bluuebunny/crossref_metadata_2025 huggingface dataset:
#58 : Relationship Between E-Cigarettes (Vaping) Habits and Semen Parameters Among Patient Attending Sabahcare Fertility Centre
Authors: Chiang Jessy Mee Voon , Masri Mohd Taufeeq , Chin Michelle Jane , Yunos Nur Asyiqin Binti , Cheong Yee Tsing , Hatta Tarmizi M.
Published: January 2024

Background and Aims: Exposure to nicotine is known to reduce sperm count and motility as well as increasing abnormal parameters. This study aimed to determine the differences of Seminal Fluid Analysis (SFA) between e-cigarettes users (vaping) and non-vaping patients attending SabahCare Fertility Centre. This study is still on-going, more samples are to be expected before the 12[Formula: see text] Congress of ASPIRE

Method: Data is collected by handing out questionnaire to male patient doing SFA in the centre. Samples are examined according to WHO laboratory manual for the examination and processing of human semen, sixth edition (WHO, 2021) criteria. Sperm parameters we applied are normozoospermia, oligozoospermia (sperm concentration <14 × 106/ml), azoospermia (no spermatozoa in the ejaculate), asthenozoospermia (sperm motility and/or progressive motility are below the reference value). Chi-Square test analysis will be performed to determine the significance level of the results.

Results: Currently, a total of 38 sample sizes are collected. 60.5% are in the normal SFA quality and 39.5% are in the abnormal SFA quality.

Conclusion: Sample collection to determine if using e-cigarettes (vaping) affects semen quality among SabahCare Fertility Centre are still ongoing.
#157 : The Effect of COVID-19 Infection on Sperm DNA Fragmentation Index and Pregnancy Outcome in Teratai IVF Clinic Jakarta
Authors: Marthasari Rossy , Yan Irsal , Glamour Seindy , Harijanto Harijanto , Ronggani Andrie
Published: January 2024

Background and Aims: Coronavirus disease (COVID-19) caused by severe acute respiratory syndrome coronavirus (SARS CoV 2) has highly suspected as one of the causes of male infertility. Much research has been showed that sperm parameters decreased after Covid-19 infection. But there is limited data that show whether Covid-19 has impact on Sperm DNA Fragmentation Index (DFI) and pregnancy outcome.

The aim of this study is to assess the effect of Covid-19 infection and DFI in male and pregnancy outcome.

Methods: Thirty-four males who came to Teratai clinic as patients were selected and divided into two groups: Covid positive and Covid negative. The criteria to be included in Covid positive is the fact that the patient recently has Covid infection for less than 6 months. We assessed DFI outcome and divided the data into two group: Poor DFI (>25%) and Normal DFI (<25%). We also analyzed pregnancy outcome and divided the data into two groups: pregnancy positive and pregnancy negative. Statistical analysis is performed by Chi-square.

Results: Result demonstrated that Covid-19 infection increased Sperm DFI (p<0,05) and decreased pregnancy outcome (p<0,05).

Conclusion: Covid-19 infection has a negative influence on sperm DFI and pregnancy outcome.
#369 : A Case of Luteal Phase Deficiency (LPD) and Polycystic Ovarian Syndrome (PCOS). When Routine is not Enough
Authors: Chua Ai Chen , Tham Seong Wai
Published: January 2024

Background and Aims: Luteal phase deficiency (LPD) is a consequence of the inability of the corpus luteum (CL) to produce an adequate level of progesterone. This manifests clinically as a short menstrual cycle and infertility. Abnormal follicular development and inadequate steroidogenesis in lutein cells of the CL have been implicated in CL dysfunction and LPD. LPD and PCOS are independent disorders sharing a common pathophysiology. The aim of this case report is to highlight the importance of additional luteal phase support for patients with PCOS.

Case report: A 34-year-old Indian lady with anovulation secondary to PCOS failed to get pregnant after 7 years of marriage. Her menses were irregular, and she had hirsutism. She was also overweight. (BMI 26.4 kg/m2) Her hormonal profile showed a reversal of the FSH/LH ratio of 2:1, and serum progesterone was low. (<1.6 IU/L). A transvaginal scan showed a classic pearl string sign, which was typical for patients with PCOS.

She underwent laparoscopic dye insufflation and ovarian drilling, during which four puncture points were made on each ovary at 4 watts for 4 seconds.

Later, she underwent a round of timed sexual intercourse and intrauterine insemination. (IUI) Dydrogesterone (10 mg, 8 hourly) was started for luteal phase support as per unit protocol. However, she complained of per vaginal spotting starting on day 7 after human chorionic gonadotropin (hcg) trigger, and both times, treatment was unsuccessful. Then, she had another round of ovarian stimulation with clomiphene citrate 50 mg daily and had IUI. She was given micronized progesterone 100 mg 12 hours a day in addition to the dydrogesterone. The urine pregnancy test was positive, and she is having a healthy, on-going pregnancy.

