gebhart/patrepeval huggingface dataset:
Abstract CT173: PGV-001: A phase I trial of a multipeptide personalized neoantigen vaccine in the adjuvant setting (2020)

Abstract Background: Mutation-derived tumor antigens (MTAs) arise as a result of somatic mutations, such as nucleotide substitutions and small insertions/deletions. MTAs can serve as specific targets for antitumor therapy, including neoantigen vaccines. The goal of neoantigen vaccination is to help prime T cells to recognize such tumor-specific mutations. Here we describe a phase I trial testing a personalized genomic vaccine (PGV-001) in multiple histologies in the adjuvant setting (NCT02721043). Methods: This trial included patients with histologic diagnosis of solid malignancies or multiple myeloma with a &amp;gt;30% risk of recurrence but no measurable disease at the time of first vaccination. For each patient, HLA typing was performed, and the patient's tumor and germline DNA and tumor RNA were sequenced. Mutated peptides containing predicted neoantigens were selected using the OpenVax computational pipeline, which prioritizes somatic mutations by expression of the mutant allele in the tumor RNA and predicted MHC class I epitope binding for the patient's HLA type. A maximum of 10 peptides was included in each patient's personalized vaccine. The vaccine was administered over the course of 6 months, given in combination with poly-ICLC as the adjuvant. The primary objectives were to determine safety and tolerability, feasibility, and immunogenicity of the PGV-001 neoantigen vaccine. Results: The neoantigen vaccine was successfully administered to 13 patients, spanning 5 different tumor types. For each patient, an average of 1730 somatic mutations were identified (range 521-5106), of which 349 were coding variants (range 68-1493), 88 were coding and expressed in the tumor RNA (range 9-233), and 71 were coding, expressed and resulted in predicted MHC class I ligands (range 8-193). The urothelial, head &amp; neck, and lung tumors resulted in larger numbers of predicted neoantigens than in the cases of multiple myeloma or breast tumors. Despite this difference, each of the 13 patient tumor samples showed enough of a neoantigen load to enable vaccination. We have also initiated analysis of immunogenicity, and early reports demonstrate neoantigen-specific CD4 and CD8 T-cell responses. Conclusions: The PGV-001 personalized neoantigen vaccine was successfully administered to 13 patients, where each patient's neoantigen load was adequate for vaccine synthesis. While we have demonstrated the computational feasibility of identification of neoantigens for inclusion in the PGV-001 genomic vaccine, clinical outcomes will be reported separately. Citation Format: Julia Kodysh, Thomas Marron, Alex Rubinsteyn, Tim O'Donnell, John Finnigan, Ana Blazquez, Mansi Saxena, Marcia Meseck, Philip Friedlander, Nina Bhardwaj. PGV-001: A phase I trial of a multipeptide personalized neoantigen vaccine in the adjuvant setting [abstract]. In: Proceedings of the Annual Meeting of the American Association for Cancer Research 2020; 2020 Apr 27-28 and Jun 22-24. Philadelphia (PA): AACR; Cancer Res 2020;80(16 Suppl):Abstract nr CT173.
An inherited enzymatic defect in porphyria cutanea tarda: decreased uroporphyrinogen decarboxylase activity. (1976)

Uroporphyrinogen decarboxylase activity was measured in liver and erythrocytes of normal subjects and in patients with porphyria cutanea tarda and their relatives. In patients with porphyria cutanea tarda, hepatic uroporphyrinogen decarboxylase activity was significantly reduced (mean 0.43 U/mg protein; range 0.25-0.99) as compared to normal subjects (mean 1.61 U/mg protein; range 1.27-2.42). Erythrocyte uroporphyrinogen decarboxylase was also decreased in patients with porphyria cutanea tarda. The mean erythrocyte enzymatic activity in male patients was 0.23 U/mg Hb (range 0.16-0.30) and in female patients was 0.17 U/mg Hb (range 0.15-0.18) as compared with mean values in normal subjects of 0.38 U/mg Hb (range 0.33-0.45) in men and 0.26 U/mg Hb (range 0.18-0.36) in women. With the erythrocyte assay, multiple examples of decreased uroporphyrinogen decarboxylase activity were detected in members of three families of patients with porphyria cutanea tarda. In two of these families subclinical porphyria was also recognized. The inheritance pattern was consistant with an autosomal dominant trait. The difference in erythrocyte enzymatic activity between men and women was not explained but could have been due to estrogens. This possibility was supported by the observation that men under therapy with estrogens for carcinoma of the prostate had values in the normal female range. It is proposed that porphyria cutanea tarda results from the combination of an inherited defect in uroporphyrinogen decarboxylase and an acquired factor, usually siderosis associated with alcoholic liver disease.
Nevenwerkingen Van131Jodium Therapie Bij Hypperthyreoidie (1984)

