAs structures with low interface recombination velocity (1995)

Amorphous Ga2O3 films have been deposited in situ on (100) GaAs layers grown by molecular beam epitaxy in ultrahigh vacuum. The Ga2O3–GaAs interface is stable during photoexcitation and the photoluminescence (PL) intensity, measured at 514.5 nm excitation wavelength, is enhanced drastically by a factor of 420 as compared to a corresponding bare GaAs surface. The Ga2O3–GaAs interface recombination velocity derived from a modified dead layer model is below 104 cm/s. Furthermore, the PL intensity of Ga2O3–GaAs structures approaches that of a very low interface state density (2×109 eV−1 cm−2) AlGaAs–GaAs reference structure.
Surgical Techniques for Chronic Lateral Patellar Instability (2004)

ABSTRACT A wide variety of procedures have been reported in the orthopedic literature to treat chronic lateral patellar instability. After careful review, it is clear that each of the classically described operations really addresses just one part of the pathology associated with chronic patellar instability. The trend today is to identify the specific underlying pathologic abnormalities and then to address each with an operation or a combination of operations without overcorrecting or creating compensatory problems. This review succinctly presents a practical guide to the evaluation and surgical treatment of chronic lateral patellar instability with an emphasis on identifying and treating the underlying pathology.
Structural Sparsification for Far-Field Speaker Recognition with Intel® Gna (2020)

Recently, deep neural networks (DNN) have been widely used in speaker recognition area. In order to achieve fast response time and high accuracy, the requirements for hardware resources increase rapidly. However, as the speaker recognition application is often implemented on mobile devices, it is necessary to maintain a low computational cost while keeping high accuracy in far-field condition. In this paper, we apply structural sparsification on time-delay neural networks (TDNN) to remove redundant structures and accelerate the execution. On our targeted hardware, our model can remove 60% of parameters and only slightly increasing equal error rate (EER) by 0.18% while our structural sparse model can achieve more than 1.5× speedup.
Figure S2 from The Transcriptional Regulator Sin3A Contributes to the Oncogenic Potential of STAT3 (2023)

&lt;p&gt;Data support the role of ALK and STAT3 in TSG silencing in ALK+ ALCL&lt;/p&gt;
[The EX-utero Intrapartum Technique (EXIT) procedure in Italy]. (2001)

Aim of the study was to present the first two Italian cases of C-section performed with the EXIT procedure (EX-utero Intrapartum Technique). Deliveries were performed at the Division of Obstetrics and Gynecology of the Hospital of Padua in cooperation with the Pediatric Surgery Department, both tertiary care centers. The first case was a twin with a huge neck mass (cystic hygroma) and the second a fetus with an oropharyngeal mass (epignathus). Airway patency could have been compromised at birth in both of them. EXIT procedure consists in securing the airway of the fetus partially delivered and still connected with the placenta. This technique leaves an intact feto-placental circulation and guarantees a normal fetal oxygenation while fetal airway patency is secured. Both the fetuses were successfully intubated and the C-section ended up in a short period of time without maternal and fetal complications. The EXIT technique, performed for the first time in 1989 and now in many centers abroad, can be considered a safe procedure as long as a multidisciplinary approach is carried out. The EXIT procedure is indicated whenever fetal airways can be compromised at birth, that is when oropharyngeal masses, laryngeal atresia, cystic hygroma and goiter are encountered during prenatal ultrasound.
Supplementary Table S2 from Genomic Copy Number Dictates a Gene-Independent Cell Response to CRISPR/Cas9 Targeting (2023)

&lt;p&gt;Cell Essential Control Genes: Table of cell essential control genes used in this manuscript.&lt;/p&gt;
SmartDeviceLink Application to Intelligent Climate Control (2016)

SmartDeviceLink (SDL) is an open-source software development kit (SDK) that enables a smart-device to connect to the vehicle, providing functions for safe and easy access to the vehicle human-machine interface (HMI) and the ability to programmatically control vehicle functions. This paper discusses a framework for developing intelligent control applications that implement personalized and context-aware features for automotive climate control systems. There is also a discussion of integration of wearables, internet-of-things (IoT) sensors, cloud and mobile machine learning.
Preclinical characterization of zuranolone (SAGE-217), a selective neuroactive steroid GABAA receptor positive allosteric modulator (2020)

Zuranolone (SAGE-217) is a novel, synthetic, clinical stage neuroactive steroid GABA<sub>A</sub> receptor positive allosteric modulator designed with the pharmacokinetic properties to support oral daily dosing. In vitro, zuranolone enhanced GABA<sub>A</sub> receptor current at nine unique human recombinant receptor subtypes, including representative receptors for both synaptic (γ subunit-containing) and extrasynaptic (δ subunit-containing) configurations. At a representative synaptic subunit configuration, α<sub>1</sub>β<sub>2</sub>γ<sub>2</sub>, zuranolone potentiated GABA currents synergistically with the benzodiazepine diazepam, consistent with the non-competitive activity and distinct binding sites of the two classes of compounds at synaptic receptors. In a brain slice preparation, zuranolone produced a sustained increase in GABA currents consistent with metabotropic trafficking of GABA<sub>A</sub> receptors to the cell surface. In vivo, zuranolone exhibited potent activity, indicating its ability to modulate GABA<sub>A</sub> receptors in the central nervous system after oral dosing by protecting against chemo-convulsant seizures in a mouse model and enhancing electroencephalogram β-frequency power in rats. Together, these data establish zuranolone as a potent and efficacious neuroactive steroid GABA<sub>A</sub> receptor positive allosteric modulator with drug-like properties and CNS exposure in preclinical models. Recent clinical data support the therapeutic promise of neuroactive steroid GABA<sub>A</sub> receptor positive modulators for treating mood disorders; brexanolone is the first therapeutic approved specifically for the treatment of postpartum depression. Zuranolone is currently under clinical investigation for the treatment of major depressive episodes in major depressive disorder, postpartum depression, and bipolar depression.
Multidimensional MR spectroscopic imaging of prostate cancer in vivo (2013)