Conclusion: Patients with PCOS may suffer from a defective luteal phase. Hence, it is important to supplement PCOS patients with additional support during the luteal phase, as this can lead to a successful pregnancy.
#347 : Factors Related to Mosaicism of Human Embryo: Conventional Statistics and Machine Learning Analysis
Authors: Tran Huy-Phuong , Nguyen Long Nu-Hai , Ho Tuong-Nguyen , Do Vy Nguyen-Thao , Ly Loc-Thai , Hoang Tuyet Thi-Diem
Published: January 2024

Background and Aims: Mosaicism arises from errors in the cell division process and can lead to cells containing a combination of normal and mutated genes. Mosaic embryos can produce healthy babies. However, it may be associated with a lower implantation and a higher miscarriage rate. Despite extensive research, the scientific understanding of the underlying causes of embryonic mosaicism remains limited, and conclusions remain subject to ongoing debate. Machine learning (ML) can capture complex relationships and automatically learn the most informative features, while conventional statistics (CS) are simple to understand. We aimed to apply both ML and CS to determine the critical factors that may be associated with mosaicism.

Method: A retrospective analysis was conducted at the Infertility Department of Hung Vuong Hospital between 2018 and 2022 using medical data from 51 IVF couples. The study utilized both machine learning and conventional statistical methods to identify possible factors associated with mosaicism in human embryos.

Results: Out of the 246 embryos studied, 84 (32%) were found to be mosaic. The performance of the classifiers in the machine learning analysis was relatively poor when using all features, with F1-scores ranging from 0.08 to 0.26. While feature selection helped to improve performance, the F1-scores remained low. On the other hand, the conventional statistical analysis revealed that patients with cryptozoospermia showed a positive association with mosaicism (OR 2.68, 95% CI 1.08 to 6.66, p=0.033).

Conclusion: According to the machine learning algorithms, the current set of clinical features has no relation to the incidence of mosaicism. However, the conventional statistical analysis suggests that patients with cryptozoospermia may contribute to a higher risk of mosaicism. Further research is needed to fully understand the mechanisms underlying mosaicism in human embryos.
#209 : The Association Between Autoimmune Diseases and Gestational Diabetes Mellitus: A Mendelian Randomization Study
Authors: Ou Taoaixin
Published: January 2024

Background and Aims: As a common complication of pregnancy, gestational diabetes mellitus (GDM) may lead to a serious negative impact on pregnant women and their children. Autoimmune diseases are chronic pathologies triggered by abnormal responses of the human immune system that result in damage and disorders in the body. Recently, several studies have demonstrated that autoimmune diseases could be related to the risk of GDM. However, several other studies of this relationship have yielded conflicting results. We explored the causal relationship between autoimmune diseases and GDM risk through a two-sample Mendelian randomization (2SMR) study.

Method: We obtained exposure data for rheumatoid arthritis (RA) from a genome-wide association study (GWAS) pooled dataset, which consisted of 361,194 participants. We selected single-nucleotide polymorphisms (SNPs) that had a relationship with RA and were at a significance level of not only p < 5 × 10[Formula: see text] but also at a low linkage disequilibrium (LD) level (r2 < 0.01). The results included 5,687 GDM cases and 117,892 controls. For detailed Methods, please see the Methods section in this article’s Online Repository at https://www.jacionline.org

Results: The results of inverse variance weight (IVW) analysis suggested a positive correlation between RA and GDM risk. In addition, no validity was observed in the statistical models for heterogeneity and pleiotropy. However, for multiple sclerosis (MS), no causal relationship between it and GDM risk was found in our study.

Conclusion: Our results suggest a strong casual association between RA and the risk of GDM. The results suggested the importance of enhanced antenatal care and early intervention among pregnant women with RA as well as clues for novel risk factors for GDM.
#299 : Sex Ratio in Children Born After Assisted Reproduction and After Spontaneous Conception in the Czech Republic
Authors: Sipek Antonin , Gregor Vladimir , Sipek Antonin , Klaschka Jan , Maly Marek
Published: January 2024

Background and Aims: Various authors described slight differences in the sex ratio in the children born after the use of various assisted reproduction techniques (ART). Our goal was to investigate this trend using population-wide datasets from the official medical registries of the Czech Republic.

Method: We have used data from the official medical registries run by the Institute of Health Information and Statistics of the Czech Republic, namely the National Registry of Congenital Anomalies and the National Registry of Assisted Reproduction. The registration process in the Czech Republic is population-wide and the reporting is compulsory by the national law. We analyzed the number of births of children depending on the method of conception, the presence of a congenital defect, the twinning rate, and maternal age. Study period: 2013–2020.

Results: A total of 881,975 children were born in the study period, 853,131 were born after spontaneous conception, and 28,844 after ART. The frequency of males was 50,89% in the spontaneously conceived children and 50.3% in the ART-conceived children, but the difference is not statistically significant. Among the children born with some kind of congenital anomaly, the males were more frequent, but again the difference was not statistically significant. Analyzing the different subgroups according to the twinning rate also did not identify any statistically significant trend.

Conclusion: Using the population-wide data we have confirmed changes in the sex ratio in children born after ART conception (especially analyzing different study subgroups according to the presence/absence of congenital anomaly and according to the twinning rate). None of the trends was classified as statistically significant.

