bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Table 3 from A Prognostic Model Based on Residual Cancer Burden and Tumor-Infiltrating Lymphocytes on Residual Disease after Neoadjuvant Therapy in HER2+ Breast Cancer
Authors: Miglietta Federica , Ragazzi Moira , Fernandes Bethania , Griguolo Gaia , Massa Davide , Girardi Fabio , Bottosso Michele , Bisagni Alessandra , Zarrilli Giovanni , Porra Francesca , Iannaccone Daniela , Dore Leocadia , Gaudio Mariangela , Santandrea Giacomo , Fassan Matteo , Lo Mele Marcello , De Sanctis Rita , Zambelli Alberto , Bisagni Giancarlo , Guarneri Valentina , Dieci Maria Vittoria
Published: July 2023

Supplementary Table 3 – Multivariate Cox analysis for disease-free survival (DFS) in patients with residual disease (RD) after surgery
Supplementary Figure 2 from A Prognostic Model Based on Residual Cancer Burden and Tumor-Infiltrating Lymphocytes on Residual Disease after Neoadjuvant Therapy in HER2+ Breast Cancer
Authors: Miglietta Federica , Ragazzi Moira , Fernandes Bethania , Griguolo Gaia , Massa Davide , Girardi Fabio , Bottosso Michele , Bisagni Alessandra , Zarrilli Giovanni , Porra Francesca , Iannaccone Daniela , Dore Leocadia , Gaudio Mariangela , Santandrea Giacomo , Fassan Matteo , Lo Mele Marcello , De Sanctis Rita , Zambelli Alberto , Bisagni Giancarlo , Guarneri Valentina , Dieci Maria Vittoria
Published: July 2023

Supplementary Figure 2 – Association between baseline TILs and pCR in: 2a) the overall cohort and 2b) the cohort of patients receiving taxane-only neoadjuvant chemotherapy (plus anti-HER2 treatment).
Supplementary Figure 1 from A Prognostic Model Based on Residual Cancer Burden and Tumor-Infiltrating Lymphocytes on Residual Disease after Neoadjuvant Therapy in HER2+ Breast Cancer
Authors: Miglietta Federica , Ragazzi Moira , Fernandes Bethania , Griguolo Gaia , Massa Davide , Girardi Fabio , Bottosso Michele , Bisagni Alessandra , Zarrilli Giovanni , Porra Francesca , Iannaccone Daniela , Dore Leocadia , Gaudio Mariangela , Santandrea Giacomo , Fassan Matteo , Lo Mele Marcello , De Sanctis Rita , Zambelli Alberto , Bisagni Giancarlo , Guarneri Valentina , Dieci Maria Vittoria
Published: July 2023

Supplementary Figure 1 - Kaplan–Meier curves of overall survival according to RCB classes and RD-TILs.
Data from Estrogen therapy induces receptor-dependent DNA damage enhanced by PARP inhibition in ER+ breast cancer
Authors: Traphagen Nicole A. , Schwartz Gary N. , Tau Steven , Roberts Alyssa M. , Jiang Amanda , Hosford Sarah R. , Marotti Jonathan D. , Goen Abigail E. , Romo Bianca A. , Johnson Anneka L. , Duffy Emily-Claire K. , Demidenko Eugene , Heverly Paul , Mosesson Yaron , Soucy Shannon M. , Kolling Fred , Miller Todd W.
Published: July 2023

Abstract
Purpose: Clinical evidence indicates that treatment with estrogens elicits anti-cancer effects in ~30% of patients with advanced endocrine-resistant estrogen receptor alpha (ER)-positive breast cancer. Despite the proven efficacy of estrogen therapy, its mechanism of action is unclear and this treatment remains under-utilized. Mechanistic understanding may offer strategies to enhance therapeutic efficacy. Experimental Design: We performed genome-wide CRISPR/Cas9 screening and transcriptomic profiling in long-term estrogen-deprived (LTED) ER+ breast cancer cells to identify pathways required for therapeutic response to the estrogen 17b-estradiol (E2). We validated findings in cell lines, patient-derived xenografts (PDXs), and patient samples, and developed a novel combination treatment through testing in cell lines and PDX models. Results: Cells treated with E2 exhibited replication-dependent markers of DNA damage and the DNA damage response prior to apoptosis. Such DNA damage was partially driven by the formation of DNA:RNA hybrids (R-loops). Pharmacological suppression of the DNA damage response via poly(ADP-ribose) polymerase (PARP) inhibition with olaparib enhanced E2-induced DNA damage. PARP inhibition synergized with E2 to suppress growth and prevent tumor recurrence in BRCA1/2-mutant and BRCA1/2-wild-type cell line and PDX models. Conclusions: E2-induced ER activity drives DNA damage and growth inhibition in endocrine-resistant breast cancer cells. Inhibition of the DNA damage response using drugs such as PARP inhibitors can enhance therapeutic response to E2. These findings warrant clinical exploration of the combination of E2 with DNA damage response inhibitors in advanced ER+ breast cancer, and suggest that PARP inhibitors may synergize with therapeutics that exacerbate transcriptional stress.
Use of Payload Binding Selectivity Enhancers to Improve Therapeutic Index of Maytansinoid–Antibody–Drug Conjugates
Authors: Nguyen Toan D. , Bordeau Brandon M. , Balthasar Joseph P.
Published: July 2023

