The first Irish genome and ways of improving sequence accuracy

Whole-genome sequencing of an Irish person reveals hundreds of thousands of novel genomic variants. Imputation using previous known information improves the accuracy of low-read-depth sequencing

Carpe Diem: On the Evaluation of World Knowledge in Lifelong Language Models

In an ever-evolving world, the dynamic nature of knowledge presents challenges for language models that are trained on static data, leading to outdated encoded information. However, real-world scenarios require models not only to acquire new knowledge but also to overwrite outdated information into updated ones. To address this under-explored issue, we introduce the temporally evolving question answering benchmark, EvolvingQA - a novel benchmark designed for training and evaluating LMs on an evolving Wikipedia database, where the construction of our benchmark is automated with our pipeline using large language models. Our benchmark incorporates question-answering as a downstream task to emulate real-world applications. Through EvolvingQA, we uncover that existing continual learning baselines have difficulty in updating and forgetting outdated knowledge. Our findings suggest that the models fail to learn updated knowledge due to the small weight gradient. Furthermore, we elucidate that the models struggle mostly on providing numerical or temporal answers to questions asking for updated knowledge. Our work aims to model the dynamic nature of real-world information, offering a robust measure for the evolution-adaptability of language models.Comment: 14 pages, 5 figures, 5 tables; accepted at NeurIPS Syntheticdata4ML workshop, 202

Triplet-triplet annihilation photon-upconversion in hydrophilic media with biorelevant cholesteryl triplet energy acceptors

Funding Information: The Academy of Finland (Grant No. 316893) Funding Information: YJY is thankful for the support from the Kilpatrick Graduate Fellowship and the Starr Fieldhouse Research Fellowship Programs at Illinois Tech. The authors thank the National Science Foundation for the generous support to this work under a CAREER grant N° 1753012 Awarded to AJA. JI, ND and TL also thank the Academy of Finland for the generous support to this work under grant N° 316893. Publisher Copyright: © 2021 Elsevier B.V.We report two new biorelevant cholesteryl-based triplet energy acceptors, derivatives of DPA or 9,10-diphenylanthracene (C–DPA and C2–DPA). Using two different triplet sensitizers: QDN (ET ≈ 1.67 eV in PEG200) and PdTPP (ET ≈ 1.78 eV in PEG200), we were able to achieve both endothermic (with QDN) and exothermic (with PdTPP) triplet sensitization of DPA, C–DPA and C2–DPA in hydrophilic PEG200 media. While the maximum rate of triplet energy transfer (TET) was achieved with PdTPP and DPA (kTET = 4.7 × 107 M−1 s−1), for the cholesteryl-based acceptors, we found that the kinetic of the TET process was dependent upon the concentration of the acceptor. For PdTPP/C–DPA pair, the rate of the dynamic triplet energy quenching was kTET = 1.9 × 107 M−1 s−1; however, at higher concentrations of the quencher, the system reached a stationary state due to formation of self-assembled sub-domains of C–DPA that likely slowed the TET process. It was also found that this aggregation of C–DPA in PEG200 led to a 3.5 folds increase in the Ith compared to 133 mW cm2 for DPA. Subsequently, we estimated the ΦUC for these donor/acceptor pairs: QDN/DPA, PdTPP/DPA, and PdTPP/C–DPA. With respect to the estimated threshold intensity (Ith), we found that the quantum yields of TTA-UC were 2 ≤ QYUC≤12%.Peer reviewe

The incidence and clinical characteristics of myocarditis and pericarditis following mRNA-based COVID-19 vaccination in Republic of Korea adolescents from July 2021 to September 2022

Objectives Age-specific information regarding myocarditis/pericarditis in adolescents following mRNA-based coronavirus disease 2019 (COVID-19) vaccination in Asia remains insufficient. This study investigated the incidence and clinical characteristics of myocarditis/pericarditis in Republic of Korea adolescents after mRNA-based COVID-19 vaccination. Methods This retrospective descriptive study utilized patient data from the Korea Immunization Management System. Incidence rates were calculated according to age and sex. Clinical characteristics (symptoms/signs, laboratory values, and imaging results) were compared between mild and severe cases. Results Between July 19, 2021 and September 30, 2022, 3,728,224 individuals aged 12 to 19 years received 6,484,165 mRNA-based COVID-19 vaccines, and 173 cases met the case definition for myocarditis/pericarditis: 151 mild (87.3%) and 22 severe (12.7%). The incidence was 3.8-fold higher in males than in females. Troponin I/troponin T was elevated in 96% of myocarditis cases, demonstrating higher sensitivity than creatine kinase-myocardial band (67.6%) or C-reactive protein (75.2%). ST-segment or Twave on electrography abnormalities were found in 60.3% (85/141). Paroxysmal/sustained atrial/ventricular arrhythmias were more common in severe than in mild cases (45.5% vs. 16.8%, p=0.008). Edema on T2-weighted magnetic imaging occurred in 21.6% (8/37) and 62.5% (5/8) of mild and severe cases, respectively (p=0.03). Abnormal pericardial fluid collection or pericardial inflammation was found in 75.4% of pericarditis cases (49/65). Conclusion Myocarditis/pericarditis occurred in rare cases following mRNA-based COVID-19 vaccination. Most cases were mild, but the incidence was higher in adolescent males and after the second dose. As bivalent severe acute respiratory syndrome coronavirus 2 mRNA vaccination started in South Korea in October 2022, the post-vaccination incidence of myocarditis/pericarditis should be closely monitored, considering clinical characteristics