Supported by Ministry of Health, Czech Republic – conceptual development of research organization (Thomayer University Hospital - TUH, 00064190)
Limitations of Polyacrylic Acid Binders When Employed in Thick LNMO Li-ion Battery Electrodes
Authors: Mathew Alma , van Ekeren Wessel , Andersson Rassmus , Lacey Matthew J. , Heiskanen Satu Kristiina , Younesi Reza , Brandell Daniel
Published: January 2024

Polyacrylic acid (PAA) is here studied as a binder material for LiNi0.5Mn1.5O4 (LNMO) cathodes for lithium-ion batteries. When the LNMO electrodes are fabricated with an active mass loading of ∼10 mg cm−2 (∼1.5 mA h cm−2), poor discharge capacity and short cycle life is obtained in full-cells with graphite electrodes. The electrochemical results with PAA are compared with a commonly used water-based binder, sodium carboxymethyl cellulose (CMC), which shows better electrochemical performance. The main cause for these problems in PAA based cells is identified to be the high internal resistance in the initial cycles, caused by factors such as contact resistance, inhomogeneous binder distribution and poor electrolyte wetting of the active material.
Investigating the Structure and Performance of Electrodes Made by Dry and Wet Slurry Processes
Authors: Uzun Kubra , Sharma Bhamiti , Frieberg Bradley R. , Wang Ming , Hu Jiazhi , Li Anita , Huang Xiaosong , Cheng Yang-Tse
Published: January 2024

Performance, cost, and safety are vital factors in producing and handling lithium-ion batteries. Using a dry process reduces the cost and environmental impact of producing large-scale lithium-ion battery electrodes significantly as solvents are eliminated. Thus, in this study, solvent-free dry electrostatic spray deposition (ESD) and conventional slurry processes were compared to uncover the influence of the manufacturing process on thick LiNi0.8Mn0.1Co0.1O2 (NMC 811) positive electrodes. More pressure during calendering was found necessary for the dry-made (dry) electrodes to have the same porosity, leading to more cracks within the NMC particles and better adhesion. At slower discharge rates, below 2 C, the dry electrodes exhibited a higher specific capacity or about the same capability than that of the slurry-made ones. At higher discharge rates, greater than 2 C, both types of electrodes have poor rate performance, though the slurry-made (slurry) electrodes had a slightly higher capacity. Despite more calendering-induced cracks in the dry electrodes, both electrodes had comparable long-term cycling behavior when tested in full cells with graphite-negative electrodes. This study shows the viability of using the dry-powder ESD process for manufacturing thick electrodes with high active material content, meeting the need for high energy demand.
Energy‐Balance‐Based Plastic Design and Seismic Fragility Analysis of Steel Plate Shear Wall Coupled with Steel Side Columns
Authors: Wu Y. T. , Liu Aozhou , Zhao Jiazheng , Zhang Bo
Published: January 2024

The steel plate shear wall (SPSW) coupled with steel side columns (SSCs) through steel coupling beams, or the SPSW–SSC coupled structural system, is a novel lateral force resisting system that introduces coupling mechanism to the isolated SPSW pier. To simplify the complex iteration of the conventional seismic design procedure and obtain the favorable plasticity development and distribution pattern determined by the coupling mechanism, the energy‐balance concept and the plastic design method are combined to develop the energy‐balance‐based plastic design (EBPD) method for the SPSW–SSC coupled system with the consideration of the degradation of hysteretic behavior. Twelve SPSW–SSC coupled system prototype cases with different story numbers and coupling ratios (CRs) were designed and numerically modeled to simulate the main seismic behavior. The pushover analyses and the incremental dynamic analyses were further carried out to examine the lateral load capacity and deformation relationships and the seismic fragility curves with respect to the performance levels quantified by the maximum interstory drift ratios. The analysis results prove that the coupling mechanism can be realized in the SPSW–SSC coupled system with preferred yielding sequence and plasticity distribution mode. The influences of story number and CR on the lateral load capacity curves are revealed. The seismic fragility analysis results indicate the exceeding probability of the limit states corresponding to different performance levels with the consideration of the influences of story number and CR, which further proves the effectiveness of the proposed EBPD methods in terms of the realization of the coupling mechanism and the earthquake collapse safety of the SPSW–SSC coupled structural system.
Video Games as Awareness Raisers, Attitude Changers, and Agents of Social Change
Authors: Shliakhovchuk Elena
Published: January 2024

The widespreadness of video games, particularly among digital natives, requires ongoing exploration of their profound effects. This study aligns with this need, investigating video games as possible tools for positive societal influence and exploring their potential to address sensitive social issues. Transportation theory underscores the transformative potential of video games, casting players as “travellers” who, traversing stages of reality dissolution, emotional connection, and altered return, present a pathway for attitude transformation. Participants (N=98) engaged with “Survival,” “Paper, Please,” and “Against All Odds” to explore the effectiveness of video games in addressing the refugee crisis, increasing awareness of the issue at hand, changing perceptions, and encouraging them to take action in real life. The study’s results align with integrated threat theory, revealing that immersive gaming experiences can induce significant changes in attitudes, decrease denial, and increase empathy. The results highlight the potential of video games to educate people about pressing global issues and invoke empathy without trivialising problems. Consequently, while this study extends the current body of knowledge, it offers some promising directions for further research to validate the affirmative impact of video games in this realm.
Approximate Analytical Solution of the Influences of Magnetic Field and Chemical Reaction on Unsteady Convective Heat and Mass Transfer of Air, Water, and Electrolyte Fluids Subject to Newtonian Heating in a Porous Medium
Authors: Sulemana M. , Seini Y. I. , Makinde O. D.
Published: January 2024