Systemic exposure to released cytotoxic payload contributes to the dose-limiting off-target toxicities of anticancer antibody–drug conjugates (ADC). In this work, we present an “inverse targeting” strategy to optimize the therapeutic selectivity of maytansinoid-conjugated ADCs. Several anti-maytansinoid sdAbs were generated via phage-display technology with binding IC50 values between 10 and 60 nmol/L. Co-incubation of DM4 with the anti-maytansinoid sdAbs shifted the IC50 value of DM4 up to 250-fold. Tolerability and efficacy of 7E7-DM4 ADC, an anti-CD123 DM4-conjugated ADC, were assessed in healthy and in tumor-bearing mice, with and without co-administration of an anti-DM4 sdAb. Co-administration with anti-DM4 sdAb reduced 7E7-DM4–induced weight loss, where the mean values of percentage weight loss at nadir for mice receiving ADC+saline and ADC+sdAb were 7.9% ± 3% and 3.8% ± 1.3% (P < 0.05). In tumor-bearing mice, co-administration of the anti-maytansinoid sdAb did not negatively affect the efficacy of 7E7-DM4 on tumor growth or survival following dosing of the ADC at 1 mg/kg (P = 0.49) or at 10 mg/kg (P = 0.9). Administration of 7E7-DM4 at 100 mg/kg led to dramatic weight loss, with 80% of treated mice succumbing to toxicity before the appearance of mortality relating to tumor growth in control mice. However, all mice receiving co-dosing of 100 mg/kg 7E7-DM4 with anti-DM4 sdAb were able to tolerate the treatment, which enabled reduction in tumor volume to undetectable levels and to dramatic improvements in survival. In summary, we have demonstrated the utility and feasibility of the application of anti-payload antibody fragments for inverse targeting to improve the selectivity and efficacy of anticancer ADC therapy.
Figure S7 from TRIM50 Inhibits Gastric Cancer Progression by Regulating the Ubiquitination and Nuclear Translocation of JUP
Authors: Hu Jiajia , Huang Runjie , Liang Chengcai , Wang Yingnan , Wang Min , Chen Yanxing , Wu Chenyi , Zhang Jinling , Liu Zekun , Zhao Qi , Liu Zexian , Wang Feng , Yuan Shuqiang
Published: July 2023

Figure S7: TOPFLASH analysis of JUP in TRIM50 overexpressing versus control empty vector 293T cells.
Figure S6 from TRIM50 Inhibits Gastric Cancer Progression by Regulating the Ubiquitination and Nuclear Translocation of JUP
Authors: Hu Jiajia , Huang Runjie , Liang Chengcai , Wang Yingnan , Wang Min , Chen Yanxing , Wu Chenyi , Zhang Jinling , Liu Zekun , Zhao Qi , Liu Zexian , Wang Feng , Yuan Shuqiang
Published: July 2023

Figure S6: Immunoblotting analysis of JUP in TRIM50 overexpressing versus control empty vector MKN45 cells.
Figure S5 from TRIM50 Inhibits Gastric Cancer Progression by Regulating the Ubiquitination and Nuclear Translocation of JUP
Authors: Hu Jiajia , Huang Runjie , Liang Chengcai , Wang Yingnan , Wang Min , Chen Yanxing , Wu Chenyi , Zhang Jinling , Liu Zekun , Zhao Qi , Liu Zexian , Wang Feng , Yuan Shuqiang
Published: July 2023

Figure S5: 293T cells were transfected with Myc-TRIM50 plasmid, Flag-JUP plasmid and HA-Ub plasmid, whole-cell lysates were subjected to SDS denaturation and immunoprecipitation with JUP antibody and immunoblot analysis with the indicated antibodies.
Supplementary Figure 6 from Hierarchical Phosphorylation of HOXB13 by mTOR Dictates Its Activity and Oncogenic Function in Prostate Cancer
Authors: Chen Yonghong , Dufour Catherine R. , Han Lingwei , Li Ting , Xia Hui , Giguère Vincent
Published: July 2023

Supplementary Figure 6 (Panels 1-11). Uncropped blots.
Supplementary Tables S1-S12 from Integrated Multi-omics Analysis of Early Lung Adenocarcinoma Links Tumor Biological Features with Predicted Indolence or Aggressiveness
Authors: Senosain Maria-Fernanda , Zou Yong , Patel Khushbu , Zhao Shilin , Coullomb Alexis , Rowe Dianna J. , Lehman Jonathan M. , Irish Jonathan M. , Maldonado Fabien , Kammer Michael N. , Pancaldi Vera , Lopez Carlos F.
Published: July 2023

Supplementary tables
Table S2 from Proteogenomic Approaches for the Identification of NF1/Neurofibromin-depleted Estrogen Receptor–positive Breast Cancers for Targeted Treatment
Authors: Kim Beom-Jun , Zheng Ze-Yi , Lei Jonathan T. , Holt Matthew V. , Chen Anran , Peng Jianheng , Fandino Diana , Singh Purba , Kennedy Hilda , Dou Yongchao , Chica-Parrado María del Rosario , Bikorimana Emmanuel , Ye Dan , Wang Yunguan , Hanker Ariella B. , Mohamed Nada , Hilsenbeck Susan G. , Lim Bora , Asirvatham Jaya Ruth , Sreekumar Arun , Zhang Bing , Miles George , Anurag Meenakshi , Ellis Matthew J. , Chang Eric C.
Published: July 2023

Table S2. Correlations between kinase levels as determined by KIPA and NF1 status in the POL cohort.
FIGURE 3 from Integrated Multi-omics Analysis of Early Lung Adenocarcinoma Links Tumor Biological Features with Predicted Indolence or Aggressiveness
Authors: Senosain Maria-Fernanda , Zou Yong , Patel Khushbu , Zhao Shilin , Coullomb Alexis , Rowe Dianna J. , Lehman Jonathan M. , Irish Jonathan M. , Maldonado Fabien , Kammer Michael N. , Pancaldi Vera , Lopez Carlos F.
Published: July 2023