Summary131 I has been used as a treatment for hyperthyroidism in the last 40 years in over a million hyperthyroid patients. In subjects older than 40 year, the usual doses for the treatment of hyperthyroidism (< 50 mCi) do not increase the risk for carcinomas of the thyroid or for other malignancies. Hypothyroidism is a very common side-effect, is dose related and increases at a rate of 3 % per year. Patients with a diffuse goiter or thyroid autoimmunity are at higher risk for developing hypothyroidism. If rapid correction of hyperthyroidism with high probability is needed, hypothyroidism is nearly inevitable. In such case substitution therapy has to be started early. Radiothyroiditis after treatment of 131 I for hyperthyroidism is relative rare. Pregnancy and lactation are absolute contraindications for treatment with 131I. Genetic effects have not been observed in man. The lack of long-term observations after treatment with 131I in children as well as the higher incidence of adenomas and carcinomas of the thyroid in such patients make the use of 131I in children highly debatable.131I therapy is a safe, effective and simple therapy for hyperthyroidism in adults. In children and during reproductive years, however, its use is to be discouraged.
Comparison of breast density assessments between synthesized C-View™ & intelligent 2D™ mammography (2022)

Lack of differences in density estimates between the two SM reconstructions is important as density assignment impacts risk stratification and adjunct screening recommendations.
CSF-Biomarkers in Olympic Boxing: Diagnosis and Effects of Repetitive Head Trauma (2012)

Increased CSF levels of T-tau, NFL, GFAP, and S-100B in >80% of the boxers demonstrate that both the acute and the cumulative effect of head trauma in Olympic boxing may induce CSF biomarker changes that suggest minor central nervous injuries. The lack of normalization of NFL and GFAP after the rest period in a subgroup of boxers may indicate ongoing degeneration. The recurrent head trauma in boxing may be associated with increased risk of chronic traumatic brain injury.
Radiation Damage of Glass-Fiber-Reinforced Composite Materials at Low Temperatures (1992)

Radiation damage of glass-fiber-reinforced plastics (GFRPs) has been examined in terms of interlaminar shear strength in order to develop radiation-resistant composites. The GFRPs, containing different types and amounts of glass, were irradiated at Kyoto University Reactor below 20 K and tested at liquid-nitrogen temperature before warming to room temperature. The effect of the matrix material was also examined. After interlaminar shear tests, the specimens were examined by SEM. We found that small amounts of boron in the glass fibers significantly degraded the interlaminar shear strength in the thermal neutron environment.
Thin-layer chromatography with in situ multichannel image detection of fluorescent compounds (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThin-layer chromatography with in situ multichannel image detection of fluorescent compoundsM. L. Gianelli, J. B. Callis, G. D. Christian, N. H. Andersen, and G. D. ChristianCite this: Anal. Chem. 1981, 53, 9, 1357–1361Publication Date (Print):August 1, 1981Publication History Published online1 May 2002Published inissue 1 August 1981https://pubs.acs.org/doi/10.1021/ac00232a012https://doi.org/10.1021/ac00232a012research-articleACS PublicationsRequest reuse permissionsArticle Views58Altmetric-Citations19LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Synthesis of analogues of porphobilinogen (1996)

