gebhart/patrepeval huggingface dataset:
Orphan nuclear receptor DAX‐1 in human endometrium and its disorders (2005)

DAX-1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on the X chromosome gene 1) is a recently characterized member of the orphan nuclear receptor family. DAX-1 functions as a global negative regulator of steroid hormone production. It inhibits adrenal 4 binding protein (Ad4BP)/steroidogenic factor-1 (SF-1) pathway-dependent P450arom expression in cultured human endometriotic stromal cells and acts as a corepressor for estrogen receptors (ER). In this study we first examined the localization of DAX-1 in 46 normal cycling endometria, 36 cases of endometrial hyperplasia and 103 cases of endometrial carcinoma by using immunohistochemistry to elucidate the possible involvement of DAX-1 and its correlation to the status of Ad4BP/SF-1, a universal transcription factor of steroidogenesis. We then evaluated DAX-1 mRNA expression, using quantitative reverse transcription-polymerase chain reaction for DAX-1 in 33 cases of endometrial carcinoma for further characterization. We subsequently correlated these findings with various clinicopathological parameters of the cases. Ad4BP/SF-1 immunoreactivity was not detected in any human endometria examined. A significant inverse correlation was detected between the status of DAX-1 immunoreactivity and histological grade (P = 0.0003) in endometrial carcinoma. The labeling index (LI) values of DAX-1 in normal endometrium during the secretory phase (P < 0.0001) and hyperplasia (P < 0.0001) were significantly higher than that of carcinoma. No significant correlations were detected between DAX-1 immunoreactivity and amounts of aromatase mRNA. There was a statistically significant positive correlation between DAX-1 and ERalpha (P = 0.006) and ERbeta LI (P < 0.001). These findings suggest that DAX-1 may inhibit the proliferation and progression of endometrial carcinoma through inhibition of estrogenic actions, possibly by interacting with ER present in carcinoma cells, rather than regulating in situ steroidogenesis.
The PRC-barrel domain of the ribosome maturation protein RimM mediates binding to ribosomal protein S19 in the 30S ribosomal subunits (2004)

The RimM protein in Escherichia coli is associated with free 30S ribosomal subunits but not with 70S ribosomes. A DeltarimM mutant is defective in 30S maturation and accumulates 17S rRNA. To study the interaction of RimM with the 30S and its involvement in 30S maturation, RimM amino acid substitution mutants were constructed. A mutant RimM (RimM-YY-->AA), containing alanine substitutions for two adjacent tyrosines within the PRC beta-barrel domain, showed a reduced binding to 30S and an accumulation of 17S rRNA compared to wild-type RimM. The (RimM-YY-->AA) and DeltarimM mutants had significantly lower amounts of polysomes and also reduced levels of 30S relative to 50S compared to a wild-type strain. A mutation in rpsS, which encodes r-protein S19, suppressed the polysome- and 16S rRNA processing deficiencies of the RimM-YY-->AA but not that of the DeltarimM mutant. A mutation in rpsM, which encodes r-protein S13, suppressed the polysome deficiency of both rimM mutants. Suppressor mutations, found in either helices 31 or 33b of 16S rRNA, improved growth of both the RimM-YY-->AA and DeltarimM mutants. However, they suppressed the 16S rRNA processing deficiency of the RimM-YY-->AA mutant more efficiently than that of the DeltarimM mutant. Helices 31 and 33b are known to interact with S13 and S19, respectively, and S13 is known to interact with S19. A GST-RimM but not a GST-RimM(YY-->AA) protein bound strongly to S19 in 30S. Thus, RimM likely facilitates maturation of the region of the head of 30S that contains S13 and S19 as well as helices 31 and 33b.
Angiogenesis: an update and potential drug approaches (review). (2010)