Transcriptomic analysis of LUAD highlights profiles associated with risk stratification. A, Volcano plots for indolent versus aggressive, indolent versus intermediate, and intermediate versus aggressive tumors, showing DEGs by fold change (FC) and P value. Cutoffs are log2FC> |1.5| and P < 0.05 GSEA with Hallmark (B) and REACTOME (C) databases for indolent versus aggressive, indolent versus intermediate, and intermediate versus aggressive tumors. Purple icon indicates pathways upregulated in both indolent and aggressive tumors when compared with intermediate.
FIGURE 1 from Integrated Multi-omics Analysis of Early Lung Adenocarcinoma Links Tumor Biological Features with Predicted Indolence or Aggressiveness
Authors: Senosain Maria-Fernanda , Zou Yong , Patel Khushbu , Zhao Shilin , Coullomb Alexis , Rowe Dianna J. , Lehman Jonathan M. , Irish Jonathan M. , Maldonado Fabien , Kammer Michael N. , Pancaldi Vera , Lopez Carlos F.
Published: July 2023

Summary of LUAD datasets and study workflow. A, Heat map showing the tissue-based datasets included in this study (rows) by patient (columns) where red means data have been collected for that specific patient and gray that it has not. The bars above the heat map correspond to the number of datasets collected for each patient. The bottom annotation shows some clinical characteristics of the patient cohort. B, Study workflow. Left, For each patient (n = 92), the CT scan taken closest to the day of surgery was retrieved. These were used (i) to calculate the SILA score and stratify the patients; and (ii) to extract a numeric matrix with their radiomics features using the HealthMyne software. Right, When tissue was available for these patients, as described in A, from fresh frozen tissue we collected bulk datasets (in blue) such as RNA-seq and WES, and from single-cell suspension we collected single-cell datasets (in purple) such as CyTOF and single-cell RNA-seq.
Figure S3 from Proteogenomic Approaches for the Identification of NF1/Neurofibromin-depleted Estrogen Receptor–positive Breast Cancers for Targeted Treatment
Authors: Kim Beom-Jun , Zheng Ze-Yi , Lei Jonathan T. , Holt Matthew V. , Chen Anran , Peng Jianheng , Fandino Diana , Singh Purba , Kennedy Hilda , Dou Yongchao , Chica-Parrado María del Rosario , Bikorimana Emmanuel , Ye Dan , Wang Yunguan , Hanker Ariella B. , Mohamed Nada , Hilsenbeck Susan G. , Lim Bora , Asirvatham Jaya Ruth , Sreekumar Arun , Zhang Bing , Miles George , Anurag Meenakshi , Ellis Matthew J. , Chang Eric C.
Published: July 2023

Figure S3. Proteogenomic analyses of key biomarkers in the PDXs selected for treatment.
Figure S2 from Proteogenomic Approaches for the Identification of NF1/Neurofibromin-depleted Estrogen Receptor–positive Breast Cancers for Targeted Treatment
Authors: Kim Beom-Jun , Zheng Ze-Yi , Lei Jonathan T. , Holt Matthew V. , Chen Anran , Peng Jianheng , Fandino Diana , Singh Purba , Kennedy Hilda , Dou Yongchao , Chica-Parrado María del Rosario , Bikorimana Emmanuel , Ye Dan , Wang Yunguan , Hanker Ariella B. , Mohamed Nada , Hilsenbeck Susan G. , Lim Bora , Asirvatham Jaya Ruth , Sreekumar Arun , Zhang Bing , Miles George , Anurag Meenakshi , Ellis Matthew J. , Chang Eric C.
Published: July 2023

Figure S2. Binimetinib and fulvestrant inhibited the intended targets in the two PDXs that
did not regress after treatment.
FIGURE 5 from Proteogenomic Approaches for the Identification of NF1/Neurofibromin-depleted Estrogen Receptor–positive Breast Cancers for Targeted Treatment
Authors: Kim Beom-Jun , Zheng Ze-Yi , Lei Jonathan T. , Holt Matthew V. , Chen Anran , Peng Jianheng , Fandino Diana , Singh Purba , Kennedy Hilda , Dou Yongchao , Chica-Parrado María del Rosario , Bikorimana Emmanuel , Ye Dan , Wang Yunguan , Hanker Ariella B. , Mohamed Nada , Hilsenbeck Susan G. , Lim Bora , Asirvatham Jaya Ruth , Sreekumar Arun , Zhang Bing , Miles George , Anurag Meenakshi , Ellis Matthew J. , Chang Eric C.
Published: July 2023

Assess the impact of NF1 protein levels on treatment responses in PDX models. A, IHC was performed on indicated PDX models with varying degrees of NF1 levels. B, Palbociclib-bead pulldown was performed on the selected PDX tumors and NF1 was quantified by SureQuant. Data were normalized by TIC (see Materials and Methods) and shown as orange circles. Median NF1 levels in this cohort is marked by a solid line, while 75% and 25% quartile NF1 levels are marked by blue and red dotted lines, respectively. H-scores (which incorporate both staining intensity and proportion into a continuous semiquantitative score ranging 0–300) for NF1 IHC are shown as light gray bars. C, Tumors were first treated by fulvestrant after reaching a size of 200 mm3 before binimetinib was later added, as marked by a red arrow (+B). Treatment withdrawn from WHIM24 was marked by a green arrow. Tumor sizes are average ± SEM. N = 9 mice/arm.
FIGURE 3 from Proteogenomic Approaches for the Identification of NF1/Neurofibromin-depleted Estrogen Receptor–positive Breast Cancers for Targeted Treatment
Authors: Kim Beom-Jun , Zheng Ze-Yi , Lei Jonathan T. , Holt Matthew V. , Chen Anran , Peng Jianheng , Fandino Diana , Singh Purba , Kennedy Hilda , Dou Yongchao , Chica-Parrado María del Rosario , Bikorimana Emmanuel , Ye Dan , Wang Yunguan , Hanker Ariella B. , Mohamed Nada , Hilsenbeck Susan G. , Lim Bora , Asirvatham Jaya Ruth , Sreekumar Arun , Zhang Bing , Miles George , Anurag Meenakshi , Ellis Matthew J. , Chang Eric C.
Published: July 2023