This paper addresses the unsteady hydrodynamic convective heat and mass transfer of three fluids namely air, water, and electrolyte solution past an impulsively started vertical surface with Newtonian heating in a porous medium under the influences of magnetic field and chemical reaction. Suitable dimensionless parameters are used to transform the flow equations and the approximate analytic method employed to solve the flow problem. The results are illustrated graphically for the velocity, temperature, and concentration profiles. Though, low Prandtl numbers produce high-thermal boundary layer thickness, however, as a novelty, the presence of the magnetic field delayed the convection motion hence, the thermal boundary layer thickness is greater for water with high Pr = 7.0 as compared to air with low Pr = 0.71 and electrolyte solution with low Pr = 1.0. Practically, water with a high-Prandtl number can effectively absorb and release heat. This makes water useful in applications such as geothermal heat pumps and solar thermal collectors, industrial processes such as chemical reactions, distillation, and drying, and in oceanography in predicting the movement and behavior of ocean currents, which in turn can impact weather patterns and climate. Another major observation from the study is that the rate of cooling associated with air, water, or electrolyte impacts differently on the product being cooled.
Loneliness or Sociability: The Impact of Social Participation on the Mental Health of the Elderly Living Alone
Authors: Luo Juan , Guo Yijia , Tian Zhili
Published: January 2024

Background. China will inevitably enter a medium, severe, or deep aging society in the future, and the number of elderly people living alone is also increasing. Mental health is a major issue for older people living alone. With the deepening of aging, social participation has become an important way to promote mental health and improve the quality of life of the elderly. Methods. This study uses data from Chinese Longitudinal Health Longevity Survey (CLHLS). Based on the CLHLS data of 2018, this paper uses multiple ordered logistic models to measure the mental health level of elderly people living alone through two dimensions of depression and anxiety and carries out a heterogeneity analysis on the mental health level of elderly people living alone. Results. The analysis of 2477 elderly people living alone shows that the increase of social participation in simple communication can reduce the degree of depression and anxiety of elderly people living alone, and the decrease of social participation in self‐recreation can reduce the degree of depression and anxiety of elderly people living alone. In addition, the heterogeneity analysis found that the heterogeneity of social participation was more significant among the elderly living alone with different genders, ages, places of residence, and self‐care abilities. Limitations. This study has some limitations, and CES‐D‐10 is a screening tool and cannot fully determine the presence of depression in high‐rise older adults living alone. Conclusions. In the future, primary healthcare‐targeted interventions can be provided according to the different degrees of depression and anxiety of elderly people living alone.
Supplementary Table 1 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer
Authors: Byrne Katelyn T. , Betts Courtney B. , Mick Rosemarie , Sivagnanam Shamilene , Bajor David L. , Laheru Daniel A. , Chiorean E. Gabriela , O'Hara Mark H. , Liudahl Shannon M. , Newcomb Craig , Alanio Cécile , Ferreira Ana P. , Park Byung S. , Ohtani Takuya , Huffman Austin P. , Väyrynen Sara A. , Dias Costa Andressa , Kaiser Judith C. , Lacroix Andreanne M. , Redlinger Colleen , Stern Martin , Nowak Jonathan A. , Wherry E. John , Cheever Martin A. , Wolpin Brian M. , Furth Emma E. , Jaffee Elizabeth M. , Coussens Lisa M. , Vonderheide Robert H.
Published: January 2024

Table S1 summarizes adverse events associated with selicrelumab administration.
Supplementary Figure 4 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer
Authors: Byrne Katelyn T. , Betts Courtney B. , Mick Rosemarie , Sivagnanam Shamilene , Bajor David L. , Laheru Daniel A. , Chiorean E. Gabriela , O'Hara Mark H. , Liudahl Shannon M. , Newcomb Craig , Alanio Cécile , Ferreira Ana P. , Park Byung S. , Ohtani Takuya , Huffman Austin P. , Väyrynen Sara A. , Dias Costa Andressa , Kaiser Judith C. , Lacroix Andreanne M. , Redlinger Colleen , Stern Martin , Nowak Jonathan A. , Wherry E. John , Cheever Martin A. , Wolpin Brian M. , Furth Emma E. , Jaffee Elizabeth M. , Coussens Lisa M. , Vonderheide Robert H.
Published: January 2024