The therapeutic potential of targeting tumor endothelium and vascular supply is now widely recognized to treat different diseases. One such disease is cancer; where endothelial cells are actively proliferating to support the tumor growth. Solid tumors cannot grow beyond the size of a few millimeters without inducing the proliferation of endothelium and formation of new blood vessels. Hence it is crucial to search for new agents that selectively block tumor blood supply. These include anti-angiogenic molecules, vascular disrupting agents or endothelial disrupting agents. The anti-angiogenic molecules such as monoclonal antibodies and tyrosine kinase inhibitors disrupt endothelial cell survival mechanisms and new blood vessel formation, and vascular disrupting agents for instance ligand-directed and small molecules can be used to disrupt the already existing abnormal vasculature that support tumors by targeting their dysmorphic endothelial cells. The recent advances in this area of research have identified a variety of investigational agents which are currently in clinical development at various stages and some of these candidates are already approved in cancer treatment. This report will review some of the recent developments and most significant advances in this field and outline future challenges and directions.
wrinkled1: A Novel, Low-Seed-Oil Mutant of Arabidopsis with a Deficiency in the Seed-Specific Regulation of Carbohydrate Metabolism1 (1998)

During oil deposition in developing seeds of Arabidopsis, photosynthate is imported in the form of carbohydrates into the embryo and converted to triacylglycerols. To identify genes essential for this process and to investigate the molecular basis for the developmental regulation of oil accumulation, mutants producing wrinkled, incompletely filled seeds were isolated. A novel mutant locus, wrinkled1 (wri1), which maps to the bottom of chromosome 3 and causes an 80% reduction in seed oil content, was identified. Wild-type and homozygous wri1 mutant plantlets or mature plants were indistinguishable. However, developing homozygous wri1 seeds were impaired in the incorporation of sucrose and glucose into triacylglycerols, but incorporated pyruvate and acetate at an increased rate. Because the activities of several glycolytic enzymes, in particular hexokinase and pyrophosphate-dependent phosphofructokinase, are reduced in developing homozygous wri1 seeds, it is suggested that WRI1 is involved in the developmental regulation of carbohydrate metabolism during seed filling.
Signal and Resolution Enhancements in Dual Beam Optical Coherence Tomography of the Human Eye (1998)

In the past 10 years, a dual beam version of partial coherence interferometry has been developed for measuring intraocular distances in vivo with a precision on the order of 0.3 to 3 μm. Two improvements of this technology are described. A special diffractive optical element allows matching of the wavefronts of the divergent beam reflected at the cornea and the parallel beam reflected at the retina and collimated by the optic system of the eye. In this way, the power of the light oscillations of the interfering beams incident on the photodetector is increased and the signal-to-noise ratio of in vivo measurements to the human retina is improved by 20 to 25 dB. By using a synthesized light source consisting of two spectrally displaced superluminescent diodes with an effective bandwidth of 50 nm, and by compensating for the dispersive effects of the ocular media, it was possible to record the first optical coherence tomogram of the retina of a human eye in vivo with an axial resolution of ∼6 to 7 μm. This is a twofold improvement over the current technology. © 1998 Society of Photo-Optical Instrumentation Engineers.
Hardware Efficient and Low-Latency CA-SCL Decoder Based on Distributed Sorting (2016)

For polar codes, cyclic redundancy check (CRC)aided successive cancellation list (CA-SCL) decoder has attracted increasing attention from both academia and industry. In this paper, a hardware efficient and low-latency CA-SCL polar decoder based on distributed sorting is first proposed. For path metric (PM) sorting of each level, a distributed sorting (DS) algorithm is proposed to reduce the comparison complexity from (L <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> ) to (L) (L denotes list size), together with the latency from kL <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> to kL (k is a coefficient independent of L). Employing folding technique, the N-bit folding polar decoder can be implemented based on the basic √N-bit polar decoder. In addition, pipelining technique is employed to refine the timing issue resulting from folding. The CRC is performed for 2L candidate paths serially to reduce hardware cost. According to demo of (1024, 512) code on Altera Stratix V FPGA, the proposed CA-SCL decoders with L = 2 and adjustable L = 2, 4 consume 9% and 50% board resources, respectively. Decoding latencies (in terms of clock cycles) are 2, 528 and 4, 064, respectively. For L = 2 and 4, we can achieve the frame error rate (FER) of 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-2</sup> at the signal noise ratio (SNR) of 2.36 dB and 2.06 dB, respectively. Compared with the floating point results, the performance degradation is negligible. Thus, the proposed design is suitable and adjustable for different real-life scenarios.
Alteration of Intestinal Dysbiosis by Fecal Microbiota Transplantation Does not Induce Remission in Patients with Chronic Active Ulcerative Colitis (2013)