NF1 binds palbociclib-conjugated bead directly. A, Reference cell lysate known to contain up to 93% of kinases in human genome (see Materials and Methods; ref. 16) was incubated with beads conjugated to indicated single kinase inhibitor. A heat map was generated to show protein levels (iBAQ) on the bead as measured by MS. B, Purified NF1 was incubated with abemaciclib or palbociclib conjugated beads and the bound NF1 was analyzed by MS (left) or by gel electrophoresis after Flamingo staining (right). SecPH domain from NF1 was examined as the negative control. C, Full-length and truncated NF1 proteins were pulled down by drug-conjugated beads and analyzed by gel electrophoresis as in B. D, Purified NF1 (500 ng) was incubated with palbociclib beads and digested by trypsin. The products were serially diluted (1:10) before SureQuant.
FIGURE 2 from Proteogenomic Approaches for the Identification of NF1/Neurofibromin-depleted Estrogen Receptor–positive Breast Cancers for Targeted Treatment
Authors: Kim Beom-Jun , Zheng Ze-Yi , Lei Jonathan T. , Holt Matthew V. , Chen Anran , Peng Jianheng , Fandino Diana , Singh Purba , Kennedy Hilda , Dou Yongchao , Chica-Parrado María del Rosario , Bikorimana Emmanuel , Ye Dan , Wang Yunguan , Hanker Ariella B. , Mohamed Nada , Hilsenbeck Susan G. , Lim Bora , Asirvatham Jaya Ruth , Sreekumar Arun , Zhang Bing , Miles George , Anurag Meenakshi , Ellis Matthew J. , Chang Eric C.
Published: July 2023

Detection of NF1 by a MS-based approach (KIPA) after pulldown by beads conjugated to kinase inhibitors. A,NF1 mRNA was determined by RNA-seq, while NF1 protein levels (iBAQ, the sum of all the peptides intensities divided by the number of theoretical peptides from the protein) was quantified by KIPA. Correlation coefficient and P value were determined by Pearson correlation. NF1 copy-number status was as described in Fig. 1. B, Protein correlation with NF1 protein kinase levels as determined by KIPA in PDXs. P values and R were determined by a linear regression model. C, Volcano plot shows differences in protein abundance as log2FC (fold change) in baseline POL samples that were stratified into NF1-low versus NF1-high groups. The heat map shows relative levels of indicated proteins. P values determined by Student t test.
Supplementary Figure S8 from Natural killer cell activation by Ubiquitin-specific protease 6 (USP6) mediates tumor suppression in Ewing sarcoma
Authors: Jain Kanika , Henrich Ian C , Quick Laura , Young Robert , Mondal Shreya , Oliveira Andre M. , Blobel Gerd A. , Chou Margaret M
Published: July 2023

Gating strategy for immune lineages in abscopal response experiment
Supplementary Figure S7 from Natural killer cell activation by Ubiquitin-specific protease 6 (USP6) mediates tumor suppression in Ewing sarcoma
Authors: Jain Kanika , Henrich Ian C , Quick Laura , Young Robert , Mondal Shreya , Oliveira Andre M. , Blobel Gerd A. , Chou Margaret M
Published: July 2023

Gating strategy for myeloid lineages in peripheral blood
Supplementary Figure S5 from Natural killer cell activation by Ubiquitin-specific protease 6 (USP6) mediates tumor suppression in Ewing sarcoma
Authors: Jain Kanika , Henrich Ian C , Quick Laura , Young Robert , Mondal Shreya , Oliveira Andre M. , Blobel Gerd A. , Chou Margaret M
Published: July 2023

Paracrine feedforward loop between NK and USP6-A673 cells
Data from Integrated Multi-omics Analysis of Early Lung Adenocarcinoma Links Tumor Biological Features with Predicted Indolence or Aggressiveness
Authors: Senosain Maria-Fernanda , Zou Yong , Patel Khushbu , Zhao Shilin , Coullomb Alexis , Rowe Dianna J. , Lehman Jonathan M. , Irish Jonathan M. , Maldonado Fabien , Kammer Michael N. , Pancaldi Vera , Lopez Carlos F.
Published: July 2023