Syntheses are described of several analogues of porphobilinogen intended as substrates and/or inhibitors of porphobilinogen deaminase (hydroxymethylbilane synthase). 2-Methylporphobilinogen 12 has been synthesised from α-methylpyrrole 6, whereas a phosphonate analogue 20 of porphobilinogen, 8,9-didehydroporphobilinogen 26 and 9-fluoroporphobilinogen 38 have all been made from the 1H-pyrrolo[2,3-c]pyridine 14. The best route to 38 avoids fluoroacrylate 28 because of loss of fluorine during reduction of the double bond.
A quantitative evaluation for well pattern adaptability in ultra-low permeability oil reservoirs: A case study of Triassic Chang 6 and Chang 8 reservoirs in Ordos Basin (2018)

Based on the previous studies and development practice in recent 10 years, a quantitative evaluation method for the adaptability of well patterns to ultra-low permeability reservoirs was established using cluster analysis and gray correlation method, and it includes 10 evaluation parameters in the four aspects of optimal evaluation parameters, determination of weights for evaluation parameters, development stage division, and determination of classification coefficients. This evaluation method was used to evaluate the well pattern adaptability of 13 main ultra-low permeability reservoirs in Triassic Chang 6 and Chang 8 of Ordos Basin. Three basic understandings were obtained: Firstly, the well pattern for ultra-low permeability type-I reservoirs has generally good adaptability, with proper well pattern forms and well pattern parameters. Secondly, square inverted nine-spot well pattern is suitable for reservoirs with no fractures; rhombic inverted nine-spot injection pattern is suitable for reservoirs with some fractures; and rectangular well pattern is suitable for reservoirs with rich fractures. Thirdly, for the ultra-low permeability type-II and type-III reservoirs, with the principles of well pattern form determination, the row spacing needs to be optimized further to improve the level of development of such reservoirs.
A New 40-nm SONOS Structure Based on Backside Trapping for Nanoscale Memories (2005)

Silicon-on-nothing (SON) devices have been analyzed for the first time in view of nanoscaled nonvolatile memories (NVM) applications. Two reliable steady states have been demonstrated using backside charge trapping in the nitride layer under the channel as a memory effect in a 40-nm gate-length pMOS silicon-oxide-nitride-oxide-silicon device realized with SON technology. Low voltages (/spl sim/3 V) are required for memory operations and a threshold voltage memory window superior to 0.5 V can be achieved. Charge loss mechanism is analyzed and very promising data retention behavior is demonstrated at 125/spl deg/C. This architecture, with a storage node localized under the channel, is exactly the same device that can operate as a high-performance transistor at low voltages and as an NVM cell at higher voltage ranges. A total compatibility between logic and the embedded NVM process is thus insured. In view of high-density memories, the feasibility of 2-bit storage in a longer SON device is also demonstrated.
Improving Magnocellular Function in the Dorsal Stream Remediates Reading Deficits (2011)

Purpose. This study examined the effects of Direction Discrimination Training (DDT) on reading performance in dyslexics. In particular, the study examined whether increasing stimulus complexity and the amount of training would increase reading fluency more than in previous studies, as well as whether these improvements were sustained over time. Methods: DDT, using patterns that maximally activate magnocellular neurons, was administered to dyslexic children over the same amount of time (3 months) for twice the frequency each week, using twice as many stimulus complexity levels, as administered in previous studies. A computer-based reading speed task followed DDT to provide reading practice. In addition, the results from the same dyslexics in two previous studies were reanalyzed to determine whether the improvements in reading fluency following DDT in second grade were retained and manifest in third grade. Results: Contrast sensitivity for direction discrimination increased significantly over that found previously. Reading rates improved 11 fold, in contrast to previous studies of DDT over the same length of time, which found that reading rates improved only 4 fold. Not only did reading fluency improve when dyslexics were trained to discriminate the direction of motion at low contrasts, but spelling, word identification, and comprehension also improved 1-3 grade levels. These improvements persisted over time. Conclusions: These results suggest that improving the timing and sensitivity of the direction selective cells is linked to improving reading performance. DDT appears to improve magnocellular function in the dorsal stream which may be essential for guiding the attention gateway. The data suggest that it tunes visual neural timing in the dorsal stream, enabling it to guide the ventral stream, improving reading skills, as well as figure/ground discrimination, attention, and processing speed. Our data indicates that this program provides a comprehensive, rapid, and effective regimen for remediating reading problems.
Short segment of left colon substitution following proximal gastrectomy. (1997)