Figure S4 shows the raw multiplex serum cytokine analysis data from Figure 4, and the antibody list and the gating strategy for the CyTOF analysis, all performed on the peripheral blood samples.
Supplementary Figure 1 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer
Authors: Byrne Katelyn T. , Betts Courtney B. , Mick Rosemarie , Sivagnanam Shamilene , Bajor David L. , Laheru Daniel A. , Chiorean E. Gabriela , O'Hara Mark H. , Liudahl Shannon M. , Newcomb Craig , Alanio Cécile , Ferreira Ana P. , Park Byung S. , Ohtani Takuya , Huffman Austin P. , Väyrynen Sara A. , Dias Costa Andressa , Kaiser Judith C. , Lacroix Andreanne M. , Redlinger Colleen , Stern Martin , Nowak Jonathan A. , Wherry E. John , Cheever Martin A. , Wolpin Brian M. , Furth Emma E. , Jaffee Elizabeth M. , Coussens Lisa M. , Vonderheide Robert H.
Published: January 2024

Figure S1 shows the CONSORT diagram.
Data from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer
Authors: Byrne Katelyn T. , Betts Courtney B. , Mick Rosemarie , Sivagnanam Shamilene , Bajor David L. , Laheru Daniel A. , Chiorean E. Gabriela , O'Hara Mark H. , Liudahl Shannon M. , Newcomb Craig , Alanio Cécile , Ferreira Ana P. , Park Byung S. , Ohtani Takuya , Huffman Austin P. , Väyrynen Sara A. , Dias Costa Andressa , Kaiser Judith C. , Lacroix Andreanne M. , Redlinger Colleen , Stern Martin , Nowak Jonathan A. , Wherry E. John , Cheever Martin A. , Wolpin Brian M. , Furth Emma E. , Jaffee Elizabeth M. , Coussens Lisa M. , Vonderheide Robert H.
Published: January 2024

AbstractPurpose:
CD40 activation is a novel clinical opportunity for cancer immunotherapy. Despite numerous active clinical trials with agonistic CD40 monoclonal antibodies (mAb), biological effects and treatment-related modulation of the tumor microenvironment (TME) remain poorly understood.
Patients and Methods:
Here, we performed a neoadjuvant clinical trial of agonistic CD40 mAb (selicrelumab) administered intravenously with or without chemotherapy to 16 patients with resectable pancreatic ductal adenocarcinoma (PDAC) before surgery followed by adjuvant chemotherapy and CD40 mAb.
Results:
The toxicity profile was acceptable, and overall survival was 23.4 months (95% confidence interval, 18.0–28.8 months). Based on a novel multiplexed immunohistochemistry platform, we report evidence that neoadjuvant selicrelumab leads to major differences in the TME compared with resection specimens from treatment-naïve PDAC patients or patients given neoadjuvant chemotherapy/chemoradiotherapy only. For selicrelumab-treated tumors, 82% were T-cell enriched, compared with 37% of untreated tumors (P = 0.004) and 23% of chemotherapy/chemoradiation-treated tumors (P = 0.012). T cells in both the TME and circulation were more active and proliferative after selicrelumab. Tumor fibrosis was reduced, M2-like tumor-associated macrophages were fewer, and intratumoral dendritic cells were more mature. Inflammatory cytokines/sec CXCL10 and CCL22 increased systemically after selicrelumab.
Conclusions:
This unparalleled examination of CD40 mAb therapeutic mechanisms in patients provides insights for design of subsequent clinical trials targeting CD40 in cancer.
Table S6 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

Table S6. Normalized signal over Gencode V38 promoters for all CUT&RUN experiments.
Table S3 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

Table S3. Genomic coordinates and normalized signal over curated myeloid gene-distal DHSs for all ATAC-seq experiments.
Table S2 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

Table S2. A complete analysis of TT-seq data generated in this study.
Table S1 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

Table S1. Variants identified in selected BAF complex subunit genes by whole-gene sequencing of a targeted panel, including Arid1a, Arid1b, Bcl7a, Bcl7b, Bcl11a, Bcl11b, Brd9, Smarca2, and Smarca4.
TABLE 2 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

Differentially transcribed genes after 6-hour treatment with 10 µmol/L I-BRD9
TABLE 1 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

AML characteristics of selected cell line panel
Supplementary Figure 7 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

BRD9 bromodomain activity regulates accessibility and transcription from BENC enhancers in the ML-1 cell line
Supplementary Figure 6 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

The BRD9 bromodomain is responsible for maintaining BRD9 occupancy on chromatin at a cell line-specific subset of BRD9-bound regions
Supplementary Figure 3 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

Analysis of chromatin environment at gene-distal DHSs
Supplementary Figure 2 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

The BRD9 bromodomain regulates transcription of hematopoiesis-related genes
Supplementary Figure 1 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