Lung adenocarcinoma (LUAD) is a heterogeneous group of tumors associated with different survival rates, even when detected at an early stage. Here, we aim to investigate the biological determinants of early LUAD indolence or aggressiveness using radiomics as a surrogate of behavior. We present a set of 92 patients with LUAD with data collected across different methodologies. Patients were risk-stratified using the CT-based Score Indicative of Lung cancer Aggression (SILA) tool (0 = least aggressive, 1 = most aggressive). We grouped the patients as indolent (x ≤ 0.4, n = 14), intermediate (0.4 > x ≤ 0.6, n = 27), and aggressive (0.6 > x ≤ 1, n = 52). Using Cytometry by time of flight (CyTOF), we identified subpopulations with high HLA-DR expression that were associated with indolent behavior. In the RNA sequencing (RNA-seq) dataset, pathways related to immune response were associated with indolent behavior, while pathways associated with cell cycle and proliferation were associated with aggressive behavior. We extracted quantitative radiomics features from the CT scans of the patients. Integrating these datasets, we identified four feature signatures and four patient clusters that were associated with survival. Using single-cell RNA-seq, we found that indolent tumors had significantly more T cells and less B cells than aggressive tumors, and that the latter had a higher abundance of regulatory T cells and Th cells. In conclusion, we were able to uncover a correspondence between radiomics and tumor biology, which could improve the discrimination between indolent and aggressive LUAD tumors, enhance our knowledge in the biology of these tumors, and offer novel and personalized avenues for intervention.
Significance:
This study provides a comprehensive profiling of LUAD indolence and aggressiveness at the biological bulk and single-cell levels, as well as at the clinical and radiomics levels. This hypothesis generating study uncovers several potential future research avenues. It also highlights the importance and power of data integration to improve our systemic understanding of LUAD and to help reduce the gap between basic science research and clinical practice.
Data from Natural killer cell activation by Ubiquitin-specific protease 6 (USP6) mediates tumor suppression in Ewing sarcoma
Authors: Jain Kanika , Henrich Ian C , Quick Laura , Young Robert , Mondal Shreya , Oliveira Andre M. , Blobel Gerd A. , Chou Margaret M
Published: July 2023

Abstract
Ewing sarcoma (ES) is a rare and deadly pediatric bone cancer for which survival rates and treatment options have stagnated for decades. ES has not benefited from immunotherapy due to poor understanding of how its immune landscape is regulated. We recently reported that Ubiquitin-Specific Protease 6 (USP6) functions as a tumor suppressor in ES, and identified it as the first cell-intrinsic factor to modulate the ES immune tumor microenvironment (TME). USP6 induces intratumoral infiltration and activation of multiple innate immune lineages in xenografted nude mice. Here we report that natural killer (NK) cells are essential for its tumor-inhibitory functions, as NK cell depletion reverses USP6-mediated suppression of ES xenograft growth. USP6 expression in ES cells directly stimulates NK cell activation and degranulation in vitro, and functions by increasing surface levels of multiple NK-activating ligands. USP6 also induces surface upregulation of the receptor for the apoptosis-inducing ligand TRAIL, providing an additional route for enhanced sensitivity to NK killing. Furthermore, USP6-expressing ES and NK cells participate in a paracrine immunostimulatory feedforward loop, wherein interferon-gamma secreted by activated NK cells feeds back on USP6/ES cells to induce synergistic expression of chemokines CXCL9 and CXCL10. Remarkably, expression of USP6 in subcutaneous ES xenografts induces systemic activation and maturation of NK cells, and induces an abscopal response in which growth of distal tumors is inhibited, coincident with increased infiltration and activation of NK cells. This work reveals how USP6 reprograms the ES TME to enhance anti-tumor immunity, and may be exploited for future therapeutic benefit.
Sampling of Thoracic Lymph Nodes and Lung Lesions: Trends in Procedural Utilization
Authors: Wahidi Momen M. , Lee Sonia , Cramer Geri R. , Cangelosi Michael J.
Published: July 2023

Background: Advances in bronchoscopy have impacted the practice patterns in the sampling of thoracic lymph nodes and lung lesions. Objectives: The aim of the study was to study the trends in utilization of mediastinoscopy, transthoracic needle aspiration (TTNA), and bronchoscopic transbronchial sampling. Methods: We conducted an analysis of patient claims for sampling of thoracic lymph nodes and lung lesions in the Medicare population and a sample of the commercial population between 2016 and 2020. We used Current Procedural Terminology codes to identify mediastinoscopy, TTNA, and bronchoscopic transbronchial sampling. Post-procedural pneumothorax rates were assessed by procedure type including subset analyses for patients with chronic obstructive pulmonary disease (COPD). Results: Between 2016 and 2020, utilization of mediastinoscopy has decreased in both the Medicare and commercial populations (−47.3% and −65.4%, respectively), while linear endobronchial ultrasound (EBUS)-guided transbronchial needle aspiration (TBNA) has increased only in the Medicare population (+28.2%). Percutaneous lung biopsy claims dropped by −17.0% in the Medicare and −41.22% in the commercial population. The use of bronchoscopic TBNA and forceps biopsy declined in both populations, but the reliance on a combination of guided technology (radial EBUS-guided and navigation) grew in the Medicare and commercial populations (+76.3% and +25%). Rates of post-procedural pneumothorax were significantly higher following percutaneous biopsy compared to bronchoscopic transbronchial biopsy. Conclusions: Linear EBUS-guided sampling has surpassed mediastinoscopy as the technique for sampling thoracic lymph nodes. Transbronchial lung sampling is increasingly being performed with guidance technology. This trend is aligned with favorable rates of post-procedure pneumothorax for transbronchial biopsy.
Pediatric Glioma Models Provide Insights into Tumor Development and Future Therapeutic Strategies
Authors: Foss Amelia , Pathania Manav
Published: July 2023