For improved quality of life, limited surgery for early gastric cancer has been preferred over the standard operation with lymph node dissection. Therefore, we have developed a modified technique: the proximal gastrectomy is reconstructed with a short segment of the left colon. The anastomoses of both esophagocolonostomy and colono-gastric remnantstomy are made using stapling devices. A His' angle is formed to reduce reflux esophagitis. We described here the detail of an operative technique.
Registration and analysis of neutrino interactions in emulsion (1978)

A procedure is described for recording neutrino interactions in emulsion using the IHEP neutrino beam. Eight emulsion stacks with a total volume of 16 liters were irradiated. A neutrino detector was used to target the neutrino interaction vertices in the emulsion and to identify the secondary particles. The results of the first stage of investigations aimed at finding new short-lived particles are reported. Eight multiprong events were obtained from the results of target indication in the emulsion and were analyzed.
The Epidemiological Study of Skin Aging in a High Temperature Environment (2004)

Background: Forty percent of solar irradiation arriving on the ground surface is infrared rays (IR). However, these have received little attention. Chronic experimental exposure to IR has been found to cause degenerative changes to dermal connective tissue and an accumulation of ground substances, which is similar to changes which occur by photoaging. Objective: To investigate the effects of persistent heat exposure on the cutaneous aging symptoms such as wrinkles, dyspigmentation and telangiectasia. Methods: A total of 306 male volunteers, aged between 26-68 years, were recruited from steel factories with a torrid working environment. Each volunteer was interviewed for demographic information, cumulative sunlight exposure levels and their smoking history. Skin examination and measurement of erythema/pigmentation levels were also performed on the crow's feet area of the face and/or the upper inner arm. Results:1. The group of males, aged 50years or over, who had been exposed to high temperatures for more than 10years showed a tendency to have severer wrinkles (5.11.5) than an age-matched control group (3.70.1).2. There was no correlation between dyspigmentation and heat exposure.3. Erythema indices decreased and were found to be dependent on the duration of heat exposure to the face in the group of males over 40years of age, and to the upper inner arm in the group of males over 50years of age. Conclusion: Chronic heat exposure might contribute to the development of skin wrinkles and shows the possibility of potentiation of extreme ultraviolet effects.
Rate coefficients for the reactions of chlorine atoms with methanol and acetaldehyde (1999)

Rate coefficients have been measured for the reactions of Cl atoms with methanol (k1) and acetaldehyde (k2) using both absolute (laser photolysis with resonance fluorescence) and relative rate methods at 295 ± 2 K. The measured rate coefficients were (units of 10−11 cm3 molecule−1 s−1): absolute method, k1 = (5.1 ± 0.4), k2 = (7.3 ± 0.7); relative method k1 = (5.6 ± 0.6), k2 = (8.4 ± 1.0). Based on a critical evaluation of the literature data, the following rate coefficients are recommended: k1 = (5.4 ± 0.9) × 10−11 and k2 = (7.8 ± 1.3) × 10−11 cm3 molecule−1 s−1 (95% confidence limits). The results significantly improve the confidence in the database for reactions of Cl atoms with these oxygenated organics. Rate coefficients were also measured for the reactions of Cl2 with CH2OH, k5 = (2.9 ± 0.6) × 10−11 and CH3CO, k6 = (4.3 ± 1.5) × 10−11 cm3 molecule−1 s−1, by observing the regeneration of Cl atoms in the absence of O2. Based on these results and those from a previous relative rate study, the rate coefficient for CH3CO + O2 at the high pressure limit is estimated to be (5.7 ± 1.9) × 10−12 cm3 molecule−1 s−1. © 1999 John Wiley & Sons, Inc. Int J Chem Kinet 31: 776–784, 1999
A Unique 33-kD Cysteine Proteinase Accumulates in Response to Larval Feeding in Maize Genotypes Resistant to Fall Armyworm and Other Lepidoptera (2000)