Quality-control and reproducibility information for TT-seq experiments
FIGURE 4 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

ncBAF maintains accessible chromatin at putative enhancers through BRD9’s bromodomain. From left to right, heat maps represent untargeted CUT&RUN (gray), anti-BRD9 CUT&RUN (red), and H3K27ac CUT&RUN (blue), each performed under vehicle (DMSO; “–”) or 10 µmol/L I-BRD9 (“+”) treatment. At right, plots depict the ratio of ATAC-seq signal in I-BRD9–treated samples to DMSO-treated samples. All data are sorted by BRD9 occupancy in the DMSO-treated samples for each cell line. For each experiment, n = 2 averaged replicates. Each dataset is plotted over gene-distal DHSs present in at least two ENCODE DHS datasets from CD14+ monocytes, NB4 AML cells, or HL60 AML cells (±2 kb).
FIGURE 3 from The ncBAF Complex Regulates Transcription in AML Through H3K27ac Sensing by BRD9
Authors: Klein David C. , Lardo Santana M. , Hainer Sarah J.
Published: January 2024

BRD9 maintains immature myeloid gene transcription in AML cells. GSEAs and representative browser tracks assessing hematopoietic cell maturity gene signatures depicting transcription at the associated hematopoietic maturation stage for early progenitor (A and B), intermediate (C and D), and mature (E and F) blood cells. TT-seq gene rankings: (–log10 (adj. P, * sign of fold change). n = 2 replicates per condition and cell line, merged for analysis. To the right are individual browser tracks for one gene in each gene set which depict strand-specific transcription oriented to the indicated gene (all examples are transcribed on the reverse strand).
A Case of Successful Treatment with an Immune Checkpoint Inhibitor after Head and Neck Photoimmunotherapy
Authors: Hanyu Kenji , Okamoto Isaku , Tokashiki Kunihiko , Tsukahara Kiyoaki
Published: January 2024

Introduction: Head and neck photoimmunotherapy (HN-PIT) has been conditionally approved by the Japanese government for the treatment of unresectable locally advanced or locally recurrent head and neck cancer since January 2021. HN-PIT makes local treatment of locally recurrent disease possible in cases where systemic drug therapy would have previously been the only option. However, when treatment is ineffective and the disease progresses, it is necessary to shift to conventional drug therapies. We report a case in which an immune checkpoint inhibitor (ICI) was successfully administered to a patient with advanced disease following HN-PIT. Case Presentation: A 75-year-old male patient presented with local recurrence of mandibular gingival cancer. The primary treatment consisted of mandibular segmentectomy and reconstruction with a scapulohumeral and vastus lateralis skin valve. Post-operative radiotherapy was administered. Local recurrence was found in the mid-pharynx adjacent to the reconstruction. HN-PIT was performed for the local recurrence. After three cycles of HN-PIT, the local lesion increased, and the disease was evaluated as advanced. Therefore, the patient was switched to pembrolizumab, an ICI. Conclusion: The recurrent lesions disappeared 2 months after the first dose of pembrolizumab, and the patient remained in clinical remission at 1 year. To the best of our knowledge, there are no other reports of successful ICI therapy after HN-PIT.
O traje de cena como documento
Authors:   Universidade de São Paulo. Escola de Comunicações e Artes, Viana Fausto
Published: January 2024

O traje de cena como documento é um estudo sobre um dos vestígios mais importantes depois que o espetáculo termina: o traje de cena ou figurino. Nele, o leitor poderá saber de que maneira várias instituições pelo mundo – no Japão, na Inglaterra, na França, na Rússia, em Portugal e em diversos lugares, visitados e documentados pelo autor - cuidam da limpeza e higienização desses trajes, qual a forma correta de serem guardados e acondicionados e como sua conservação deve ser pensada. É também um ultimate guide para pessoas que queiram viajar pelo mundo visitando museus de moda e diferentes coleções de têxteis. O livro, ricamente ilustrado com imagens, entrevistas e textos explicativos, revela o trabalho de diversos museus pelo mundo. Traz ainda tudo o que tem sido feito no Núcleo de Traje de Cena, Indumentária e Tecnologia da USP e apresenta, em fotografias, boa parte do seu acervo, com fotos de trajes que fizeram a história do teatro paulista.
The Phenomenon of Presence in Virtual Reality Is Mistakenly Equated with Immersion
Authors: Korżel Konrad , Łupkowski Paweł
Published: January 2024

In contemporary scientific literature, the concept of presence in virtual reality is often fuzzily interpreted or conflated with the concept of immersion in video games. This paper aims to highlight that confusion, examine its possible causes and effects, and offer assistance for avoiding it in the future. Concepts of immersion and presence are analyzed in terms of their origins and current use. The distortion of the original understanding of the phenomenon of presence is highlighted, emphasizing its actual and potential harm to theoretical work and empirical research. A set of criteria for evaluating the adequacy of research methods concerning presence is introduced.
Revisiting the Populist Moments in Postcolonial India
Authors: Vasudeva Feeza , Lin Shu-Fen
Published: January 2024