In depth study of pediatric gliomas has been hampered due to difficulties in accessing patient tissue and a lack of clinically representative tumor models. Over the last decade, however, profiling of carefully curated cohorts of pediatric tumors has identified genetic drivers that molecularly segregate pediatric gliomas from adult gliomas. This information has inspired the development of a new set of powerful in vitro and in vivo tumor models that can aid in identifying pediatric-specific oncogenic mechanisms and tumor microenvironment interactions. Single-cell analyses of both human tumors and these newly developed models have revealed that pediatric gliomas arise from spatiotemporally discrete neural progenitor populations in which developmental programs have become dysregulated. Pediatric high-grade gliomas also harbor distinct sets of co-segregating genetic and epigenetic alterations, often accompanied by unique features within the tumor microenvironment. The development of these novel tools and data resources has led to insights into the biology and heterogeneity of these tumors, including identification of distinctive sets of driver mutations, developmentally restricted cells of origin, recognizable patterns of tumor progression, characteristic immune environments, and tumor hijacking of normal microenvironmental and neural programs. As concerted efforts have broadened our understanding of these tumors, new therapeutic vulnerabilities have been identified, and for the first time, promising new strategies are being evaluated in the preclinical and clinical settings. Even so, dedicated and sustained collaborative efforts are necessary to refine our knowledge and bring these new strategies into general clinical use. In this review, we will discuss the range of currently available glioma models, the way in which they have each contributed to recent developments in the field, their benefits and drawbacks for addressing specific research questions, and their future utility in advancing biological understanding and treatment of pediatric glioma.
International student experience in Indonesia and public diplomacy consequences: Governance of Darmasiswa program
Authors: Sutjipto Aldila Maharani , Pinariya Janette Maria , Suwana Fiona
Published: July 2023

This study discussed Darmasiswa program as Indonesia’s public diplomacy effort in the educational fields conducted by the Republic Indonesia Ministry of Education, Culture, Research, and Technology (Kemendikbud RI). Despite its vast opportunities, Indonesia still has difficulties attracting international students compared to various neighboring countries. By analyzing the seven pillars of public diplomacy, supported by international communication and industry 4.0 concept, this study showed that Kemendikbud has considered the seven pillars in public diplomacy in conducting public diplomacy efforts. It is found that Darmasiswa is a state-directed effort designed to enhance favorable international relations through the student movement’s positive experience. The strategy is formed by uses various types of communication channels that support each other’s. The message is also processed by involving policy and rationality by prioritizing consistent, truthful, and credible as part of the main elements. Besides, they form strategies by maximizing cooperation with various parties. In Kemendikbud, the program undertakes audience research and actors from 1st and 2nd track diplomacy as part of its tactics. The program also found that public diplomacy in Darmasiswa program has acknowledged changes in the 4.0 era through new media usage. However, there are still many challenges encountered in the performance of the seven pillars.
An investigation of emotional intelligence and counselling self-efficacy among counsellors-in-training
Authors: Mohd Nasir Mohd Azrin , Mat Ali Nor Atikah , Aziz Abdul Rashid Abdul , Ismail Suzila , Mohd Faudzi Farah Nadia
Published: July 2023

The challenges faced by the counsellors-in-training are enormous. Therefore, investigating emotional quotient (EQ) and counselling self-efficacy among counsellors-in-training is crucial. This study aimed to examine the EQ and counselling self-efficacy levels among counsellors-in-training and investigate the relationships between these variables. A total of 373 counselling students from three universities in the Northern Peninsular of Malaysia have participated in this study. This study involved a quantitative method using survey as a data collection technique and also employed a convenience sampling procedure. There were two questionnaires used in this study, namely Bar-On emotional quotient inventory (EQ-i) and counselling self-estimate inventory. The results showed that there was a significant correlation between EQ and counselling self-efficacy which all sub-constructs for both measures are well-associated with each other. In conclusion, these two variables are essential to ensure counselling students would move toward a better developing identity of counsellors-in-training and encourage the growth of professional competency among trainee counsellors in the future. Hence, it is vital for the government to ensure that quality counselling services should be provided for the community to deal with this problem.
Exploring the influence of student leadership on self-resilience for national secondary school students in Malaysia
Authors: Fauzi Noorhazlina Fairuz , Don Yahya , Yusof Mat Rahimi
Published: July 2023

Students are the backbone to future leadership and the catalyst for the success of a country. Hence, student leadership with high self-resilience should be shaped and built as early as possible. Student leaders with low self-resilience will portray negative feelings and not able to play a full role. To identify student leadership practices and their relationship with national secondary school students’ resilience in the eastern zone states of Malaysia, this quantitative survey study used questionnaires adapted from the inventory of student leadership practices (S-LPI) to measure the dimensions of student leadership on 394 students selected through cluster random sampling while a self-resilience questionnaire was used to measure students’ level of self-resilience. Using the statistical package for social science (SPSS) version 26 for descriptive data and partial least squares structural equation modelling (PLS-SEM 3) for inferential statistics, the results showed that the dimensions of inspire a shared vision, challenge a processes and enable to act were dimensions of student leadership practices that had significantly affected self-resilience while student leadership practices with flexible, orderly self-resilience and prioritizing social relationships in organizations were factors for shaping future leaders.
Creative reality counseling model: Acceptability and effectiveness at improving self-regulated learning
Authors: Purwadi Purwadi , Saputra Wahyu Nanda Eka
Published: July 2023

Counselors use the reality counselling model to help counselees overcome their problems, including the problem of self-regulated learning. As professionals, it is necessary for them to identify the elements that can improve the success rate of this model. One of the elements is creative art, and its use in integration with the aforementioned model will form what is termed creative reality counseling model. The aim of this article was to identify the acceptability and effectiveness of the creative reality counseling model to improve self-regulated learning. Borg and Gall’s research and development design was a preferred design for this research, with the involvement of a total of five stages, namely: i) Problem identification;ii) Planning; iii) Product hypothesis drafting; iv) Expert and practitioner judgments; and v) Effectiveness testing. The acceptability of the product was analyzed using the interrater reliability Cohen’s kappa, while the effectiveness was identified using the Wilcoxon signed-rank test. The research results showed that the creative reality counseling model was acceptable and effective at improving students’ self-regulated learning. These results may offer alternative counseling good practices for counselors to develop students’ self-regulated learning.
Writing scientific articles for undergraduate students: A need analysis
Authors: Nisa Khairun , Ramadhan Syahrul , Thahar Harris Effendi
Published: July 2023