FMT by a single colonoscopic donor stool application is not effective in inducing remission in chronic active therapy-refractory UC. Changes in the composition of the intestinal microbiota were significant and resulted in a partial improvement of UC-associated dysbiosis. The results suggest that dysbiosis in UC is at least in part a secondary phenomenon induced by inflammation and diarrhea rather than being causative for inflammation in this disease.
Vaccines Against Human Papillomavirus and Cervical Cancer: Promises and Challenges (2005)

Cervical cancer and precancerous lesions of the genital tract are major threats to the health of women worldwide. The introduction of screening tests to detect cervical cancer precursor lesions has reduced cervical cancer rates in the developed world, but not in developing countries. Human papillomavirus (HPV) is the primary etiologic agent of cervical cancer and dysplasia. Thus, cervical cancer and other HPV-associated malignancies might be prevented or treated by HPV vaccines. Two vaccine strategies have been developed. First, prevention of HPV infection through induction of capsid-specific neutralizing antibodies has been studied in clinical trials. However, because the capsid proteins are not expressed at detectable levels by infected basal keratinocytes or in HPV-transformed cells, a second approach of developing therapeutic vaccines by targeting nonstructural early viral antigens has also been developed. Because two HPV oncogenic proteins, E6 and E7, are critical to the induction and maintenance of cellular transformation and are coexpressed in the majority of HPV-containing carcinomas, most therapeutic vaccines target one or both of these gene products. A variety of approaches is being tested in therapeutic vaccine clinical trials, whereby E6 and/or E7 are administered in live vectors, as peptides or protein, in nucleic acid form, or in cell-based vaccines. The paradigm of preventing HPV infection through vaccination has been tested, and two vaccines are currently in phase III clinical trials. However, current therapeutic vaccine trials are less mature with respect to disease clearance. A number of approaches have shown significant therapeutic benefit in preclinical papillomavirus models and await testing in patient populations to determine the most effective curative strategy.
Fully Solution-Processed Semitransparent Organic Solar Cells with a Silver Nanowire Cathode and a Conducting Polymer Anode (2014)

We report the fabrication of efficient indium-tin-oxide-free organic solar cells based on poly(3-hexylthiophene-2,5-diyl):[6,6]-phenyl-C61-butyric acid methyl ester (P3HT:PCBM). All layers of the devices from the lowermost silver nanowire cathode to the uppermost conducting polymer anode are deposited from solution and processed at plastic-compatible temperatures<200 °C. Owing to the absence of an opaque metal electrode, the devices are semitransparent with potential applications in power-generating windows and tandem-cells. The measured power conversion efficiencies (PCEs) of 2.3 and 2.0% under cathode- and anode-side illumination, respectively, match previously reported PCE values for equivalent semitransparent organic solar cells using indium tin oxide.
Controlled Monomolecular Functionalization and Adhesion of Solid Surfaces (2000)

Pulsed plasma polymerization of maleic anhydride leads to the deposition of well-defined anhydride functionalized films. These layers readily undergo reaction with amine-terminated nucleophiles to produce surface amide linkages that convert into cyclic imide groups upon heating. Potential applications include adhesion and biocompatibility.
Chromosomal localization of the protein tyrosine phosphatase G1 gene and characterization of the aberrant transcripts in human colon cancer cells (1994)