Tibor Pechan, Lijun Ye, Yu-min Chang, Anurina Mitra, Lei Lin, Frank M. Davis, W. Paul Williams, Dawn S. Luthe, A Unique 33-kD Cysteine Proteinase Accumulates in Response to Larval Feeding in Maize Genotypes Resistant to Fall Armyworm and Other Lepidoptera, The Plant Cell, Vol. 12, No. 7 (Jul., 2000), pp. 1031-1040
Some Old and Some New Ideas on Kinin Metabolism (1990)

Enzymes that hydrolyze kinins are known under the collective term of "kininases." This short review surveys kininase I- and II-type enzymes. For the sake of simplicity, we call carboxypeptidases that remove the C-terminal arginine of kinins kininase I-type enzymes. Plasma carboxypeptidase N and the cell membrane-bound carboxypeptidase M belong here. Kininase II enzymes release the C-terminal dipeptide Phe-Arg; angiotensin I-converting enzyme and neutral endopeptidase 24.11 (enkephalinase) are prominent members of this subgroup of proteins. The primary sequence of five proteins of the four human kininases (including the catalytic and regulatory subunits of carboxypeptidase N) were deduced from the nucleotide sequence of their cDNAs. The structure and properties of these enzymes are briefly discussed.
Modeling the Distinct Negative-Reinforcement Mechanisms Associated with Alcohol Misuse and Unhealthy Snacking (2019)

This study demonstrates that coping motivations are critical to the relationship between negative personality characteristics and unhealthy behaviors and highlights the distinct negative-reinforcement pathways associated with hazardous drinking and unhealthy snacking in majority university-educated females from the UK.
Effects of Ionomer Morphology on Oxygen Reduction on Pt (2015)

The oxygen reduction reaction (ORR) at the interface between platinum and Nafion 1100 equivalent weight was studied as a function of temperature (20-80 C), humidity (10-100%), scan rate, the manner in which Nafion film was deposited, and the state of the Pt surface using ultramicroelectrodes employing cyclic voltammetry and chronoamperometry. ORR on smooth electrodes was strongly inhibited under specific conditions dependent on temperature, humidity, and scan rate. From the data presented, we postulate that dynamic changes in the molecular structure of the ionomer at the platinum interface result in differences in ORR voltammetry for films prepared and equilibrated under different conditions. The lack of similar changes for rough, platinized electrodes has been attributed to differences in initial ionomer structure and a higher energy barrier for ionomer restructuring. These model system studies yield insight into the ionomer-catalyst interface of particular interest for polymer electrolyte fuel cells.
ASSEMBLY OF FUNCTIONAL CFTR CHLORIDE CHANNELS (2004)

The assembly of the cystic fibrosis transmembrane regulator (CFTR) chloride channel is of interest from the broad perspective of understanding how ion channels and ABC transporters are formed as well as dealing with the mis-assembly of CFTR in cystic fibrosis. CFTR is functionally distinct from other ABC transporters because it permits bidirectional permeation of anions rather than vectorial transport of solutes. This adaptation of the ABC transporter structure can be rationalized by considering CFTR as a hydrolyzable-ligand-gated channel with cytoplasmic ATP as ligand. Channel gating is initiated by ligand binding when the protein is also phosphorylated by protein kinase A and made reversible by ligand hydrolysis. The two nucleotide-binding sites play different roles in channel activation. CFTR self-associates, possibly as a function of its activation, but most evidence, including the low-resolution three-dimensional structure, indicates that the channel is monomeric. Domain assembly and interaction within the monomer is critical in maturation, stability, and function of the protein. Disease-associated mutations, including the most common, DeltaF508, interfere with domain folding and association, which occur both co- and post-translationally. Intermolecular interactions of mature CFTR have been detected primarily with the N- and C-terminal tails, and these interactions have some impact not only on channel function but also on localization and processing within the cell. The biosynthetic processing of the nascent polypeptide leading to channel assembly involves transient interactions with numerous chaperones and enzymes on both sides of the endoplasmic reticulum membrane.