Excellent and appropriate teaching materials are based on the results of needs analysis. They significantly affect students’ ability to write scientific articles and increase their knowledge and understanding of scientific papers required by indexed and reputable journals. This article explores the target needs (i.e., necessities, lacks, and wants) for teaching materials based on accredited journal criteria for scientific article writing. The design used is a case study. The data were collected using a questionnaire about target needs based on the theory of Hutchinson and Waters, namely lacks, necessities, and wants, and a focus group interview. The results showed that students must learn about teaching materials to write scientific articles to improve their writing quality. Regarding the students’ lack of learning material for writing scientific articles, 85.53% indicated students’ lack of IMRAD or introduction, method, result and discussion, and conclusion format research articles. According to students’ perceptions, restating the research objective and approach and creating a research gap is the most difficult. Among 72 participants, 80% mentioned learning how to write based on the IMRAD format creating a research gap found to be the most critical skill they want to learn in the new course and then followed by summarizing and presenting data.
Individual student key performance using mobile web apps based on knowledge profile and cumulative grade point average
Authors: Khamis Aziah , Sulong Muhammad Suhaizan , Apandi Nur Ilyana Anwar , Alias Azrita
Published: July 2023

This study investigated the performance of individual students toward the knowledge profile and cumulative grade point average or known as CGPA. The proposal of this paper involves two major components. The first component is investigating the individual student performance based on the knowledge profile and CGPA. The performance of students from cohort 2017 for the program Bachelor of Electrical Engineering (BEKG) courses in the Faculty of Electrical Engineering, Universiti Teknikal Malaysia Melaka (UTeM) was used as the dataset. The case study separates into various groups (excellent, honors and pass). Secondly, the study proposed a responsive web application leveraging a Google Visualization Feature to self-check individual academic performance. The goal of this app is to assist users in evaluating individual student performance and assist management in planning for continual quality improvement using the web and mobile apps. The marketing segments include students, academics, university, and school administration for analysis and evaluate the individual student’s performance.
English speaking anxiety among English-major tertiary students in Ghana
Authors: Fenyi Daniel Arkoh , Kongo Angel Edward , Tabiri Michael Owusu , Jones-Mensah Ivy
Published: July 2023

The study explored the English-speaking anxiety of trainee teachers in the colleges of education in Ghana. It aimed at unravelling the causes of the speaking anxiety in the learners and proffering strategies to mitigate the causes of the speaking anxiety. For that purpose, qualitative data were collected from 30 English-major students who attend a college of education in the Western North region of Ghana using semi-structured interviews as the data collection instrument. The data were analyzed using inductive coding data analysis procedures and techniques, where the dominant patterns and themes emerging from the data were grouped and examined. The results showed that the major causes of speaking anxiety are inferiority complex, fear of committing mistakes, spontaneity and the lack of preparation, fear of negative evaluation from tutors and peers, limited knowledge and vocabulary in the language and self-criticism. The participants also indicated the strategies that can curb the problem, including creating a learner-friendly and less formal classroom environment, peer assessment, encouraging the use of more speaking activities in the classroom, positive evaluative feedback and resignation and avoidance. In line with these findings, the study recommended that future research could employ a quantitative approach to produce a more generalizable outcome.
Self-regulation, self-evaluation, and self-efficacy: How does its impact on employability?
Authors: Abdillah Muhamad Hasan , Tentama Fatwa , Widiana Herlina Siwi , Zurqoni Zurqoni
Published: July 2023

This study investigated whether self-regulation, self-evaluation, and self-efficacy can predict students’ employability levels, either simultaneously or partially. Researchers used class XII students of Muhammadiyah 1 Bambanglipuro Vocational High School, Indonesia with the criteria of having implemented industrial work practices (N=433) as research subjects. The sample consisted of 168 students obtained randomly by cluster sampling technique. Likert model scale as the main instrument in obtaining empiric data to answer the research hypothesis using multiple regression techniques with the help of the SPSS V.23 program. Based on the results of the analysis, it is known that self-regulation, self-evaluation, and self-efficacy have a very significant effect on the level of employability (F=134.28 and sig.=.000). Partially, each independent variable (self-regulation, self-evaluation, and self-efficacy) also has a very significant effect on employability with statistical values (t) obtained at 11.54, 3.24, 7.99 and sig. level of .000, .001, .000. These findings provide evidence that self-originating factors (self-regulation, self-evaluation, and self-efficacy) are sufficiently capable of increasing employability. Thus, it can be concluded that internal factors are one of the critical factors in predicting the employability of vocational students.
Android-based 4-tier physics test app to identify student misconception profiles
Authors: Astuti Irnin Agustina Dwi , Bhakti Yoga Budi , Prasetya Rendi , Zulherman Zulherman
Published: July 2023

Misconceptions in physics learning are still common at the upper school level. Misconceptions lead to low ability to understand students’ concepts in studying physics. Physics misconceptions experienced by students are difficult to detect. This study aimed to develop an Android-based assessment application with a four-tier diagnostics test instrument that can be used to detect student physics misconceptions early on. Product development is carried out by developing physics instruments for class X, XI, and XII levels and then developing an Android-based assessment application. The results showed that this application received a positive response from teachers and students. In addition, the application is able to detect physics misconceptions experienced by students.
Balancing privacy at the time of pandemic: global observation
Authors: Jordanoski Zoran , Ramos Luis Felipe M. , Zaber Moinul
Published: July 2023