We have recently described the isolation of the human PTPG1 gene which encodes a member of intracellular protein tyrosine phosphatases that may be candidates for tumor suppressor genes. In order to investigate the abnormality of the PTPG1 transcript in various human cancer cell lines, we have analyzed the consensus catalytic region of PTPG1 cDNA, using the reverse transcription polymerase chain reaction. In a colorectal carcinoma cell line, DLD-1, we found three aberrant transcripts. Sequencing analysis revealed that one had a missense point mutation and the remainders contained 77 bp and 173 bp deletions, respectively. These alterations might directly affect their phosphatase activities. Our findings provide the first evidence for the aberrant transcripts of the protein tyrosine phosphatase in human cancer cells, and suggest that the aberration of PTPG1 gene might be involved in the tumorigenesis. Moreover, the human PTPG1 gene is localized on chromosome 7q11.23, a region with frequent abnormalities implicated in some human cancers.
The detection of DNA from a range of bacterial species in the joints of patients with a variety of arthritides using a nested, broad-range polymerase chain reaction (1999)

These finding suggest an association between bacterial infection and inflammatory arthritides in some patients. Further research is required to determine the role of these organisms in the pathogenesis and whether such patients might respond to prolonged antibiotic therapy.
Demodulation Reference Signal Design and Channel Estimation for LTE-Advanced Uplink (2011)

The merits of 3GPP long term evolution (LTE), such as high spectral efficiency, very low latency, support of variable bandwidth, simple architecture, etc, make it the most competitive candidate for the next generation mobile communications standard. In the first release of LTE, only single transmit antenna is supported in the uplink due to its simplicity and acceptable performance. However, in order to keep its current leading position, LTE needs further evolvement (known as LTE-Advanced (LTE-A)) to provide better performance, including a higher uplink spectrum efficiency. Therefore, multiple transmit antennas must be supported in the LTE-A uplink and one important issue is the uplink demodulation reference signal (DMRS) design, which will influence uplink channel estimation accuracy and eventually determine uplink reliability and throughput. In this study we first briefly review the current status of DMRS in LTE uplink and then different DMRS enhancement schemes are investigated for LTE-A uplink multiple-input multiple-output (MIMO) transmission. Also, two-dimensional channel estimation algorithms are provided to realize accurate uplink channel estimation. With computer simulations, the performances of several candidate LTE-A uplink DMRS design schemes are evaluated and compared. Finally some basic conclusions are provided together with the latest standardization progress.
Genetic Classification of Primary Neurodegenerative Disease (1998)

Review During the past 10 years (the "decade of the brain"), some of the genetic causes of many of the primary neurodegenerative diseases, which include Alzheimer's disease, Parkinson's disease, Huntington's disease, amyotrophic lateral sclerosis, prion disease, and many ataxic syndromes, have been found. These breakthroughs mean that for many of these diseases we now know the initiating trigger as well as the final outcome. These diseases have many pathological mechanisms in common, and there may be relatively few pathways to neuronal death seen in these disorders. Thus, treatment strategies developed for a particular disease may be found to have efficacy in more than one disorder.
THE USE OF RAPID ON-FARM MILK PROGESTERONE TESTS AS AN AID TO REPRODUCTIVE MANAGEMENT IN DAIRY CATTLE (1990)

A field study was conducted in 11 commercial dairy herds to test the accuracy and ease of use of a rapid enzyme-linked immunosorbent assay (ELISA) kit for on-farm milk progesterone analysis. Milk samples were collected at milking following detection of estrus and on day 21 postbreeding. Progesterone was measured on-farm by producers using an ELISA kit and by a technician in the laboratory using a radioimmunoassay (RIA). Of the 256 samples collected at suspected estrus, estrual concentrations of progesterone (≤ 2 ng mL −1 ) were detected in 246 samples by the farmer and in 253 samples by laboratory analysis. Nonestrual concentrations (&gt; 2 ng mL −1 ) were detected in 10 samples by the farmer and in three samples by RIA. At 21 d, there was 94% agreement between the two methods in detecting high (&gt; 2 ng mL −1 ) milk progesterone concentrations (n = 149). The corresponding figure for low (≤ 2 ng mL −1 ) milk progesterone was 88% (n = 73). Seventy-two percent of the cows with high milk progesterone (by RIA) at 21 d were subsequently diagnosed pregnant by rectal palpation. The overall agreement between ELISA and RIA was 96.6% (453/469 samples). No significant differences were observed among farmers in their ability to perform ELISA tests on-farm. The results indicate that the ELISA kits can be used with ease by producers and are comparable in accuracy to RIA performed in the laboratory for detection/confirmation of estrus and diagnosis on nonpregnant/possibly pregnant cows at 21 d postbreeding. Key words: On-farm tests, progesterone, reproductive management, dairy cattle
A clinical trial of anti-idiotype therapy for B cell malignancy (1985)