Molecular epidemiology of Japanese encephalitis virus circulating in South Korea, 1983-2005

We sequenced the envelope (E) gene of 17 strains of the Japanese encephalitis virus (JEV) isolated in South Korea in 1983-2005 and compared the sequences with those from previously reported strains. Our results show the remarkable genetic stability of the E gene sequence in Korean JEV strains. Five pairs of E gene sequences from 10 Korean strains were identical, despite geographical differences and a maximum five-year time span. Sequence comparisons with other Asian strains revealed that the Korean strains are closely related to those from China, Japan, and Vietnam. Genotype 3 strains were predominant in Korea before 1993, when genotype 1 strain K93A07 was first isolated. The two genotypes were detected simultaneously in 1994 but since then, only genotype 1 has been isolated in South Korea. Thus, the genotype change occurred according to the year of isolation rather than the geographical origin

Electrical current suppression in Pd-doped vanadium pentoxide nanowires caused by reduction in PdO due to hydrogen exposure

Pd nanoparticle-doped vanadium pentoxide nanowires (Pd-VONs) were synthesized. Electrical current suppression was observed when the Pd-VON was exposed to hydrogen gas, which cannot be explained by the work function changes mentioned in previous report such as Pd-doped carbon nanotubes and SnO 2 nanowires. Using the x-ray photoelectron spectroscopy, we found that the reduction in PdO due to hydrogen exposure plays an important role in the current suppression of the Pd-VON.open4

Optimizing DC Vaccination by Combination With Oncolytic Adenovirus Coexpressing IL-12 and GM-CSF

Dendritic cell (DC)-based vaccination is a promising strategy for cancer immunotherapy. However, clinical trials have indicated that immunosuppressive microenvironments induced by tumors profoundly suppress antitumor immunity and inhibit vaccine efficacy, resulting in insufficient reduction of tumor burdens. To overcome these obstacles and enhance the efficiency of DC vaccination, we generated interleukin (IL)-12- and granulocyte-macrophage colony-stimulating factor (GM-CSF)-coexpressing oncolytic adenovirus (Ad-ΔB7/IL12/GMCSF) as suitable therapeutic adjuvant to eliminate immune suppression and promote DC function. By treating tumors with Ad-ΔB7/IL12/GMCSF prior to DC vaccination, DCs elicited greater antitumor effects than in response to either treatment alone. DC migration to draining lymph nodes (DLNs) dramatically increased in mice treated with the combination therapy. This result was associated with upregulation of CC-chemokine ligand 21 (CCL21+) lymphatics in tumors treated with Ad-ΔB7/IL12/GMCSF. Moreover, the proportion of CD4+CD25+ T-cells and vascular endothelial growth factor (VEGF) expression was decreased in mice treated with the combination therapy. Furthermore, combination therapy using immature DCs also showed effective antitumor effects when combined with Ad-ΔB7/IL12/GMCSF. The combination therapy had a remarkable therapeutic efficacy on large tumors. Taken together, oncolytic adenovirus coexpressing IL-12 and GM-CSF in combination with DC vaccination has synergistic antitumor effects and can act as a potent adjuvant for promoting and optimizing DC vaccination

The Korean urban rural elderly cohort study: study design and protocol

BACKGROUND: Korea is one of the fastest aging countries and is expected to become a super-aged society within 12 years. The Korean Urban Rural Elderly (KURE) study was developed to evaluate the epidemiological characteristics and establish the prevention and management of major disorders of the elderly in Korea. METHODS/DESIGN: The KURE study is a community-based prospective cohort study on health, aging, and common geriatric disorders of Korean elderly persons aged at least 65 years. To construct a cohort reflecting both urban and rural areas, we selected 2 representative communities in the country. To establish multidisciplinary approaches to geriatric health, this study was performed by researchers in the divisions of geriatrics, preventive medicine, endocrinology, and sociology. The baseline examinations began in 2012; the study will follow more than 4,000 elderly Koreans over 10 years. The first and second follow-up health examinations will be performed every 4 years. Every 2 years after each health examination, inter-assessment interview will be conducted to improve participant retention. DISCUSSION: The KURE study will provide longitudinal epidemiologic data on health, aging, and common geriatric disorders of the elderly in Korea. This is a comprehensive, multidisciplinary study of the elderly with respect to biological, physical, socio-economic, and environmental factors. The results of this study will contribute to improve public health and welfare policies for the aging society in Korea