The rapid outbreak of COVID-19 has initiated the development of mobile applications aiming at helping public health authorities to slow down viral diffusion. The proliferation of these applications engenders challenges to forge a balance between ‘public health utility’ and ‘personal privacy’. This paper scrutinizes various applications that collect personal data according to their functions and data protection compliance. These applications are mostly of three broader categories- contact tracing, self-assessment, and quarantine enforcement. We conduct systematic categorization based on five parameters-type of owner or provider, host platform, functionalities, the existence of privacy policy, and state of the source code. A total of 122 apps encompassing 83 countries were assessed during a research period of 20 days (June 1 to 20, 2020). Findings suggest that although the majority of the applications publish a privacy policy, many applications do not give information in detail, making the issue of privacy obscure. The majority of the applications collect various sensitive personal data irrespective of their functionalities, provider, and platform. Most applications are not open source raising concerns over trust and transparency. The findings are valuable to policymakers who are formulating short, mid, and long-term technology policies to strike a balance between functionality and personal privacy.
An increase of human immunodeficiency virus infection amongs blood donor during COVID-19 pandemic
Authors: Muflikhah Nina Difla , Nuraini Fatia Rizki
Published: July 2023

Human immunodeficiency virus (HIV) is a one of crucial concern to blood safety because of their prolonged presence in the blood. Unsafe blood transfusion from infected donor contribute to spread the virus as well. Indonesia health ministry reported that HIV infection increase significantly in 2019 to 2021, and HIV case diagnose in population still way from the prediction in 2020, only 78.7% cases reported from 90% prediction case. A retrospective cross-sectional study was conducted and collected 51,351 blood donors during COVID-19 pandemic, 2020-2021. Blood sample analyzed using serological methods to detect the present of HIV antibodies. A reactive result of HIV screening from 21,260 donor in 2020 showed 12 donors reactive (0.00056%), while in 2021 from 30,091 donor showed 42 donors reactive (0.142899%) and showed a significant different from 2020 and 2021 (p-value <0.05). The number of reactive donors increase numerously from 2020 to 2021, while total donor also increased. The level of social restriction has contribution of HIV reactive case among blood donor and showed from two years of pandemic with p-value <0.05. A significant increase of HIV infection among blood donor and the effect of restriction level to prevent COVID-19 transmission are clearly show in this study.
Structured educational app in improving self-care management in diabetes mellitus patients: systematic review
Authors: Karingga Devangga Darma , Efendi Ferry , Indarwati Retno , Bushy Angeline
Published: July 2023

Self-care management is a process that does not only develop over time but evolves along with the experience of the type of illness. Successful self-management of diabetes mellitus depends on self-care motivation and self-awareness, specifically designed to control symptoms and avoid complications. This systematic review uses telehealth intervention and smartphone-based applications for diabetes mellitus patients with randomized control trial, qualitative, and cross-sectional studies obtained from six databases. This review included inclusion and exclusion criteria established using population, intervention, comparison, outcomes and study (PICOS) framework, and then data were extracted, reviewed, and assessed using the Joanna Briggs Institute (JBI) tool. Seventeen selected articles that met the inclusion and exclusion criteria passed the selection through the selection process shown in the flow chart, which all research results show an impact on self-care management. The use of technology especially the applications, is very influential and effective in increasing knowledge and self-care management of diabetes mellitus patients. Besides that, it can also save operational costs in providing interventions for people with diabetes mellitus, but further research is needed to look at the sustainability of structured educational applications on health outcomes.
Social support and mental health among female employees: the moderating effect of age
Authors: Hamzah Hazalizah , Ramlee Fatanah , Perveen Asma , Mustapha Roslinda , Zulkifli Syara Shazanna
Published: July 2023

The association between social support and mental health at work has been widely established; nevertheless, notably among working women, the significance of age in that relationship remains controversial. This research used age as a moderator to determine mental health from social support. The Interpersonal Support Evaluation List–12 (ISEL-12) and the Mental Health Inventory–18 (MHI-18) was answered by 100 working women (Mage=41.20; SDage=9.80). A significant association between social support and mental health were reported but not between age and mental health. Age moderated the connection between social support and mental health. Younger women demonstrated greater mental health than older women in low-social support environments. With increasing social support, older working women reported better mental health. The findings of this study can be implemented by companies to develop and implement social support methods and policies to improve overall mental health in the workplace.
Container characteristics and density of Aedes aegypti larvae: a field trial of Ziziphus mauritiana leaf extract
Authors: Amaliyah Nurul , Fathmawati Fathmawati , Yulia Yulia , Hikmah Kholisotul
Published: July 2023

The application of larvicide from botanical origin was extensively studied as an essential part of mosquito prevention. This study aimed to assess the difference in container index (CI) based on the characteristics of water containers using Ziziphus mauritiana leaf extract solution. A quasi- experiment research was done among 300 selected containers with temephos as a control and 9% of Ziziphus mauritiana leaf extract solution as a treatment. The types of containers observed in this study were the type of water, container materials, location, container lids, and community behavior regarding immature Aedes aegypti breeding eradication. Water containers without lids and outside the house had a significantly higher CI among treatment (OR=26; 3.69–18.34; p=0.001 and OR=20; 2.04–19.64; p=0.003) and control group (OR= 10.83; 95% CI=1.96–59.83; p=0.005 and OR=6.43; 95% CI=1.02–40.26; p=0.04). Negative community behavior regarding the prevention and eradication of Aedes immatures was significantly associated with greater odds of high CI among treatment and control, with OR=37.5; 3.64–38.65; p=0.001 and OR=16.88; 2.56-11.4; p=0.002, respectively. Furthermore, containers with rainwater out of the treatment group had a higher presence of Aedes larvae (OR=11.25; 1.15–11.05; p=0.03).