Eleven patients with B lymphocytic malignancy were treated with mouse monoclonal anti-idiotype antibodies. All but one of the patients in this study had received extensive prior treatment with conventional lymphoma therapy. All antibodies were prepared against, and uniquely reactive with, the patient's own tumor. Ten patients were treated with a single antibody, but one patient received three antibodies concurrently. The treatment protocol initially used an escalating dose schedule that was intended to evaluate toxicity, pharmacokinetics and, eventually, to achieve appreciable levels of free mouse antibody in the circulation. The last two patients received substantial initial doses. Tumor sampling was performed before and during therapy to evaluate tissue penetration by antibody. None of the patients had serum paraproteins by routine clinical testing, but six had idiotype protein detectable by a sensitive immunoassay at levels greater than 1 microgram/mL, two of which were greater than 200 micrograms/mL. Plasmapheresis was capable of reducing these levels temporarily. However, the presence of serum idiotype increased the requirement for mouse antibody to achieve tumor penetration. Another obstacle to treatment was immune response to mouse Ig, which occurred in five of the 11 patients. Once an immune response had begun, further infusions of antibody were not capable of reaching the tumor or inducing tumor regression and were associated with toxicity. Our initial patient remains in an unmaintained complete remission 42 months after receiving antibody. Five of ten additional patients have had objective remissions that were also clinically significant. However, these remissions were not complete and were of relatively short duration. This therapy shows promise as an alternative modality for the treatment of B cell malignancy. Further study will be needed to determine the mechanisms of the antitumor effect and to improve the clinical results.
Calcium-induced Calpain Mediates Apoptosis via Caspase-3 in a Mouse Photoreceptor Cell Line (2004)

The rd mouse, an accepted animal model for photoreceptor degeneration in retinitis pigmentosa, has a recessive mutation for the gene encoding the beta-subunit of the cGMP phosphodiesterase. This mutation results in high levels of cGMP, which leaves an increased number of the cGMP-gated channels in the open state, thus allowing intracellular calcium (Ca(2+)) to rise to toxic levels, and rapid photoreceptor degeneration follows. To delineate the events in rd photoreceptor degeneration, we demonstrated an increase in calpain and caspase-3 activity, hypothesizing that Ca(2+)-mediated apoptosis in photoreceptors is mediated by calpain, involving mitochondrial depolarization and caspase-3 activation. To examine this hypothesis further, a murine photoreceptor-derived cell line (661W) was treated with the Ca(2+) ionophore A23187, cGMP-gated channel agonist 8-bromo-cGMP, or phosphodiesterase inhibitor isobutylmethylxanthine to mimic the increased Ca(2+) influx seen in the rd photoreceptors. Ca(2+)-induced cell death in 661W cells was found to be mediated by calpain and caspase-3 and could be completely inhibited by the calpain inhibitor SJA6017, implicating both calpain and caspases in the apoptotic process. The apoptotic events correlated in an SJA6017-inhibitable manner with bid cleavage, mitochondrial depolarization, cytochrome c release, and caspase-3 and -9 activation. We concluded that Ca(2+) influx in the rd model of photoreceptor degeneration leads to the activation of the cysteine protease calpain, which executes apoptosis via modulation of caspase-3 activity.
Hydrogel-based sensor for CO2 measurements (2004)

A hydrogel-based sensor is presented for CO2 measurements. The sensor consists of a pressure sensor and porous silicon cover. A pH-sensitive hydrogel is confined between the two parts. Furthermore the porous cover contains a bicarbonate solution and a gaspermeable membrane. CO2 reacts with the solution resulting in a pH change. The hydrogel responds to this by generating a certain pressure which is measured by the pressure sensor. Experiments show that the sensor responds to CO2 steps within reasonable time and with good signal response. Especially due to the lack of any reference electrode this sensor principle proofs to have great potentials.