This paper is an attempt to explore the two prominent populist moments in post- colonial India, namely Indira Gandhi’s and Narendra Modi’s politics, to understand the formation, transformation, and repercussions of populism at different historical conjunctures. To move beyond the existing accounts that have either tended to reduce populism to a rhetoric style or a campaign strategy or failed to address the dynamic relationship between populism and nationalism, the paper draws on the discursive- theoretical approach developed by Ernesto Laclau and scholars influenced by him, which sees populism as a political logic, with a specific focus on the distinction and articulation between populism and nationalism. Through a nuanced analysis of Gandhi’s and Modi’s populist politics, the paper hopes to shed light on the entanglement between populism and nationalism, or between “the people” and “the nation” in different forms that has continued to characterize the political landscape of India until today.
Measuring Coupled Fire–Atmosphere Dynamics: The California Fire Dynamics Experiment (CalFiDE)
Authors: Carroll Brian J. , Brewer W. Alan , Strobach Edward , Lareau Neil , Brown Steven S. , Valero M. Miguel , Kochanski Adam , Clements Craig B. , Kahn Ralph , Junghenn Noyes Katherine T. , Makowiecki Amanda , Holloway Maxwell W. , Zucker Michael , Clough Kathleen , Drucker Jack , Zuraski Kristen , Peischl Jeff , McCarty Brandi , Marchbanks Richard , Sandberg Scott , Baidar Sunil , Pichugina Yelena L. , Banta Robert M. , Wang Siyuan , Klofas Andrew , Winters Braeden , Salas Tyler
Published: January 2024

The social, economic, and ecological impacts of wildfires are increasing over much of the United States and globally, partially due to changing climate and build-up of fuels from past forest management practices. This creates a need to improve coupled fire–atmosphere forecast models. However, model performance is difficult to evaluate due to scarcity of observations for many key fire–atmosphere interactions, including updrafts and plume injection height, plume entrainment processes, fire intensity and rate-of-spread, and plume chemistry. Intensive observations of such fire–atmosphere interactions during active wildfires are rare due to the logistical challenges and scales involved. The California Fire Dynamics Experiment (CalFiDE) was designed to address these observational needs, using Doppler lidar, high-resolution multispectral imaging, and in situ air quality instruments on a NOAA Twin Otter research aircraft, and Doppler lidars, radar, and other instrumentation on multiple ground-based mobile platforms. Five wildfires were studied across northern California and southern Oregon over 16 flight days from 28 August to 25 September 2022, including a breadth of fire stages from large blow-up days to smoldering air quality observations. Missions were designed to optimize the observation of the spatial structure and temporal evolution of each fire from early afternoon until sunset during multiple consecutive days. The coordination of the mobile platforms enabled four-dimensional sampling strategies during CalFiDE that will improve understanding of fire–atmosphere dynamics, aiding in model development and prediction capability. Satellite observations contributed aerosol measurements and regional context. This article summarizes the scientific objectives, platforms and instruments deployed, coordinated sampling strategies, and presents first results.
Online Dance Learning Satisfaction After the Pandemic: Lessons From the Crisis
Authors: Yu Na , Liu Xiaolei
Published: January 2024

Tens of thousands of students worldwide have been forced to start learning online, and online learning has never been more compelling. Understanding the effectiveness and satisfaction of online learning has become crucial. Previously, researchers have explored many determinants of online learning, but so far, only a few have focused exclusively on the field of higher education in dance. Therefore, this study delved into the satisfaction derived from online dance learning by employing the stimulus–organism–response framework, social learning theory, and constructivism theory. The aim was to examine how the effectiveness of online learning and the characteristics of online systems influence satisfaction in dance online learning. Data collection took place from January 1, 2023, to January 31, 2023, with university students majoring in dance participating as respondents in China. The analysis utilized structural equation modeling for data interpretation. The results reveal that the organism (students online learning effectiveness and the online system characteristics) directly impacted students’ satisfaction with online education. While changes in four stimulus factors (learning experiences; instructor’s inspiration; learning hindrance; quality of technology) indirectly impact online learning satisfaction. Our research enriches the exploration of students’ satisfaction factors in dance higher online education, thus filling the research gap in related fields, intending to guide relevant practitioners in the future.
Studies on (polytrimethylene terephthalate)/graphene oxide/f-MWCNT hybrid nanocomposites
Authors: Rath Abjesh Prasad , Krishnan P. Santhana Gopala , Kanny Krishnan
Published: January 2024

Natural resource-driven approaches to bioengineering plastics are being developed to compete in the automobiles, power, and other sectors. Polytrimethylene terephthalate (PTT) is a particular of them, and it was chosen for the current investigation to build an advanced nanocomposite material. Using a twin-screw micro compounder, injection moulded PTT/Graphene-Oxide (GO)/Carboxyl functionalized Multiwall Carbon nanotube (f-MWCNT) hybrid nanocomposites were prepared. The impact of GO and f-MWCNT reinforcement on the composite’s thermal and mechanical characteristics of hybrid nanocomposites was examined. GO was synthesized from the graphite powder by modified Hummer’s method and MWCNTs were functionalized using the concentrated sulfuric acid (H2SO4) and nitric acid (HNO3) with a volume ratio of 3:1 in an ultrasonic bath at room temperature. In all formulations, the investigation was done at a constant filler amount of 2 wt%. To understand the chemical interaction between PTT and nanofiller, Raman spectroscopy was used and to examine the state of dispersion, scanning electron microscopy (SEM) was systematically analysed. In comparison to pristine PTT, the water absorption, tensile strength, flexural strength and impact strength of hybrid nanocomposites were improved marginally. It was also observed that GO has more prominent in increasing the mechanical properties of the hybrid and f-MWCNT in thermal properties. The 3-D geometrical bridge between GO (2-D) and f-MWCNT (1-D) made the hybrid more dispersible and effective for different applications.
Recent developments in mass-spectrometry-based targeted proteomics of clinical cancer biomarkers
Authors: Wenk Deborah , Zuo Charlotte , Kislinger Thomas , Sepiashvili Lusia
Published: January 2024