Prostate cancer (PCa) is the second most common type of cancer among men in the United States. A major limitation in the management of PCa is an inability to distinguish, early on, cancers that will progress and become life threatening. One-dimensional (1D) proton ((1)H) MRS of the prostate provides metabolic information such as levels of choline (Ch), creatine (Cr), citrate (Cit), and spermine (Spm) that can be used to detect and diagnose PCa. Ex vivo high-resolution magic angle spinning (HR-MAS) of PCa specimens has revealed detection of more metabolites such as myo-inositol (mI), glutamate (Glu), and glutamine (Gln). Due to the J-modulation and signal overlap, it is difficult to quantitate Spm and other resonances in the prostate clearly by single- and multivoxel-based 1D MR spectroscopy. This limitation can be minimized by adding at least one more spectral dimension by which resonances can be spread apart, thereby increasing the spectral dispersion. However, recording of multivoxel-based two-dimensional (2D) MRS such as J-resolved spectroscopy (JPRESS) and correlated spectroscopy (L-COSY) combined with 2D or three-dimensional (3D) magnetic resonance spectroscopic imaging (MRSI) using conventional phase-encoding can be prohibitively long to be included in a clinical protocol. To reduce the long acquisition time required for spatial encoding, the echo-planar spectroscopic imaging (EPSI) technique has been combined with correlated spectroscopy to give four-dimensional (4D) echo-planar correlated spectroscopic imaging (EP-COSI) as well as J-resolved spectroscopic imaging (EP-JRESI) and the multi-echo (ME) variants. Further acceleration can be achieved using non-uniform undersampling (NUS) and reconstruction using compressed sensing (CS). Earlier versions of 2D MRS, theory of 2D MRS, spectral apodization filters, newer developments and the potential role of multidimensional MRS in PCa detection and management will be reviewed here.
If You Show Me Yours, I'll Show You Mine (1996)

Scholarly Communication is a dynamic landscape, and we are continually evolving. Many scholarly communications activities have spun-off into their own departments, such as VT Publishing and Digital Imaging and Preservation Services, and Digital Library Development. Our focus is on supporting the creation and dissemination of scholarship.
A Manually Curated Database on Clinical Studies Involving Cell Products Derived from Human Pluripotent Stem Cells (2020)

The last 5 years have witnessed a significant increase in the number of clinical studies based on human pluripotent stem cells (hPSCs). In parallel, concern is increasing about the proliferation of unregulated stem cell treatments worldwide. Regulated clinical testing is a de facto standard to establish the safety and efficacy of new cell therapies, yet reliable information on clinical studies involving hPSCs is scattered. Our analysis of a multitude of resources found 54 clinical studies involving several types of hPSCs, which are performed in ten countries. While the majority of those studies is based on human embryonic stem cells (hESCs), clinical studies involving human induced pluripotent stem cells increased more strongly in the past 2 years than the number of hESC-based studies. A publicly accessible database was created using the human pluripotent stem cell registry (https://hpscreg.eu) platform, providing a steadily updated comprehensive overview on hPSC-based clinical studies performed worldwide.
</title> </titles> <publication_date> <month>11</month> <year>2008</year> </publication_date> <pages> <first_page>676</first_page> <last_page>676</last_page> </pages> <publisher_item> <item_number item_number_type='sequence-number'>4666783</item_number> </publisher_item> <doi_data> <doi>10.1109/TSM.2008.2008790</doi> <resource>http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumber=4666783</resource> </doi_data> </journal_article> <journal_article> <titles> <title><![CDATA[Analysis of Read Current and Write Trip Voltage Variability From a 1-MB SRAM Test Structure (2008)

We present an area efficient test structure that allows measurement of the statistical distribution of SRAM cell read currents and write trip voltages for 1 million SRAM core cells. The data taken from measurements of wafers fabricated with a 90-nm and 65-nm CMOS process flow show that the device variations are Gaussian distributed for more than 1 million devices, covering more than 5 sigma of variation. The analysis of the measured SRAM performances validate Monte Carlo simulations.
<title>Generation and applications of high-power ultrashort pulses</title> (1995)

Advances in femtosecond laser technology now make it possible to reliably generate laser pulses in the terawatt energy range with 20 fs pulse duration, using laser system which fits on a single optical table. We have demonstrated two such systems: a 10 Hz, 3 TW sysetm, and a 1kHz, 0.05 TW system. These lasers make possible new studies of strong-field laser-matter interactions, and the generation of reliable femtosecond pulsed soft x-rays.
Electrogram fractionation during sinus rhythm occurs in normal voltage atrial tissue in patients with atrial fibrillation (2021)

In patients with a history of AF, EGM fractionation can occur at amplitudes > 0.5 mV when in SR in areas often considered not to be diseased tissue. The main mechanism of EGM fractionation is slow conduction, followed by wavefront collision and pivot sites.