Routine measurement of cancer biomarkers is performed for early detection, risk classification, and treatment monitoring, among other applications, and has substantially contributed to better clinical outcomes for patients. However, there remains an unmet need for clinically validated assays of cancer protein biomarkers. Protein tumor markers are of particular interest since proteins carry out the majority of biological processes and thus dynamically reflect changes in cancer pathophysiology. Mass spectrometry-based targeted proteomics is a powerful tool for absolute peptide and protein quantification in biological matrices with numerous advantages that make it attractive for clinical applications in oncology. The use of liquid chromatography-tandem mass spectrometry (LC–MS/MS) based methodologies has allowed laboratories to overcome challenges associated with immunoassays that are more widely used for tumor marker measurements. Yet, clinical implementation of targeted proteomics methodologies has so far been limited to a few cancer markers. This is due to numerous challenges associated with paucity of robust validation studies of new biomarkers and the labor-intensive and operationally complex nature of LC–MS/MS workflows. The purpose of this review is to provide an overview of targeted proteomics applications in cancer, workflows used in targeted proteomics, and requirements for clinical validation and implementation of targeted proteomics assays. We will also discuss advantages and challenges of targeted MS-based proteomics assays for clinical cancer biomarker analysis and highlight some recent developments that will positively contribute to the implementation of this technique into clinical laboratories.
CCL-DTI: contributing the contrastive loss in drug–target interaction prediction
Authors: Dehghan Alireza , Abbasi Karim , Razzaghi Parvin , Banadkuki Hossein , Gharaghani Sajjad
Published: January 2024

Background

The Drug–Target Interaction (DTI) prediction uses a drug molecule and a protein sequence as inputs to predict the binding affinity value. In recent years, deep learning-based models have gotten more attention. These methods have two modules: the feature extraction module and the task prediction module. In most deep learning-based approaches, a simple task prediction loss (i.e., categorical cross entropy for the classification task and mean squared error for the regression task) is used to learn the model. In machine learning, contrastive-based loss functions are developed to learn more discriminative feature space. In a deep learning-based model, extracting more discriminative feature space leads to performance improvement for the task prediction module.

Results

In this paper, we have used multimodal knowledge as input and proposed an attention-based fusion technique to combine this knowledge. Also, we investigate how utilizing contrastive loss function along the task prediction loss could help the approach to learn a more powerful model. Four contrastive loss functions are considered: (1) max-margin contrastive loss function, (2) triplet loss function, (3) Multi-class N-pair Loss Objective, and (4) NT-Xent loss function. The proposed model is evaluated using four well-known datasets: Wang et al. dataset, Luo's dataset, Davis, and KIBA datasets.

Conclusions

Accordingly, after reviewing the state-of-the-art methods, we developed a multimodal feature extraction network by combining protein sequences and drug molecules, along with protein–protein interaction networks and drug–drug interaction networks. The results show it performs significantly better than the comparable state-of-the-art approaches.
Machine learning models for predicting unscheduled return visits to an emergency department: a scoping review
Authors: Lee Yi-Chih , Ng Chip-Jin , Hsu Chun-Chuan , Cheng Chien-Wei , Chen Shou-Yen
Published: January 2024

Background

Unscheduled return visits (URVs) to emergency departments (EDs) are used to assess the quality of care in EDs. Machine learning (ML) models can incorporate a wide range of complex predictors to identify high-risk patients and reduce errors to save time and cost. However, the accuracy and practicality of such models are questionable. This review compares the predictive power of multiple ML models and examines the effects of multiple research factors on these models’ performance in predicting URVs to EDs.

Methods

We conducted the present scoping review by searching eight databases for data from 2010 to 2023. The criteria focused on eligible articles that used ML to predict ED return visits. The primary outcome was the predictive performances of the ML models, and results were analyzed on the basis of intervals of return visits, patient population, and research scale.

Results

A total of 582 articles were identified through the database search, with 14 articles selected for detailed analysis. Logistic regression was the most widely used method; however, eXtreme Gradient Boosting generally exhibited superior performance. Variations in visit interval, target group, and research scale did not significantly affect the predictive power of the models.

Conclusion

This is the first study to summarize the use of ML for predicting URVs in ED patients. The development of practical ML prediction models for ED URVs is feasible, but improving the accuracy of predicting ED URVs to beyond 0.75 remains a challenge. Including multiple data sources and dimensions is key for enabling ML models to achieve high accuracy; however, such inclusion could be challenging within a limited timeframe. The application of ML models for predicting ED URVs may improve patient safety and reduce medical costs by decreasing the frequency of URVs. Further research is necessary to explore the real-world efficacy of ML models.